NCI Genomic Data Commons (GDC) API — Search

naftiko: 1.0.0-alpha2
info:
  label: NCI Genomic Data Commons (GDC) API — Search
  description: 'NCI Genomic Data Commons (GDC) API — Search. 7 operations. Lead operation: Search annotations. Self-contained
    Naftiko capability covering one National Cancer Institute business surface.'
  tags:
  - National Cancer Institute
  - Search
  created: '2026-05-19'
  modified: '2026-05-19'
binds:
- namespace: env
  keys:
    NATIONAL_CANCER_INSTITUTE_API_KEY: NATIONAL_CANCER_INSTITUTE_API_KEY
capability:
  consumes:
  - type: http
    namespace: national-cancer-institute-search
    baseUri: https://api.gdc.cancer.gov
    description: NCI Genomic Data Commons (GDC) API — Search business capability. Self-contained, no shared references.
    resources:
    - name: annotations
      path: /annotations
      operations:
      - name: searchannotations
        method: GET
        description: Search annotations
        outputRawFormat: json
        outputParameters:
        - name: result
          type: object
          value: $.
        inputParameters:
        - name: filters
          in: query
          type: string
        - name: fields
          in: query
          type: string
    - name: cases
      path: /cases
      operations:
      - name: searchcases
        method: GET
        description: Search cases
        outputRawFormat: json
        outputParameters:
        - name: result
          type: object
          value: $.
        inputParameters:
        - name: filters
          in: query
          type: string
        - name: fields
          in: query
          type: string
        - name: size
          in: query
          type: integer
    - name: cases-case_id
      path: /cases/{case_id}
      operations:
      - name: getcase
        method: GET
        description: Get case by ID
        outputRawFormat: json
        outputParameters:
        - name: result
          type: object
          value: $.
        inputParameters:
        - name: case_id
          in: path
          type: string
          required: true
    - name: files
      path: /files
      operations:
      - name: searchfiles
        method: GET
        description: Search files
        outputRawFormat: json
        outputParameters:
        - name: result
          type: object
          value: $.
        inputParameters:
        - name: filters
          in: query
          type: string
        - name: fields
          in: query
          type: string
        - name: size
          in: query
          type: integer
    - name: files-file_id
      path: /files/{file_id}
      operations:
      - name: getfile
        method: GET
        description: Get file metadata by ID
        outputRawFormat: json
        outputParameters:
        - name: result
          type: object
          value: $.
        inputParameters:
        - name: file_id
          in: path
          type: string
          required: true
    - name: projects
      path: /projects
      operations:
      - name: searchprojects
        method: GET
        description: Search projects
        outputRawFormat: json
        outputParameters:
        - name: result
          type: object
          value: $.
        inputParameters:
        - name: filters
          in: query
          type: string
        - name: fields
          in: query
          type: string
        - name: size
          in: query
          type: integer
        - name: from
          in: query
          type: integer
        - name: sort
          in: query
          type: string
    - name: projects-project_id
      path: /projects/{project_id}
      operations:
      - name: getproject
        method: GET
        description: Get project by ID
        outputRawFormat: json
        outputParameters:
        - name: result
          type: object
          value: $.
        inputParameters:
        - name: project_id
          in: path
          type: string
          required: true
    authentication:
      type: apikey
      key: X-Auth-Token
      value: '{{env.NATIONAL_CANCER_INSTITUTE_API_KEY}}'
      placement: header
  exposes:
  - type: rest
    namespace: national-cancer-institute-search-rest
    port: 8080
    description: REST adapter for NCI Genomic Data Commons (GDC) API — Search. One Spectral-compliant resource per consumed
      operation, prefixed with /v1.
    resources:
    - path: /v1/annotations
      name: annotations
      description: REST surface for annotations.
      operations:
      - method: GET
        name: searchannotations
        description: Search annotations
        call: national-cancer-institute-search.searchannotations
        with:
          filters: rest.filters
          fields: rest.fields
        outputParameters:
        - type: object
          mapping: $.
    - path: /v1/cases
      name: cases
      description: REST surface for cases.
      operations:
      - method: GET
        name: searchcases
        description: Search cases
        call: national-cancer-institute-search.searchcases
        with:
          filters: rest.filters
          fields: rest.fields
          size: rest.size
        outputParameters:
        - type: object
          mapping: $.
    - path: /v1/cases/{case-id}
      name: cases-case-id
      description: REST surface for cases-case_id.
      operations:
      - method: GET
        name: getcase
        description: Get case by ID
        call: national-cancer-institute-search.getcase
        with:
          case_id: rest.case_id
        outputParameters:
        - type: object
          mapping: $.
    - path: /v1/files
      name: files
      description: REST surface for files.
      operations:
      - method: GET
        name: searchfiles
        description: Search files
        call: national-cancer-institute-search.searchfiles
        with:
          filters: rest.filters
          fields: rest.fields
          size: rest.size
        outputParameters:
        - type: object
          mapping: $.
    - path: /v1/files/{file-id}
      name: files-file-id
      description: REST surface for files-file_id.
      operations:
      - method: GET
        name: getfile
        description: Get file metadata by ID
        call: national-cancer-institute-search.getfile
        with:
          file_id: rest.file_id
        outputParameters:
        - type: object
          mapping: $.
    - path: /v1/projects
      name: projects
      description: REST surface for projects.
      operations:
      - method: GET
        name: searchprojects
        description: Search projects
        call: national-cancer-institute-search.searchprojects
        with:
          filters: rest.filters
          fields: rest.fields
          size: rest.size
          from: rest.from
          sort: rest.sort
        outputParameters:
        - type: object
          mapping: $.
    - path: /v1/projects/{project-id}
      name: projects-project-id
      description: REST surface for projects-project_id.
      operations:
      - method: GET
        name: getproject
        description: Get project by ID
        call: national-cancer-institute-search.getproject
        with:
          project_id: rest.project_id
        outputParameters:
        - type: object
          mapping: $.
  - type: mcp
    namespace: national-cancer-institute-search-mcp
    port: 9090
    transport: http
    description: MCP adapter for NCI Genomic Data Commons (GDC) API — Search. One tool per consumed operation, routed inline
      through this capability's consumes block.
    tools:
    - name: search-annotations
      description: Search annotations
      hints:
        readOnly: true
        destructive: false
        idempotent: true
      call: national-cancer-institute-search.searchannotations
      with:
        filters: tools.filters
        fields: tools.fields
      outputParameters:
      - type: object
        mapping: $.
    - name: search-cases
      description: Search cases
      hints:
        readOnly: true
        destructive: false
        idempotent: true
      call: national-cancer-institute-search.searchcases
      with:
        filters: tools.filters
        fields: tools.fields
        size: tools.size
      outputParameters:
      - type: object
        mapping: $.
    - name: get-case-id
      description: Get case by ID
      hints:
        readOnly: true
        destructive: false
        idempotent: true
      call: national-cancer-institute-search.getcase
      with:
        case_id: tools.case_id
      outputParameters:
      - type: object
        mapping: $.
    - name: search-files
      description: Search files
      hints:
        readOnly: true
        destructive: false
        idempotent: true
      call: national-cancer-institute-search.searchfiles
      with:
        filters: tools.filters
        fields: tools.fields
        size: tools.size
      outputParameters:
      - type: object
        mapping: $.
    - name: get-file-metadata-id
      description: Get file metadata by ID
      hints:
        readOnly: true
        destructive: false
        idempotent: true
      call: national-cancer-institute-search.getfile
      with:
        file_id: tools.file_id
      outputParameters:
      - type: object
        mapping: $.
    - name: search-projects
      description: Search projects
      hints:
        readOnly: true
        destructive: false
        idempotent: true
      call: national-cancer-institute-search.searchprojects
      with:
        filters: tools.filters
        fields: tools.fields
        size: tools.size
        from: tools.from
        sort: tools.sort
      outputParameters:
      - type: object
        mapping: $.
    - name: get-project-id
      description: Get project by ID
      hints:
        readOnly: true
        destructive: false
        idempotent: true
      call: national-cancer-institute-search.getproject
      with:
        project_id: tools.project_id
      outputParameters:
      - type: object
        mapping: $.