diff --git a/ontologies.Makefile b/ontologies.Makefile index 87ec914..8f25a42 100644 --- a/ontologies.Makefile +++ b/ontologies.Makefile @@ -284,6 +284,17 @@ db/bcio.owl: download/bcio.owl cp $< $@ +download/sio.owl: STAMP + curl -L -s http://semanticscience.org/ontology/sio.owl > $@.tmp + sha256sum -b $@.tmp > $@.sha256 + mv $@.tmp $@ + +.PRECIOUS: download/sio.owl + +db/sio.owl: download/sio.owl + cp $< $@ + + download/icd10who.owl: STAMP curl -L -s https://github.com/monarch-initiative/mondo-ingest/releases/latest/download/icd10who.owl > $@.tmp sha256sum -b $@.tmp > $@.sha256 @@ -1317,4 +1328,4 @@ download/%.owl: STAMP db/%.owl: download/%.owl robot merge -i $< -o $@ -EXTRA_ONTOLOGIES = swo chiro pcl chemessence ogco ncit fma maxo foodon chebiplus msio pride modl phenio phenio_test comploinc hba mba dmba dhba pba bero aio reacto xsmo bcio icd10who ordo gard mondo-ingest oeo envthes wifire taxslim goldterms sdgio kin biovoices omop comet cco occo iof upa go go-lego go-amigo neo bao orcid cpont biolink biopax enanomapper mlo ito chemont molgenie cso obiws biopragmatics-reactome reactome-hs reactome-mm efo hcao hpinternational edam chr sweetAll oboe-core oboe-standards lov schema-dot-org prov dtype vaem qudtunit quantitykind cellosaurus cosmo fhkb dbpendiaont uberoncm icd10cm omim co_324 ppeo interpro hgnc.genegroup hgnc sgd dictybase eccode uniprot rhea swisslipid drugbank drugcentral complexportal wikipathways pathbank kegg.genome drugmechdb rxnorm vccf ontobiotope nando ecso enigma_context ontie ecosim nmdc_schema mixs kgcl fibo bfo2020 bfo2020_core bfo2020_notime bfo2020_time +EXTRA_ONTOLOGIES = swo chiro pcl chemessence ogco ncit fma maxo foodon chebiplus msio pride modl phenio phenio_test comploinc hba mba dmba dhba pba bero aio reacto xsmo bcio sio icd10who ordo gard mondo-ingest oeo envthes wifire taxslim goldterms sdgio kin biovoices omop comet cco occo iof upa go go-lego go-amigo neo bao orcid cpont biolink biopax enanomapper mlo ito chemont molgenie cso obiws biopragmatics-reactome reactome-hs reactome-mm efo hcao hpinternational edam chr sweetAll oboe-core oboe-standards lov schema-dot-org prov dtype vaem qudtunit quantitykind cellosaurus cosmo fhkb dbpendiaont uberoncm icd10cm omim co_324 ppeo interpro hgnc.genegroup hgnc sgd dictybase eccode uniprot rhea swisslipid drugbank drugcentral complexportal wikipathways pathbank kegg.genome drugmechdb rxnorm vccf ontobiotope nando ecso enigma_context ontie ecosim nmdc_schema mixs kgcl fibo bfo2020 bfo2020_core bfo2020_notime bfo2020_time diff --git a/src/semsql/builder/prefixes/prefixes.csv b/src/semsql/builder/prefixes/prefixes.csv index 16ac6f3..94e5cd7 100644 --- a/src/semsql/builder/prefixes/prefixes.csv +++ b/src/semsql/builder/prefixes/prefixes.csv @@ -93,6 +93,7 @@ PBA,https://purl.brain-bican.org/ontology/pbao/PBA_ XSMO,http://purl.obolibrary.org/obo/XSMO_ BCIO,http://humanbehaviourchange.org/ontology/BCIO_ BCIOR,http://humanbehaviourchange.org/ontology/BCIOR_ +SIO,http://semanticscience.org/resource/SIO_ icd10who,https://icd.who.int/browse10/2019/en#/ GARD,http://purl.obolibrary.org/obo/GARD_ OMIM,https://omim.org/entry/ diff --git a/src/semsql/builder/prefixes/prefixes_local.csv b/src/semsql/builder/prefixes/prefixes_local.csv index 7c0060d..f4a3f13 100644 --- a/src/semsql/builder/prefixes/prefixes_local.csv +++ b/src/semsql/builder/prefixes/prefixes_local.csv @@ -30,6 +30,7 @@ PBA,https://purl.brain-bican.org/ontology/pbao/PBA_ XSMO,http://purl.obolibrary.org/obo/XSMO_ BCIO,http://humanbehaviourchange.org/ontology/BCIO_ BCIOR,http://humanbehaviourchange.org/ontology/BCIOR_ +SIO,http://semanticscience.org/resource/SIO_ icd10who,https://icd.who.int/browse10/2019/en#/ GARD,http://purl.obolibrary.org/obo/GARD_ OMIM,https://omim.org/entry/ diff --git a/src/semsql/builder/registry/ontologies.yaml b/src/semsql/builder/registry/ontologies.yaml index a46086a..a115ead 100644 --- a/src/semsql/builder/registry/ontologies.yaml +++ b/src/semsql/builder/registry/ontologies.yaml @@ -137,6 +137,11 @@ ontologies: prefixmap: BCIO: http://humanbehaviourchange.org/ontology/BCIO_ BCIOR: http://humanbehaviourchange.org/ontology/BCIOR_ + sio: + url: http://semanticscience.org/ontology/sio.owl + # TBD: see https://github.com/biopragmatics/bioregistry/issues/1394 + prefixmap: + SIO: http://semanticscience.org/resource/SIO_ icd10who: url: https://github.com/monarch-initiative/mondo-ingest/releases/latest/download/icd10who.owl prefixmap: