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Merge pull request #26180 from geneontology/automate-precomputed-taxo…
…n-constraints Build computed taxon constraints as part of go-plus.
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,30 @@ | ||
| PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> | ||
| PREFIX owl: <http://www.w3.org/2002/07/owl#> | ||
| PREFIX oio: <http://www.geneontology.org/formats/oboInOwl#> | ||
| PREFIX in_taxon: <http://purl.obolibrary.org/obo/RO_0002162> | ||
| CONSTRUCT { | ||
| <http://purl.obolibrary.org/obo/go/imports/go-computed-taxon-constraints.owl#INTAXON> a owl:Ontology . | ||
| in_taxon: a owl:ObjectProperty . | ||
| ?term rdfs:subClassOf _:taxon_restriction . | ||
| _:taxon_restriction a owl:Restriction ; | ||
| owl:onProperty in_taxon: ; | ||
| owl:someValuesFrom ?taxon . | ||
| [ | ||
| a owl:Axiom ; | ||
| owl:annotatedSource ?term ; | ||
| owl:annotatedProperty rdfs:subClassOf ; | ||
| owl:annotatedTarget _:taxon_restriction ; | ||
| oio:source "computed" | ||
| ] | ||
| } | ||
| WHERE { | ||
| ?term rdfs:subClassOf [ | ||
| a owl:Restriction ; | ||
| owl:onProperty in_taxon: ; | ||
| owl:someValuesFrom ?taxon | ||
| ] | ||
| FILTER(STRSTARTS(STR(?term), "http://purl.obolibrary.org/obo/GO_")) | ||
| FILTER(isIRI(?taxon)) | ||
| FILTER(STRSTARTS(STR(?taxon), "http://purl.obolibrary.org/obo/NCBITaxon")) | ||
| FILTER(!STRENDS(STR(?taxon), "#NOT")) | ||
| } |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,18 @@ | ||
| PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> | ||
| PREFIX owl: <http://www.w3.org/2002/07/owl#> | ||
| PREFIX in_taxon: <http://purl.obolibrary.org/obo/RO_0002162> | ||
| INSERT { | ||
| ?complement_supertaxon rdfs:subClassOf ?complement_subtaxon . | ||
| ?complement_subtaxon owl:equivalentClass [ | ||
| a owl:Class ; | ||
| owl:complementOf ?subtaxon | ||
| ] . | ||
| } | ||
| WHERE { | ||
| ?subtaxon rdfs:subClassOf ?supertaxon . | ||
| FILTER(isIRI(?subtaxon)) | ||
| FILTER(STRSTARTS(STR(?subtaxon), "http://purl.obolibrary.org/obo/NCBITaxon")) | ||
| FILTER(STRSTARTS(STR(?supertaxon), "http://purl.obolibrary.org/obo/NCBITaxon")) | ||
| BIND(IRI(CONCAT(STR(?subtaxon), "#NOT")) AS ?complement_subtaxon) | ||
| BIND(IRI(CONCAT(STR(?supertaxon), "#NOT")) AS ?complement_supertaxon) | ||
| } |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,65 @@ | ||
| PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> | ||
| PREFIX owl: <http://www.w3.org/2002/07/owl#> | ||
| PREFIX oio: <http://www.geneontology.org/formats/oboInOwl#> | ||
| PREFIX in_taxon: <http://purl.obolibrary.org/obo/RO_0002162> | ||
| PREFIX never_in_taxon: <http://purl.obolibrary.org/obo/RO_0002161> | ||
| CONSTRUCT { | ||
| <http://purl.obolibrary.org/obo/go/imports/go-computed-taxon-constraints.owl#NEVERINTAXON> a owl:Ontology . | ||
| in_taxon: a owl:ObjectProperty . | ||
| never_in_taxon: a owl:AnnotationProperty . | ||
| ?term rdfs:subClassOf _:complement . | ||
| _:complement a owl:Class ; | ||
| owl:complementOf [ | ||
| a owl:Restriction ; | ||
| owl:onProperty in_taxon: ; | ||
| owl:someValuesFrom ?taxon | ||
| ] . | ||
| [ | ||
| a owl:Axiom ; | ||
| owl:annotatedSource ?term ; | ||
| owl:annotatedProperty rdfs:subClassOf ; | ||
| owl:annotatedTarget _:complement ; | ||
| oio:source "computed" | ||
| ] . | ||
| ?term never_in_taxon: ?taxon . | ||
| [ | ||
| a owl:Axiom ; | ||
| owl:annotatedSource ?term ; | ||
| owl:annotatedProperty never_in_taxon: ; | ||
| owl:annotatedTarget ?taxon ; | ||
| oio:source "computed" | ||
| ] . | ||
| } | ||
| WHERE { | ||
| ?term rdfs:subClassOf [ | ||
| a owl:Restriction ; | ||
| owl:onProperty in_taxon: ; | ||
| owl:someValuesFrom ?taxon_complement | ||
| ] | ||
| FILTER(STRSTARTS(STR(?term), "http://purl.obolibrary.org/obo/GO_")) | ||
| FILTER(isIRI(?taxon_complement)) | ||
| FILTER(STRSTARTS(STR(?taxon_complement), "http://purl.obolibrary.org/obo/NCBITaxon")) | ||
| FILTER(STRENDS(STR(?taxon_complement), "#NOT")) | ||
| BIND(IRI(STRBEFORE(STR(?taxon_complement), "#NOT")) AS ?taxon) | ||
| FILTER ( | ||
| EXISTS { | ||
| ?term rdfs:subClassOf+ [ | ||
| a owl:Restriction ; | ||
| owl:onProperty in_taxon: ; | ||
| owl:someValuesFrom ?super_taxon | ||
| ] . | ||
| FILTER(!STRENDS(STR(?super_taxon), "#NOT")) | ||
| ?taxon rdfs:subClassOf+ ?super_taxon . | ||
| } | ||
| || | ||
| NOT EXISTS { | ||
| ?term rdfs:subClassOf+ [ | ||
| a owl:Restriction ; | ||
| owl:onProperty in_taxon: ; | ||
| owl:someValuesFrom ?super_taxon | ||
| ] . | ||
| FILTER(STRSTARTS(STR(?super_taxon), "http://purl.obolibrary.org/obo/NCBITaxon")) | ||
| FILTER(!STRENDS(STR(?super_taxon), "#NOT")) | ||
| } | ||
| ) | ||
| } |