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Bug fix: KeyError on mondo_label #775

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merged 1 commit into from
Feb 10, 2025
Merged

Bug fix: KeyError on mondo_label #775

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6 changes: 4 additions & 2 deletions src/sparql/synonyms-scope-type-xref.sparql
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Original file line number Diff line number Diff line change
Expand Up @@ -5,11 +5,13 @@ PREFIX oio: <http://www.geneontology.org/formats/oboInOwl#>
PREFIX oboInOwl: <http://www.geneontology.org/formats/oboInOwl#>

SELECT
?cls_id ?dbXref ?synonym_scope ?synonym (GROUP_CONCAT(DISTINCT STR(?synonym_type_curie); separator="|") as ?synonym_type)
?cls_id ?cls_label ?dbXref ?synonym_scope ?synonym (GROUP_CONCAT(DISTINCT STR(?synonym_type_curie); separator="|") as ?synonym_type)
WHERE {
?cls a owl:Class ;
?synonymPropertyUri ?synonym .

OPTIONAL { ?cls rdfs:label ?cls_label }

OPTIONAL {
?axiom owl:annotatedSource ?cls ;
owl:annotatedProperty ?synonymPropertyUri ;
Expand All @@ -34,4 +36,4 @@ WHERE {
# OAK uses oio, so we're doing that here for consistency because we'll be comparing this with OAK output.
BIND(REPLACE(STR(?synonymPropertyUri), "http://www.geneontology.org/formats/oboInOwl#", "oio:") AS ?synonym_scope)
}
GROUP BY ?cls_id ?dbXref ?synonym_scope ?synonym
GROUP BY ?cls_id ?cls_label ?dbXref ?synonym_scope ?synonym