today's data in MongoDB passes make-rdf

assets/other_mixs_yaml_files/mixs_slots_import_sheet.tsv

@@ -482,3 +482,4 @@ MimsSoil	https://raw.githubusercontent.com/GenomicsStandardsConsortium/mixs/v6.2
 MimsSoil	https://raw.githubusercontent.com/GenomicsStandardsConsortium/mixs/v6.2.0/src/mixs/schema/mixs.yaml			window_vert_pos	placeholder_class
 MimsSoil	https://raw.githubusercontent.com/GenomicsStandardsConsortium/mixs/v6.2.0/src/mixs/schema/mixs.yaml			window_water_mold	placeholder_class
 MimsSoil	https://raw.githubusercontent.com/GenomicsStandardsConsortium/mixs/v6.2.0/src/mixs/schema/mixs.yaml			xylene	placeholder_class
+MimsSoil	https://raw.githubusercontent.com/GenomicsStandardsConsortium/mixs/v6.2.0/src/mixs/schema/mixs.yaml			samp_collect_method	placeholder_class

assets/other_mixs_yaml_files/mixs_template.yaml

@@ -5,7 +5,6 @@ id: https://w3id.org/nmdc/mixs
 subsets:
   mixs_environmental_triad:
     title: MIxS Environmental Triad
-  mixs extension: { }
 
 notes:
   - removed several MIxS terms/slots that were sharing slot uris; commented out Biosample assignments

assets/yq-for-mixs_subset_modified.txt

@@ -1,28 +1,46 @@
+
+'.slots.abs_air_humidity.range |= "QuantityValue"'
 '.slots.agrochem_addition.range |= "TextValue"'
 '.slots.air_temp_regm.range |= "TextValue"'
+'.slots.ammonium.range |= "QuantityValue"'
 '.slots.antibiotic_regm.range |= "TextValue"'
 '.slots.aromatics_pc.range |= "TextValue"'
 '.slots.asphaltenes_pc.range |= "TextValue"'
 '.slots.atmospheric_data.range |= "TextValue"'
 '.slots.avg_occup.range |= "TextValue"'
+'.slots.avg_temp.range |= "QuantityValue"'
 '.slots.bathroom_count.range |= "TextValue"'
 '.slots.bedroom_count.range |= "TextValue"'
 '.slots.biocide_admin_method.range |= "TextValue"'
 '.slots.biomass.range |= "TextValue"'
+'.slots.calcium.range |= "QuantityValue"'
+'.slots.carb_nitro_ratio.range |= "QuantityValue"'
 '.slots.chem_administration.range |= "ControlledTermValue"'
 '.slots.chem_mutagen.range |= "TextValue"'
 '.slots.chem_treat_method.range |= "string"'
+'.slots.chloride.range |= "QuantityValue"'
+'.slots.chlorophyll.range |= "QuantityValue"'
 '.slots.collection_date.range |= "TimestampValue"'
+'.slots.conduc.range |= "QuantityValue"'
 '.slots.cool_syst_id.range |= "TextValue"'
+'.slots.cur_vegetation.range |= "QuantityValue"'
+'.slots.cur_vegetation.range |= "TextValue"'
 '.slots.date_last_rain.range |= "TimestampValue"'
+'.slots.depth.range |= "QuantityValue"'
 '.slots.diether_lipids.range |= "TextValue"'
+'.slots.diss_inorg_carb.range |= "QuantityValue"'
+'.slots.diss_inorg_nitro.range |= "QuantityValue"'
+'.slots.diss_iron.range |= "QuantityValue"'
+'.slots.diss_org_carb.range |= "QuantityValue"'
+'.slots.diss_oxygen.range |= "QuantityValue"'
 '.slots.elevator.range |= "TextValue"'
 '.slots.emulsions.range |= "TextValue"'
 '.slots.env_broad_scale.range |= "ControlledIdentifiedTermValue"'
 '.slots.env_local_scale.range |= "ControlledIdentifiedTermValue"'
-'.slots.env_medium.range |= "ControlledIdentifiedTermValue"' 
+'.slots.env_medium.range |= "ControlledIdentifiedTermValue"'
 '.slots.escalator.range |= "TextValue"'
 '.slots.exp_pipe.range |= "QuantityValue"'
+'.slots.experimental_factor.multivalued |= false'
 '.slots.experimental_factor.range |= "ControlledTermValue"'
 '.slots.ext_door.range |= "TextValue"'
 '.slots.extreme_event.range |= "TimestampValue"'
@@ -35,6 +53,7 @@
 '.slots.fungicide_regm.range |= "TextValue"'
 '.slots.gaseous_environment.range |= "TextValue"'
 '.slots.gaseous_substances.range |= "TextValue"'
+'.slots.gravidity.range |= "TextValue"'
 '.slots.gravity.range |= "TextValue"'
 '.slots.growth_facil.range |= "ControlledTermValue"'
 '.slots.growth_hormone_regm.range |= "TextValue"'
@@ -46,40 +65,52 @@
 '.slots.heat_system_id.range |= "TextValue"'
 '.slots.heavy_metals.range |= "TextValue"'
 '.slots.herbicide_regm.range |= "TextValue"'
+'.slots.host_age.range |= "QuantityValue"'
 '.slots.host_body_product.range |= "ControlledTermValue"'
 '.slots.host_body_site.range |= "ControlledTermValue"'
+'.slots.host_dry_mass.range |= "QuantityValue"'
+'.slots.host_height.range |= "QuantityValue"'
+'.slots.host_life_stage.range |= "TextValue"'
 '.slots.host_phenotype.range |= "ControlledTermValue"'
 '.slots.host_subspecf_genlin.range |= "string"'
 '.slots.host_symbiont.range |= "string"'
+'.slots.humidity.range |= "QuantityValue"'
 '.slots.humidity_regm.range |= "TextValue"'
 '.slots.inorg_particles.range |= "TextValue"'
 '.slots.iw_bt_date_well.range |= "TimestampValue"'
 '.slots.last_clean.range |= "TimestampValue"'
 '.slots.lat_lon.range |= "GeolocationValue"'
 '.slots.light_regm.range |= "TextValue"'
+'.slots.magnesium.range |= "QuantityValue"'
 '.slots.max_occup.range |= "QuantityValue"'
 '.slots.micro_biomass_meth.range |= "string"'
 '.slots.mineral_nutr_regm.range |= "TextValue"'
 '.slots.misc_param.range |= "TextValue"'
 '.slots.n_alkanes.range |= "TextValue"'
+'.slots.nitrate.range |= "QuantityValue"'
+'.slots.nitro.range |= "QuantityValue"'
 '.slots.non_min_nutr_regm.range |= "string"'
 '.slots.number_pets.range |= "QuantityValue"'
 '.slots.number_plants.range |= "QuantityValue"'
 '.slots.number_resident.range |= "QuantityValue"'
 '.slots.occup_density_samp.range |= "QuantityValue"'
 '.slots.occup_samp.range |= "QuantityValue"'
+'.slots.org_carb.range |= "QuantityValue"'
 '.slots.org_count_qpcr_info.range |= "string"'
 '.slots.org_particles.range |= "TextValue"'
 '.slots.organism_count.range |= "QuantityValue"'
 '.slots.particle_class.range |= "TextValue"'
 '.slots.permeability.range |= "TextValue"'
+'.slots.perturbation.range |= "TextValue"'
 '.slots.pesticide_regm.range |= "TextValue"'
 '.slots.phaeopigments.range |= "TextValue"'
 '.slots.phosplipid_fatt_acid.range |= "TextValue"'
+'.slots.photon_flux.range |= "QuantityValue"'
 '.slots.plant_growth_med.range |= "ControlledTermValue"'
 '.slots.plant_struc.range |= "ControlledTermValue"'
 '.slots.pollutants.range |= "TextValue"'
 '.slots.porosity.range |= "TextValue"'
+'.slots.potassium.range |= "QuantityValue"'
 '.slots.pres_animal_insect.range |= "string"'
 '.slots.prev_land_use_meth.range |= "string"'
 '.slots.prod_start_date.range |= "TimestampValue"'
@@ -106,23 +137,40 @@
 '.slots.samp_name.range |= "string"'
 '.slots.samp_preserv.range |= "TextValue"'
 '.slots.samp_room_id.range |= "TextValue"'
+'.slots.samp_size.range |= "QuantityValue"'
+'.slots.samp_store_temp.range |= "QuantityValue"'
 '.slots.samp_time_out.range |= "TextValue"'
 '.slots.samp_transport_cond.range |= "TextValue"'
 '.slots.samp_tvdss.range |= "TextValue"'
 '.slots.saturates_pc.range |= "TextValue"'
 '.slots.shad_dev_water_mold.range |= "string"'
 '.slots.sieving.range |= "TextValue"'
 '.slots.size_frac.range |= "TextValue"'
+'.slots.sodium.range |= "QuantityValue"'
 '.slots.soil_texture_meth.range |= "string"'
+'.slots.solar_irradiance.multivalued |= false'
+'.slots.solar_irradiance.range |= "QuantityValue"'
 '.slots.soluble_inorg_mat.range |= "TextValue"'
 '.slots.soluble_org_mat.range |= "TextValue"'
+'.slots.soluble_react_phosp.range |= "QuantityValue"'
+'.slots.source_mat_id.multivalued |= false'
+'.slots.source_mat_id.range |= "TextValue"'
+'.slots.store_cond.range |= "TextValue"'
+'.slots.sulfate.range |= "QuantityValue"'
 '.slots.suspend_solids.range |= "TextValue"'
+'.slots.temp.range |= "QuantityValue"'
+'.slots.tot_carb.range |= "QuantityValue"'
+'.slots.tot_nitro.range |= "QuantityValue"'
 '.slots.tot_nitro_cont_meth.range |= "string"'
+'.slots.tot_nitro_content.range |= "QuantityValue"'
+'.slots.tot_org_carb.range |= "QuantityValue"'
+'.slots.tot_phosp.range |= "QuantityValue"'
 '.slots.viscosity.range |= "TextValue"'
 '.slots.volatile_org_comp.range |= "TextValue"'
 '.slots.water_cont_soil_meth.range |= "string"'
 '.slots.water_temp_regm.range |= "TextValue"'
 '.slots.watering_regm.range |= "TextValue"'
+'.slots.wind_speed.range |= "QuantityValue"'
 '.slots.window_open_freq.range |= "TextValue"'
 '.slots.window_size.range |= "TextValue"'
 
@@ -166,3 +214,25 @@ make: *** [Makefile:102: gen-project] Error 1
 '.slots.water_content.range |= "string"'
 
 'del(.slots[].required)'
+'del(.slots[].in_subset)'
+'del(.subsets)'
+
+'.slots.samp_collec_method = .slots.samp_collect_method'
+'.slots.samp_collec_method.notes += "cloned from MIxS 6.2 samp_collect_method"'
+'del(.slots.samp_collect_method)'
+'.slots.samp_collec_method.range |= "string"'
+'del(.slots.samp_collec_method.pattern)'
+'del(.slots.samp_collec_method.structured_pattern)'
+
+'.slots.samp_collec_device = .slots.samp_collect_device'
+'.slots.samp_collec_device.notes += "cloned from MIxS 6.2 samp_collect_device"'
+'del(.slots.samp_collect_device)'
+'.slots.samp_collec_device.range |= "string"'
+'del(.slots.samp_collec_device.pattern)'
+'del(.slots.samp_collec_device.structured_pattern)'
+
+'del(.slots.micro_biomass_meth.pattern)'
+'del(.slots.micro_biomass_meth.structured_pattern)'
+
+'del(.slots.water_content.pattern)'
+'del(.slots.water_content.structured_pattern)'