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ranking-agent / aragorn-ranker

Exposes TRAPI functions to add literature co-occurrence edges, convert publications to edge weights, and provide scores for answers.
MIT License
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Why is this so slow? #85

Open cbizon opened 1 year ago

cbizon commented 1 year ago

The query is a one-hop, what treats huntington's disease:

{
  "message": {
    "query_graph": {
      "nodes": {
        "disease": {
          "ids": [
            "MONDO:0007739"
          ]
        },
        "chemical": {
          "categories": [
            "biolink:ChemicalEntity"
          ]
        }
      },
      "edges": {
        "t_edge": {
          "object": "disease",
          "subject": "chemical",
          "predicates": [
            "biolink:treats"
          ]
        }
      }
    }
  }
}
[2022-10-17 13:32:50,365: DEBUG/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: strider returned with 200
[2022-10-17 13:32:50,441: INFO/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: strider returned 1179 results.
[2022-10-17 13:32:50,791: DEBUG/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: Calling http://answercoalesce-answer-coalesce-web-service/coalesce/all
[2022-10-17 13:33:19,532: DEBUG/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: answer_coalesce returned with 200
[2022-10-17 13:33:22,886: INFO/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: answer_coalesce returned 2472 results.
[2022-10-17 13:33:22,893: DEBUG/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: Calling http://aragorn-ranker-web-service:8080/omnicorp_overlay
[2022-10-17 13:34:21,201: DEBUG/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: omnicorp returned with 200
[2022-10-17 13:34:26,939: INFO/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: omnicorp returned 2472 results.
[2022-10-17 13:34:27,097: DEBUG/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: Calling http://aragorn-ranker-web-service:8080/weight_correctness
[2022-10-17 13:35:18,997: DEBUG/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: weight returned with 200
[2022-10-17 13:35:30,125: INFO/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: weight returned 2472 results.
[2022-10-17 13:35:30,126: DEBUG/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: Calling http://aragorn-ranker-web-service:8080/score
[2022-10-17 13:44:37,068: DEBUG/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: score returned with 200
[2022-10-17 13:44:48,735: INFO/src.service_aggregator(SpawnProcess-4)]: 21dce7099049: score returned 2472 results.

Score took 9 minutes?