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Getting the new Shex into the json export code #316

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merged 4 commits into from
May 21, 2024
Merged

Getting the new Shex into the json export code #316

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3bab2e7
Update go-cam-shapes.shex
vanaukenk May 1, 2024
363464c
Merge pull request #312 from geneontology/vanaukenk-patch-16
vanaukenk May 1, 2024
3320990
Update WIP_standard_annot_ShEx
vanaukenk May 2, 2024
6d7897b
Merge pull request #313 from geneontology/vanaukenk-patch-16
vanaukenk May 2, 2024
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12 changes: 7 additions & 5 deletions shapes/WIP_standard_annot_ShEx
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Original file line number Diff line number Diff line change
Expand Up @@ -172,6 +172,8 @@ PREFIX results_in_remodeling_of: <http://purl.obolibrary.org/obo/RO_0002591>
part_of: @<BiologicalProcess> *;
has_input: ( @<ChemicalEntity> OR @<AnatomicalEntity> OR @<ProteinContainingComplex> OR @<Organism> ) *;
has_output: ( @<ChemicalEntity> OR @<AnatomicalEntity> OR @<ProteinContainingComplex> ) *;
has_primary_input: ( @<ChemicalEntity> OR @<AnatomicalEntity> OR @<ProteinContainingComplex> OR @<Organism> ) *;
has_primary_output: ( @<ChemicalEntity> OR @<AnatomicalEntity> OR @<ProteinContainingComplex> ) *;
occurs_in: @<AnatomicalEntity> {0,1};
has_target_end_location: @<AnatomicalEntity> {0,1};
has_target_start_location: @<AnatomicalEntity> {0,1};
Expand Down Expand Up @@ -457,18 +459,18 @@ PREFIX results_in_remodeling_of: <http://purl.obolibrary.org/obo/RO_0002591>
<ProteinContainingComplex> @<GoCamEntity> AND EXTRA a {
a @<ProteinContainingComplexClass>;
enables: ( @<MolecularFunction> OR @<RootMolecularFuntion> ) {0,1};
contributes_to: @<MolecularFunction> {0,1};
located_in: ( @<CellularAnatomicalEntity> OR @<VirionComponent> ) {0,1};
is_active_in: ( @<CellularAnatomicalEntity> OR @<RootCellularComponent> OR @VirionComponent> ) {0,1};
part_of: @<ProteinContainingComplex> *;
has_part: ( @<InformationBiomacromolecule> OR @<ProteinContainingComplex> ) *;
existence_overlaps: ( @<BiologicalProcess> OR @<LifeCycleStage> OR @<PlantStructureDevelopmentStage> ) *;
existence_starts_and_ends_during: ( @<BiologicalProcess> OR @<LifeCycleStage> OR @<PlantStructureDevelopmentStage> ) *;
involved_in: ( @<BiologicalProcess> OR @<RootBiologicalProcess> ) {0,1};
acts_upstream_of_negative_effect: @<BiologicalProcess> {0,1};
acts_upstream_of_positive_effect: @<BiologicalProcess> {0,1};
acts_upstream_of_or_within_negative_effect: @<BiologicalProcess> {0,1};
acts_upstream_of_or_within_positive_effect: @<BiologicalProcess> {0,1};
acts_upstream_of_or_within_positive_effect: @<BiologicalProcess> {0,1};
has_part: ( @<InformationBiomacromolecule> OR @<ProteinContainingComplex> ) *;
existence_overlaps: ( @<BiologicalProcess> OR @<LifeCycleStage> OR @<PlantStructureDevelopmentStage> ) *;
existence_starts_and_ends_during: ( @<BiologicalProcess> OR @<LifeCycleStage> OR @<PlantStructureDevelopmentStage> ) *;

} // rdfs:comment "a protein complex"

<ProteinContainingComplexClass> IRI @<OwlClass> AND EXTRA rdfs:subClassOf {
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2 changes: 2 additions & 0 deletions shapes/go-cam-shapes.shex
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Expand Up @@ -193,6 +193,8 @@ PREFIX results_in_remodeling_of: <http://purl.obolibrary.org/obo/RO_0002591>
part_of: @<BiologicalProcess> *;
has_input: ( @<ChemicalEntity> OR @<AnatomicalEntity> OR @<ProteinContainingComplex> OR @<Organism> ) *;
has_output: ( @<ChemicalEntity> OR @<AnatomicalEntity> OR @<ProteinContainingComplex> ) *;
has_primary_input: @<ChemicalEntity> *;
has_primary_output: @<ChemicalEntity> *;
occurs_in: @<AnatomicalEntity> {0,1};
transports_or_maintains_localization_of: ( @<InformationBiomacromolecule> OR @<ProteinContainingComplex> ) *;
has_target_end_location: @<AnatomicalEntity> {0,1};
Expand Down
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