Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Explanatory Agent returns blank knowledge graph on example query #4

Open
MarkDWilliams opened this issue Nov 23, 2020 · 3 comments
Open

Comments

@MarkDWilliams
Copy link

When given the example query provided in the apidoc, explanatory agent returns no results.

{
  "message": {
    "query_graph": {
      "edges": [
        {
          "id": "e00",
          "source_id": "n00",
          "target_id": "n01",
          "type": "associated"
        }
      ],
      "nodes": [
        {
          "curie": "EFO:0004465",
          "id": "n00",
          "type": "disease"
        },
        {
          "id": "n01",
          "type": "gene"
        }
      ]
    }
  }
}
{
  "query_graph": {
    "edges": [
      {
        "id": "e00",
        "source_id": "n00",
        "target_id": "n01",
        "type": "associated"
      }
    ],
    "nodes": [
      {
        "curie": "EFO:0004465",
        "id": "n00",
        "type": "disease"
      },
      {
        "id": "n01",
        "type": "gene"
      }
    ]
  },
  "knowledge_graph": {
    "edges": [],
    "nodes": []
  },
  "results": []
}
@ehinderer
Copy link
Collaborator

I just spoke with our lead software engineer @tziomics. We believe the issue is that something changed with the KP that we query (the Genetics Provider). Not trying to pass the blame on, but we will look into it and try to get to the bottom of the issue.

@ehinderer
Copy link
Collaborator

@tziomics Can we confirm that this issue is resolved with the most recent integration efforts?

@tziomics
Copy link
Collaborator

@ehinderer The issue persists, but it is due to lack of data from the KP we are accessing to answer the query. If you send that query (or a v1.0 query) no results will return because we are not getting any results from Genetics Provider with that CURIE and predicate. It is not a problem with GP as a whole, as data is returned for other diseases (e.g. EFO:0000275).

Is the solution to change the apidoc example so it uses a CURIE that can return data or is EFO:0004465 expected to return data?

tziomics pushed a commit that referenced this issue Oct 4, 2021
Fix: Updated jenkinsfile OM-4121
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

3 participants