openapi: 3.2.0
info:
  title: Phi — Protein Design Files API
  description: 'Phi is a biomodal computation platform for protein design. Submit structure-prediction and sequence-design jobs, track their status, and retrieve scored results — all via a single REST API.


    ## Authentication

    All endpoints require an API key supplied as `Authorization: Bearer <key>` or a Clerk session token. Organisation ID is derived automatically from Clerk tokens; static-key callers must include `X-Organization-ID`.


    ## Quick links

    - `POST /v1/phi/jobs` — submit a job

    - `GET  /v1/phi/jobs/{job_id}/status` — poll status

    - `GET  /v1/phi/jobs/{job_id}/scores` — download scored results

    '
  version: 1.0.0
servers:
- url: https://api.dyno-agents.app
  description: Production
- url: http://localhost:8000
  description: Local development
tags:
- name: files
paths:
  /v1/phi/files/upload-url:
    post:
      tags:
      - files
      summary: Create Upload Url
      description: "Generate a short-lived signed GCS URL so the browser or CLI can PUT a file\ndirectly to cloud storage without routing through the API server.\n\nClient workflow:\n  1. POST /v1/phi/files/upload-url → receive upload_url + gcs_uri\n  2. PUT upload_url with raw file bytes (no auth header needed)\n  3. Pass gcs_uri as params.fasta_gcs_uri or params.pdb_gcs_uri in job submission"
      operationId: create_upload_url_v1_phi_files_upload_url_post
      parameters:
      - name: x-api-key
        in: header
        required: false
        schema:
          anyOf:
          - type: string
          - type: 'null'
          description: API key for authentication
          title: X-Api-Key
        description: API key for authentication
      - name: X-User-ID
        in: header
        required: false
        schema:
          anyOf:
          - type: string
          - type: 'null'
          title: X-User-Id
      - name: X-Organization-ID
        in: header
        required: false
        schema:
          anyOf:
          - type: string
          - type: 'null'
          title: X-Organization-Id
      requestBody:
        required: true
        content:
          application/json:
            schema:
              $ref: '#/components/schemas/UploadUrlRequest'
      responses:
        '200':
          description: Successful Response
          content:
            application/json:
              schema:
                $ref: '#/components/schemas/UploadUrlResponse'
        '422':
          description: Validation Error
          content:
            application/json:
              schema:
                $ref: '#/components/schemas/HTTPValidationError'
  /v1/phi/files/upload:
    post:
      tags:
      - files
      summary: Upload File Direct
      description: "Upload a file directly through the API server (proxy to GCS).\n\nUse this instead of ``POST /upload-url`` when a direct client→GCS PUT is\nblocked by VPC Service Controls or firewall rules.\n\nClient workflow:\n  1. POST /v1/phi/files/upload (multipart/form-data, field ``file``)\n  2. Pass the returned ``gcs_uri`` as ``params.fasta_gcs_uri`` or\n     ``params.pdb_gcs_uri`` in job submission — identical to the signed-URL flow."
      operationId: upload_file_direct_v1_phi_files_upload_post
      parameters:
      - name: x-api-key
        in: header
        required: false
        schema:
          anyOf:
          - type: string
          - type: 'null'
          description: API key for authentication
          title: X-Api-Key
        description: API key for authentication
      - name: X-User-ID
        in: header
        required: false
        schema:
          anyOf:
          - type: string
          - type: 'null'
          title: X-User-Id
      - name: X-Organization-ID
        in: header
        required: false
        schema:
          anyOf:
          - type: string
          - type: 'null'
          title: X-Organization-Id
      requestBody:
        required: true
        content:
          multipart/form-data:
            schema:
              $ref: '#/components/schemas/Body_upload_file_direct_v1_phi_files_upload_post'
      responses:
        '200':
          description: Successful Response
          content:
            application/json:
              schema:
                $ref: '#/components/schemas/DirectUploadResponse'
        '422':
          description: Validation Error
          content:
            application/json:
              schema:
                $ref: '#/components/schemas/HTTPValidationError'
components:
  schemas:
    HTTPValidationError:
      properties:
        detail:
          items:
            $ref: '#/components/schemas/ValidationError'
          type: array
          title: Detail
      type: object
      title: HTTPValidationError
    DirectUploadResponse:
      properties:
        gcs_uri:
          type: string
          title: Gcs Uri
          description: GCS URI of the uploaded object (use as job param)
      type: object
      required:
      - gcs_uri
      title: DirectUploadResponse
      description: Response for POST /v1/phi/files/upload.
    UploadUrlRequest:
      properties:
        filename:
          type: string
          title: Filename
          description: Name of the file to upload (e.g. pdl1_binders.fasta)
        content_type:
          type: string
          title: Content Type
          description: MIME type of the file being uploaded
          default: application/octet-stream
        size_bytes:
          anyOf:
          - type: integer
            minimum: 1.0
          - type: 'null'
          title: Size Bytes
          description: File size in bytes (optional; used for validation only)
      type: object
      required:
      - filename
      title: UploadUrlRequest
      description: Request body for POST /v1/phi/files/upload-url.
    ValidationError:
      properties:
        loc:
          items:
            anyOf:
            - type: string
            - type: integer
          type: array
          title: Location
        msg:
          type: string
          title: Message
        type:
          type: string
          title: Error Type
      type: object
      required:
      - loc
      - msg
      - type
      title: ValidationError
    Body_upload_file_direct_v1_phi_files_upload_post:
      properties:
        file:
          type: string
          format: binary
          title: File
          description: File to upload
        content_type:
          type: string
          title: Content Type
          description: MIME type of the file
          default: application/octet-stream
      type: object
      required:
      - file
      title: Body_upload_file_direct_v1_phi_files_upload_post
    UploadUrlResponse:
      properties:
        upload_url:
          type: string
          title: Upload Url
          description: Signed PUT URL to upload the file directly to GCS
        gcs_uri:
          type: string
          title: Gcs Uri
          description: GCS URI of the uploaded object (use as job param)
        expires_in:
          type: integer
          title: Expires In
          description: Seconds until the upload URL expires
      type: object
      required:
      - upload_url
      - gcs_uri
      - expires_in
      title: UploadUrlResponse
      description: Response for POST /v1/phi/files/upload-url.