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geneontology / go-ontology

Source ontology files for the Gene Ontology
http://geneontology.org/page/download-ontology
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Ontology no longer builds with owl-axiom-check ERROR #29249

Open kltm opened 3 days ago

kltm commented 3 days ago

The ontology no longer consistently builds in any pipeline, due to:

16:14:54   :: ERROR: owl-axiom-check: Line: owl-axioms: Prefix(owl:=<http://www.w3.org/2002/07/owl#>)\nPrefix(rdf:=<http://www.w3.org/1999/02/22-rdf-syntax-ns#>)\nPrefix(xml:=<http://www.w3.org/XML/1998/namespace>)\nPrefix(xsd:=<http://www.w3.org/2001/XMLSchema#>)\nPrefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)\n\n\nOntology(\nDeclaration(AnnotationProperty(<http://www.geneontology.org/formats/oboInOwl#hasDbXref>))\n\n\nAnnotationAssertion(Annotation(rdfs:label \"DHAP is converted to G3P by GPD1/GPD1L\") <http://www.geneontology.org/formats/oboInOwl#hasDbXref> <http://purl.obolibrary.org/obo/GO_0004367> \"Reactome:R-HSA-75889\")\n)

This is possibly due to GO:0004367 being an obsoleted term?

Tagging @pgaudet @balhoff