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NCATSTranslator / Feedback

A repo for tracking gaps in Translator data and finding ways to fill them.
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TRAPI Validation Error: unknown attribute_type_id #813

Open cbizon opened 2 months ago

cbizon commented 2 months ago

See #811

It looks like Molepro is using a defunct biolink attribute type, leading to a TRAPI Validation Error.

Knowledge Graph Edge Attribute Type Id: => Edge has unknown attribute_type_id $ infores:pubchem -> infores:molepro -> infores:aragorn

biolink:original_knowledge_source

            - edge_id: 
                CHEBI:33216[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:NamedThing|biolink:ChemicalOrDrugOrTreatment]--biolink:chemically_similar_to->CHEBI:72754[biolink:SmallMolecule]
                CHEBI:33216[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:NamedThing|biolink:ChemicalOrDrugOrTreatment]--biolink:chemically_similar_to->CHEBI:31133[biolink:SmallMolecule]
                CHEBI:33216[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:NamedThing|biolink:ChemicalOrDrugOrTreatment]--biolink:chemically_similar_to->CHEBI:167305[biolink:SmallMolecule]
                CHEBI:33216[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:NamedThing|biolink:ChemicalOrDrugOrTreatment]--biolink:chemically_similar_to->CHEBI:131346[biolink:SmallMolecule]
                CHEBI:18258[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalOrDrugOrTreatment|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:ChemicalMixture|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:MolecularMixture|biolink:Drug|biolink:NamedThing|biolink:OntologyClass]--biolink:chemically_similar_to->CHEBI:18332[biolink:BiologicalEntity|biolink:GeneProductMixin|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:Drug|biolink:NamedThing|biolink:GeneOrGeneProduct|biolink:Protein|biolink:ChemicalEntity|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:MolecularEntity|biolink:Polypeptide|biolink:MacromolecularMachineMixin|biolink:PhysicalEssence|biolink:ThingWithTaxon|biolink:OntologyClass|biolink:ChemicalMixture|biolink:PhysicalEssenceOrOccurrent|biolink:MolecularMixture|biolink:ChemicalOrDrugOrTreatment]
                CHEBI:18258[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalOrDrugOrTreatment|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:ChemicalMixture|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:MolecularMixture|biolink:Drug|biolink:NamedThing|biolink:OntologyClass]--biolink:chemically_similar_to->CHEBI:30659[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:BiologicalEntity|biolink:GeneProductMixin|biolink:ChemicalOrDrugOrTreatment|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:Polypeptide|biolink:NamedThing|biolink:ThingWithTaxon|biolink:GeneOrGeneProduct|biolink:MacromolecularMachineMixin|biolink:Protein]
                CHEBI:18258[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalOrDrugOrTreatment|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:ChemicalMixture|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:MolecularMixture|biolink:Drug|biolink:NamedThing|biolink:OntologyClass]--biolink:chemically_similar_to->CHEBI:11684[biolink:SmallMolecule]
                CHEBI:18258[biolink:ChemicalEntity|biolink:PhysicalEssence|biolink:ChemicalOrDrugOrTreatment|biolink:ChemicalEntityOrGeneOrGeneProduct|biolink:ChemicalMixture|biolink:MolecularEntity|biolink:SmallMolecule|biolink:ChemicalEntityOrProteinOrPolypeptide|biolink:PhysicalEssenceOrOccurrent|biolink:MolecularMixture|biolink:Drug|biolink:NamedThing|biolink:OntologyClass]--biolink:chemically_similar_to-