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VBO release #197

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merged 3 commits into from
Aug 14, 2024
Merged

VBO release #197

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b4922bb
VBO release
sabrinatoro Aug 13, 2024
8aca42d
Adding a fix to VBO release pipeline that ensures OBO conversion is a…
matentzn Aug 14, 2024
e69cb3e
release after Nico's fix
sabrinatoro Aug 14, 2024
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6 changes: 2 additions & 4 deletions src/ontology/imports/cob_import.owl
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Original file line number Diff line number Diff line change
Expand Up @@ -7,9 +7,9 @@ Prefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)


Ontology(<http://purl.obolibrary.org/obo/vbo/imports/cob_import.owl>
<http://purl.obolibrary.org/obo/vbo/releases/2024-08-08/imports/cob_import.owl>
<http://purl.obolibrary.org/obo/vbo/releases/2024-08-14/imports/cob_import.owl>
Annotation(<http://purl.org/dc/elements/1.1/source> <http://purl.obolibrary.org/obo/cob/releases/2023-11-16/cob.owl>)
Annotation(owl:versionInfo "2024-08-08")
Annotation(owl:versionInfo "2024-08-14")

Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000015>))
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000016>))
Expand Down Expand Up @@ -167,7 +167,6 @@ SubClassOf(<http://purl.obolibrary.org/obo/BFO_0000017> <http://purl.obolibrary.
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/BFO_0000020> "characteristic"@en)
AnnotationAssertion(rdfs:seeAlso <http://purl.obolibrary.org/obo/BFO_0000020> "https://github.com/OBOFoundry/COB/issues/65")
AnnotationAssertion(rdfs:seeAlso <http://purl.obolibrary.org/obo/BFO_0000020> "https://github.com/oborel/obo-relations/pull/284")
SubClassOf(Annotation(rdfs:comment "We should name the inverse in COB and avoid the confusing inverse(..) construct") <http://purl.obolibrary.org/obo/BFO_0000020> ObjectSomeValuesFrom(ObjectInverseOf(<http://purl.obolibrary.org/obo/RO_0000053>) owl:Thing))
SubClassOf(<http://purl.obolibrary.org/obo/BFO_0000020> ObjectAllValuesFrom(<http://purl.obolibrary.org/obo/BFO_0000051> <http://purl.obolibrary.org/obo/BFO_0000020>))

# Class: <http://purl.obolibrary.org/obo/BFO_0000023> (role)
Expand Down Expand Up @@ -294,7 +293,6 @@ SubClassOf(<http://purl.obolibrary.org/obo/IAO_0000027> <http://purl.obolibrary.
AnnotationAssertion(rdfs:comment <http://purl.obolibrary.org/obo/IAO_0000030> "Pier: 'data, information or knowledge'. OR 'representation")
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/IAO_0000030> "information")
SubClassOf(<http://purl.obolibrary.org/obo/IAO_0000030> ObjectSomeValuesFrom(<http://purl.obolibrary.org/obo/IAO_0000136> owl:Thing))
SubClassOf(<http://purl.obolibrary.org/obo/IAO_0000030> ObjectSomeValuesFrom(ObjectInverseOf(<http://purl.obolibrary.org/obo/COB_0000078>) <http://purl.obolibrary.org/obo/COB_0000120>))


)
24,846 changes: 11,141 additions & 13,705 deletions src/ontology/reports/vbo-edit.owl-obo-report.tsv
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13 changes: 13 additions & 0 deletions src/ontology/vbo.Makefile
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Original file line number Diff line number Diff line change
Expand Up @@ -110,6 +110,19 @@ $(IMPORTDIR)/wikidata_import.owl: $(TMPDIR)/wikidata_labels.ttl
.PHONY: wikidata
wikidata: $(IMPORTDIR)/wikidata_import.owl

# The below fix basically deals with a longstanding issue that the OBO format converter does not handle the
# ObjectInverseOf axiom. This is a workaround until the issue is fixed in the OBO format converter
# https://github.com/OBOFoundry/COB/issues/229

.PHONY: mirror-cob
.PRECIOUS: $(MIRRORDIR)/cob.owl
mirror-cob: | $(TMPDIR)
curl -L $(OBOBASE)/cob.owl --create-dirs -o $(TMPDIR)/cob-download.owl --retry 4 --max-time 200 && \
$(ROBOT) convert -i $(TMPDIR)/cob-download.owl -f ofn -o $(TMPDIR)/[email protected] && \
sed -i '/ObjectInverseOf/d' $(TMPDIR)/[email protected]



################################
##### DADIS sync ###############
################################
Expand Down
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