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Fix chebi slim version iri #5

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Fix chebi slim version iri #5

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5 changes: 2 additions & 3 deletions Makefile
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Original file line number Diff line number Diff line change
Expand Up @@ -2,7 +2,6 @@ TODAY ?= $(shell date +%Y-%m-%d)
URIBASE= http://purl.obolibrary.org/obo
ONTBASE= $(URIBASE)/chebi/obophenotype
ROBOT= robot
VERSION= $(TODAY)
ANNOTATE_ONTOLOGY_VERSION = annotate -V $(ONTBASE)/releases/$(VERSION)/$@ --annotation owl:versionInfo $(VERSION)

MIR= true
Expand All @@ -17,8 +16,8 @@ mirror/chebi.owl.gz:

chebi_slim.owl: mirror/chebi.owl seed.txt
$(ROBOT) extract -i $< -T seed.txt --force true --copy-ontology-annotations true --individuals include --method BOT \
query --update sparql/inject-subset-declaration.ru --update sparql/inject-synonymtype-declaration.ru --update sparql/postprocess-module.ru \
annotate --ontology-iri $(ONTBASE)/$@ $(ANNOTATE_ONTOLOGY_VERSION) convert -f ofn --output $@.tmp.owl && mv $@.tmp.owl $@
query --update sparql/preprocess-module.ru --update sparql/inject-subset-declaration.ru --update sparql/inject-synonymtype-declaration.ru --update sparql/postprocess-module.ru \
convert -f ofn --output $@.tmp.owl && mv $@.tmp.owl $@
.PRECIOUS: chebi_slim.owl

chebi_slim.obo: chebi_slim.owl
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2 changes: 1 addition & 1 deletion sparql/postprocess-module.ru
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Expand Up @@ -11,6 +11,6 @@ DELETE {
WHERE {
?ontology rdf:type owl:Ontology .
?ontology ?ontology_annotation_property ?ontology_annotation_value .
FILTER(?ontology_annotation_property != dc:source && ?ontology_annotation_property != rdf:type)
FILTER(?ontology_annotation_property != owl:versionIRI && ?ontology_annotation_property != dc:source && ?ontology_annotation_property != rdf:type)

}
3 changes: 2 additions & 1 deletion sparql/preprocess-module.ru
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Expand Up @@ -10,6 +10,7 @@ PREFIX owl: <http://www.w3.org/2002/07/owl#>

INSERT {
?ontology dc:source ?version_iri .
?ontology owl:versionIRI ?newVersionIRI .
}

WHERE {
Expand All @@ -18,5 +19,5 @@ WHERE {
#OPTIONAL {
# ?ontology ?ontology_annotation_property ?ontology_annotation_value .
#}

BIND(REPLACE(REPLACE(STR(?version_iri),"http://purl.obolibrary.org/obo/chebi/","http://purl.obolibrary.org/obo/chebi/obophenotype/releases/"),"chebi.owl","chebi_slim.owl") as ?newVersionIRI)
}