feat(openchallenges): filter challenges by input data types (EDAM Concept IDs)

tschaffter commented 2 months ago

Closes #2623

cc: @rrchai

Changelog

add the property inputDataTypes to the ChallengeSearchQuery OpenAPI object
replace EdamData by EdamConcept objects
filter challenges by input data types represented by EDAM concept ID (different from EDAM concept class ID)
update the API client for Angular

Preview

Get the challenges whose input data types include the EDAM concept ID 2 or 18

GET {{basePath}}/challenges?inputDataTypes=2,18
HTTP/1.1 200 

{
  "number": 0,
  "size": 100,
  "totalElements": 55,
  "totalPages": 1,
  "hasNext": false,
  "hasPrevious": false,
  "challenges": [
    {
      "id": 1,
      "slug": "network-topology-and-parameter-inference",
      "name": "Network Topology and Parameter Inference",
      "headline": "Optimize methods to estimate biology model parameters",
      "description": "Participants are asked to develop and/or apply optimization methods, including the selection of the most informative experiments, to accurately estimate parameters and predict outcomes of perturbations in Systems Biology models.",
      "doi": "",
      "status": "completed",
      "platform": {
        "id": 1,
        "slug": "synapse",
        "name": "Synapse"
      },
      "websiteUrl": "https://www.synapse.org/#!Synapse:syn2821735",
      "avatarUrl": "",
      "incentives": [
        "publication"
      ],
      "submissionTypes": [
        "prediction_file"
      ],
      "inputDataTypes": [
        {
          "id": 18,
          "classId": "http://edamontology.org/data_0850",
          "preferredLabel": "Sequence set"
        }
      ],
      "categories": [],
      "startDate": "2012-06-01",
      "endDate": "2012-10-01",
      "starredCount": 2,
      "operation": null,
      "createdAt": "2023-11-15T22:40:15Z",
      "updatedAt": "2024-03-04T18:31:19Z"
    },
    {
      "id": 259,
      "slug": "cagi6-lc-arsa",
      "name": "CAGI6: ARSA",
      "headline": "Predict the effect of naturally occurring missense mutations",
      "description": "Metachromatic Leukodystrophy (MLD) is an autosomal recessive, lysosomal-storage disease caused by mutations in Arylsulfatase A (ARSA) and toxic accumulation of sulfatide substrate. Genome sequencing has revealed hundreds of protein-altering, ARSA missense variants, but the functional effect of most variants remains unknown. ARSA enzyme activity using a high-throughput cellular assay was measured for a large set of variants of known significance and variants of unknown significance. The challenge is to predict the fractional enzyme activity of each mutant protein compared to the wildtype protein.",
      "doi": "",
      "status": "completed",
      "platform": {
        "id": 1,
        "slug": "synapse",
        "name": "Synapse"
      },
      "websiteUrl": "https://genomeinterpretation.org/cagi6-lc-arsa.html",
      "avatarUrl": "",
      "incentives": [
        "publication",
        "speaking_engagement"
      ],
      "submissionTypes": [
        "prediction_file"
      ],
      "inputDataTypes": [
        {
          "id": 18,
          "classId": "http://edamontology.org/data_0850",
          "preferredLabel": "Sequence set"
        }
      ],
...