Describe the problem During today's stand-up meeting, there was a

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disease treats disease being returned on TRAPI query about translator-openpredict HOT 4 CLOSED

maastrichtu-ids commented on June 2, 2024

disease treats disease being returned on TRAPI query

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Comments (4)

CaseyTa commented on June 2, 2024 1

I think this:

{
    "message": {
        "query_graph": {
            "edges": {
                "e0": {
                "attribute_constraints": [],
                "knowledge_type": "inferred",
                "object": "n0",
                "predicates": [
                    "biolink:treats"
                ],
                "qualifier_constraints": [],
                "subject": "n1"
                }
            },
            "nodes": {
                "n0": {
                "categories": [
                    "biolink:Disease"
                ],
                "constraints": [],
                "ids": [
                    "MONDO:0005180"
                ],
                "is_set": false,
                "name": "parkinson disease"
                },
                "n1": {
                "categories": [
                    "biolink:ChemicalEntity"
                ],
                "constraints": [],
                "is_set": false
                }
            }
        }
    }
}

Got this from the ARAX UI, under Query > JSON

Edit: the JSON from ARAX UI just needed to be wrapped in message and query_graph objects. I sent the above to the dev instance (https://openpredict.semanticscience.org/query) and get back edges like

                    "subject": "MONDO:0005180",
                    "object": "OMIM:168600",
                    "predicate": "biolink:treats"

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vemonet commented on June 2, 2024

Thanks @CaseyTa is there a TRAPI query JSON we can use to reproduce the error?

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vemonet commented on June 2, 2024

Thanks @CaseyTa the issue was coming from a behavior of the NodeNormalization that was not handled, it's now fixed on the dev server, it now properly returns drugs predictions for parkinson

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CaseyTa commented on June 2, 2024

Thanks @vemonet!

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