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Adding SIO. #93

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Merged
merged 1 commit into from
Feb 1, 2025
Merged

Adding SIO. #93

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13 changes: 12 additions & 1 deletion ontologies.Makefile
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Original file line number Diff line number Diff line change
Expand Up @@ -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
Expand Down Expand Up @@ -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
1 change: 1 addition & 0 deletions src/semsql/builder/prefixes/prefixes.csv
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Expand Up @@ -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/
Expand Down
1 change: 1 addition & 0 deletions src/semsql/builder/prefixes/prefixes_local.csv
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Expand Up @@ -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/
Expand Down
5 changes: 5 additions & 0 deletions src/semsql/builder/registry/ontologies.yaml
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Expand Up @@ -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:
Expand Down