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Update obo_context.jsonld #33

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57 changes: 48 additions & 9 deletions registry/obo_context.jsonld
Original file line number Diff line number Diff line change
Expand Up @@ -5,7 +5,9 @@
"AEO": "http://purl.obolibrary.org/obo/AEO_",
"AERO": "http://purl.obolibrary.org/obo/AERO_",
"AGRO": "http://purl.obolibrary.org/obo/AGRO_",
"AMPHX": "http://purl.obolibrary.org/obo/AMPHX_",
"APO": "http://purl.obolibrary.org/obo/APO_",
"APOLLO_SV": "http://purl.obolibrary.org/obo/APOLLO_SV_",
"ARO": "http://purl.obolibrary.org/obo/ARO_",
"ATO": "http://purl.obolibrary.org/obo/ATO_",
"BCGO": "http://purl.obolibrary.org/obo/BCGO_",
Expand All @@ -20,14 +22,20 @@
"CEPH": "http://purl.obolibrary.org/obo/CEPH_",
"CHEBI": "http://purl.obolibrary.org/obo/CHEBI_",
"CHEMINF": "http://purl.obolibrary.org/obo/CHEMINF_",
"CHIRO": "http://purl.obolibrary.org/obo/CHIRO_",
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@cthoyt cthoyt Feb 9, 2021

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there are no terms in CHIRO that could be resolved by this prefix. Should there still be an entry for this? I'm curating which entries in OBO Foundry don't have any own terms in Bioregistry, so you could leverage that (there are a few other examples)

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This context is autogenerated by the OBO foundry from its ontologies - even if we don't have any terms right now, we would not know whether there are not any in the future, so we reserve the namespace..

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Some older discussion here OBOFoundry/OBOFoundry.github.io#872

Ideally there would be a way in OBO to denote an ontology that mint no IDs. Really CHIRO should go away as soon as we figure a way to overlay onto CHEBI

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@cthoyt cthoyt May 24, 2021

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There's a flag in the bioregistry for ontologies that don't mind IDs ;)

You can search for no_own_terms (though I would be happy to change that key to something better if suggested)

"CHMO": "http://purl.obolibrary.org/obo/CHMO_",
"CIDO": "http://purl.obolibrary.org/obo/CIDO_",
"CIO": "http://purl.obolibrary.org/obo/CIO_",
"CL": "http://purl.obolibrary.org/obo/CL_",
"CLAO": "http://purl.obolibrary.org/obo/CLAO_",
"CLO": "http://purl.obolibrary.org/obo/CLO_",
"CLYH": "http://purl.obolibrary.org/obo/CLYH_",
"CMF": "http://purl.obolibrary.org/obo/CMF_",
"CMO": "http://purl.obolibrary.org/obo/CMO_",
"COB": "http://purl.obolibrary.org/obo/COB_",
"CRO": "http://purl.obolibrary.org/obo/CRO_",
"CTENO": "http://purl.obolibrary.org/obo/CTENO_",
"CTO": "http://purl.obolibrary.org/obo/CTO_",
"CVDO": "http://purl.obolibrary.org/obo/CVDO_",
"DC_CL": "http://purl.obolibrary.org/obo/DC_CL_",
"DDANAT": "http://purl.obolibrary.org/obo/DDANAT_",
Expand All @@ -37,8 +45,10 @@
"DOID": "http://purl.obolibrary.org/obo/DOID_",
"DRON": "http://purl.obolibrary.org/obo/DRON_",
"DUO": "http://purl.obolibrary.org/obo/DUO_",
"ECAO": "http://purl.obolibrary.org/obo/ECAO_",
"ECO": "http://purl.obolibrary.org/obo/ECO_",
"ECOCORE": "http://purl.obolibrary.org/obo/ECOCORE_",
"ECTO": "http://purl.obolibrary.org/obo/ECTO_",
"EHDA": "http://purl.obolibrary.org/obo/EHDA_",
"EHDAA": "http://purl.obolibrary.org/obo/EHDAA_",
"EHDAA2": "http://purl.obolibrary.org/obo/EHDAA2_",
Expand All @@ -50,44 +60,58 @@
"ERO": "http://purl.obolibrary.org/obo/ERO_",
"EUPATH": "http://purl.obolibrary.org/obo/EUPATH_",
"EV": "http://purl.obolibrary.org/obo/EV_",
"EXO": "http://purl.obolibrary.org/obo/EXO_",
"ExO": "http://purl.obolibrary.org/obo/ExO_",
"FAO": "http://purl.obolibrary.org/obo/FAO_",
"FBSP": "http://purl.obolibrary.org/obo/FBSP_",
"FBbi": "http://purl.obolibrary.org/obo/FBbi_",
"FBbt": "http://purl.obolibrary.org/obo/FBbt_",
"FBcv": "http://purl.obolibrary.org/obo/FBcv_",
"FBdv": "http://purl.obolibrary.org/obo/FBdv_",
"FIDEO": "http://purl.obolibrary.org/obo/FIDEO_",
"FIX": "http://purl.obolibrary.org/obo/FIX_",
"FLOPO": "http://purl.obolibrary.org/obo/FLOPO_",
"FLU": "http://purl.obolibrary.org/obo/FLU_",
"FMA": "http://purl.obolibrary.org/obo/FMA_",
"FOBI": "http://purl.obolibrary.org/obo/FOBI_",
"FOODON": "http://purl.obolibrary.org/obo/FOODON_",
"FOVT": "http://purl.obolibrary.org/obo/FOVT_",
"FYPO": "http://purl.obolibrary.org/obo/FYPO_",
"GAZ": "http://purl.obolibrary.org/obo/GAZ_",
"GECKO": "http://purl.obolibrary.org/obo/GECKO_",
"GENEPIO": "http://purl.obolibrary.org/obo/GENEPIO_",
"GENO": "http://purl.obolibrary.org/obo/GENO_",
"GEO": "http://purl.obolibrary.org/obo/GEO_",
"GNO": "http://purl.obolibrary.org/obo/GNO_",
"GO": "http://purl.obolibrary.org/obo/GO_",
"GRO": "http://purl.obolibrary.org/obo/GRO_",
"GSSO": "http://purl.obolibrary.org/obo/GSSO_",
"HABRONATTUS": "http://purl.obolibrary.org/obo/HABRONATTUS_",
"HANCESTRO": "http://purl.obolibrary.org/obo/HANCESTRO_",
"HAO": "http://purl.obolibrary.org/obo/HAO_",
"HOM": "http://purl.obolibrary.org/obo/HOM_",
"HP": "http://purl.obolibrary.org/obo/HP_",
"HSAPDV": "http://purl.obolibrary.org/obo/HSAPDV_",
"HSO": "http://purl.obolibrary.org/obo/HSO_",
"HTN": "http://purl.obolibrary.org/obo/HTN_",
"HsapDv": "http://purl.obolibrary.org/obo/HsapDv_",
"IAO": "http://purl.obolibrary.org/obo/IAO_",
"ICEO": "http://purl.obolibrary.org/obo/ICEO_",
"ICO": "http://purl.obolibrary.org/obo/ICO_",
"IDO": "http://purl.obolibrary.org/obo/IDO_",
"IDOMAL": "http://purl.obolibrary.org/obo/IDOMAL_",
"IEV": "http://purl.obolibrary.org/obo/IEV_",
"IMR": "http://purl.obolibrary.org/obo/IMR_",
"INO": "http://purl.obolibrary.org/obo/INO_",
"IPR": "http://purl.obolibrary.org/obo/IPR_",
"KISAO": "http://purl.obolibrary.org/obo/KISAO_",
"LABO": "http://purl.obolibrary.org/obo/LABO_",
"LIPRO": "http://purl.obolibrary.org/obo/LIPRO_",
"LOGGERHEAD": "http://purl.obolibrary.org/obo/LOGGERHEAD_",
"MA": "http://purl.obolibrary.org/obo/MA_",
"MAMO": "http://purl.obolibrary.org/obo/MAMO_",
"MAO": "http://purl.obolibrary.org/obo/MAO_",
"MAT": "http://purl.obolibrary.org/obo/MAT_",
"MAXO": "http://purl.obolibrary.org/obo/MAXO_",
"MCO": "http://purl.obolibrary.org/obo/MCO_",
"MF": "http://purl.obolibrary.org/obo/MF_",
"MFMO": "http://purl.obolibrary.org/obo/MFMO_",
"MFO": "http://purl.obolibrary.org/obo/MFO_",
Expand All @@ -99,7 +123,6 @@
"MIRNAO": "http://purl.obolibrary.org/obo/MIRNAO_",
"MIRO": "http://purl.obolibrary.org/obo/MIRO_",
"MMO": "http://purl.obolibrary.org/obo/MMO_",
"MMUSDV": "http://purl.obolibrary.org/obo/MMUSDV_",
"MO": "http://purl.obolibrary.org/obo/MO_",
"MOD": "http://purl.obolibrary.org/obo/MOD_",
"MONDO": "http://purl.obolibrary.org/obo/MONDO_",
Expand All @@ -109,6 +132,7 @@
"MPIO": "http://purl.obolibrary.org/obo/MPIO_",
"MRO": "http://purl.obolibrary.org/obo/MRO_",
"MS": "http://purl.obolibrary.org/obo/MS_",
"MmusDv": "http://purl.obolibrary.org/obo/MmusDv_",
"NBO": "http://purl.obolibrary.org/obo/NBO_",
"NCBITaxon": "http://purl.obolibrary.org/obo/NCBITaxon_",
"NCIT": "http://purl.obolibrary.org/obo/NCIT_",
Expand All @@ -117,6 +141,7 @@
"NIF_DYSFUNCTION": "http://purl.obolibrary.org/obo/NIF_DYSFUNCTION_",
"NIF_GROSSANATOMY": "http://purl.obolibrary.org/obo/NIF_GROSSANATOMY_",
"NMR": "http://purl.obolibrary.org/obo/NMR_",
"NOMEN": "http://purl.obolibrary.org/obo/NOMEN_",
"OAE": "http://purl.obolibrary.org/obo/OAE_",
"OARCS": "http://purl.obolibrary.org/obo/OARCS_",
"OBA": "http://purl.obolibrary.org/obo/OBA_",
Expand All @@ -130,31 +155,41 @@
"OGSF": "http://purl.obolibrary.org/obo/OGSF_",
"OHD": "http://purl.obolibrary.org/obo/OHD_",
"OHMI": "http://purl.obolibrary.org/obo/OHMI_",
"OLATDV": "http://purl.obolibrary.org/obo/OLATDV_",
"OHPI": "http://purl.obolibrary.org/obo/OHPI_",
"OMIABIS": "http://purl.obolibrary.org/obo/OMIABIS_",
"OMIT": "http://purl.obolibrary.org/obo/OMIT_",
"OMO": "http://purl.obolibrary.org/obo/OMO_",
"OMP": "http://purl.obolibrary.org/obo/OMP_",
"OMRSE": "http://purl.obolibrary.org/obo/OMRSE_",
"ONE": "http://purl.obolibrary.org/obo/ONE_",
"ONS": "http://purl.obolibrary.org/obo/ONS_",
"ONTONEO": "http://purl.obolibrary.org/obo/ONTONEO_",
"OOSTT": "http://purl.obolibrary.org/obo/OOSTT_",
"OPL": "http://purl.obolibrary.org/obo/OPL_",
"OPMI": "http://purl.obolibrary.org/obo/OPMI_",
"ORNASEQ": "http://purl.obolibrary.org/obo/ORNASEQ_",
"OVAE": "http://purl.obolibrary.org/obo/OVAE_",
"OlatDv": "http://purl.obolibrary.org/obo/OlatDv_",
"PAO": "http://purl.obolibrary.org/obo/PAO_",
"PATO": "http://purl.obolibrary.org/obo/PATO_",
"PCO": "http://purl.obolibrary.org/obo/PCO_",
"PDRO": "http://purl.obolibrary.org/obo/PDRO_",
"PDUMDV": "http://purl.obolibrary.org/obo/PDUMDV_",
"PD_ST": "http://purl.obolibrary.org/obo/PD_ST_",
"PECO": "http://purl.obolibrary.org/obo/PECO_",
"PGDSO": "http://purl.obolibrary.org/obo/PGDSO_",
"PHIPO": "http://purl.obolibrary.org/obo/PHIPO_",
"PLANA": "http://purl.obolibrary.org/obo/PLANA_",
"PLANP": "http://purl.obolibrary.org/obo/PLANP_",
"PLO": "http://purl.obolibrary.org/obo/PLO_",
"PO": "http://purl.obolibrary.org/obo/PO_",
"PORO": "http://purl.obolibrary.org/obo/PORO_",
"PPO": "http://purl.obolibrary.org/obo/PPO_",
"PR": "http://purl.obolibrary.org/obo/PR_",
"PROPREO": "http://purl.obolibrary.org/obo/PROPREO_",
"PSDO": "http://purl.obolibrary.org/obo/PSDO_",
"PSO": "http://purl.obolibrary.org/obo/PSO_",
"PW": "http://purl.obolibrary.org/obo/PW_",
"PdumDv": "http://purl.obolibrary.org/obo/PdumDv_",
"RESID": "http://purl.obolibrary.org/obo/RESID_",
"REX": "http://purl.obolibrary.org/obo/REX_",
"RNAO": "http://purl.obolibrary.org/obo/RNAO_",
Expand All @@ -181,25 +216,29 @@
"TO": "http://purl.obolibrary.org/obo/TO_",
"TRANS": "http://purl.obolibrary.org/obo/TRANS_",
"TTO": "http://purl.obolibrary.org/obo/TTO_",
"TXPO": "http://purl.obolibrary.org/obo/TXPO_",
"UBERON": "http://purl.obolibrary.org/obo/UBERON_",
"UO": "http://purl.obolibrary.org/obo/UO_",
"UPA": "http://purl.obolibrary.org/obo/UPA_",
"UPHENO": "http://purl.obolibrary.org/obo/UPHENO_",
"VARIO": "http://purl.obolibrary.org/obo/VARIO_",
"VHOG": "http://purl.obolibrary.org/obo/VHOG_",
"VO": "http://purl.obolibrary.org/obo/VO_",
"VSAO": "http://purl.obolibrary.org/obo/VSAO_",
"VT": "http://purl.obolibrary.org/obo/VT_",
"VTO": "http://purl.obolibrary.org/obo/VTO_",
"WBBT": "http://purl.obolibrary.org/obo/WBBT_",
"WBLS": "http://purl.obolibrary.org/obo/WBLS_",
"WBPhenotype": "http://purl.obolibrary.org/obo/WBPhenotype_",
"WBbt": "http://purl.obolibrary.org/obo/WBbt_",
"WBls": "http://purl.obolibrary.org/obo/WBls_",
"XAO": "http://purl.obolibrary.org/obo/XAO_",
"XCO": "http://purl.obolibrary.org/obo/XCO_",
"XL": "http://purl.obolibrary.org/obo/XL_",
"XLMOD": "http://purl.obolibrary.org/obo/XLMOD_",
"XPO": "http://purl.obolibrary.org/obo/XPO_",
"YPO": "http://purl.obolibrary.org/obo/YPO_",
"ZEA": "http://purl.obolibrary.org/obo/ZEA_",
"ZECO": "http://purl.obolibrary.org/obo/ZECO_",
"ZFA": "http://purl.obolibrary.org/obo/ZFA_",
"ZFS": "http://purl.obolibrary.org/obo/ZFS_"
"ZFS": "http://purl.obolibrary.org/obo/ZFS_",
"ZP": "http://purl.obolibrary.org/obo/ZP_"
}
}