Amazon HealthOmics Activate an Archived Read Set

arazzo: 1.0.1
info:
  title: Amazon HealthOmics Activate an Archived Read Set
  summary: Start a read set activation job in a sequence store and poll it to completion.
  description: >-
    To reduce storage charges, Amazon HealthOmics archives unused read sets
    after 30 days; they must be reactivated before they can be read or exported.
    This workflow starts a read set activation job for the supplied read sets in
    a sequence store and polls GetReadSetActivationJob until the job reaches a
    terminal state. Each step spells out its AWS REST-JSON request inline so the
    flow can be read and executed without opening the underlying OpenAPI
    description.
  version: 1.0.0
sourceDescriptions:
- name: healthOmicsApi
  url: ../openapi/amazon-healthomics-openapi.yaml
  type: openapi
workflows:
- workflowId: activate-read-set
  summary: Start a read set activation job and wait for it to complete.
  description: >-
    Starts a read set activation job for the supplied sources and polls
    GetReadSetActivationJob until the job is COMPLETED, COMPLETED_WITH_FAILURES,
    CANCELLED, or FAILED.
  inputs:
    type: object
    required:
    - sequenceStoreId
    - sources
    properties:
      sequenceStoreId:
        type: string
        description: The sequence store ID that holds the archived read sets.
      sources:
        type: array
        description: The activation job sources, each with a readSetId.
        items:
          type: object
  steps:
  - stepId: startActivationJob
    description: Start a read set activation job for the supplied read sets.
    operationId: StartReadSetActivationJob
    parameters:
    - name: sequenceStoreId
      in: path
      value: $inputs.sequenceStoreId
    requestBody:
      contentType: application/json
      payload:
        sources: $inputs.sources
    successCriteria:
    - condition: $statusCode == 200
    outputs:
      activationJobId: $response.body#/id
      activationStatus: $response.body#/status
  - stepId: pollActivationJob
    description: >-
      Poll the activation job until it reaches a terminal status. The status
      enum is SUBMITTED, IN_PROGRESS, CANCELLING, CANCELLED, FAILED, COMPLETED,
      or COMPLETED_WITH_FAILURES.
    operationId: GetReadSetActivationJob
    parameters:
    - name: sequenceStoreId
      in: path
      value: $inputs.sequenceStoreId
    - name: id
      in: path
      value: $steps.startActivationJob.outputs.activationJobId
    successCriteria:
    - condition: $statusCode == 200
    outputs:
      jobStatus: $response.body#/status
      statusMessage: $response.body#/statusMessage
      completionTime: $response.body#/completionTime
    onSuccess:
    - name: activationComplete
      type: end
      criteria:
      - context: $response.body
        condition: $.status == "COMPLETED"
        type: jsonpath
    - name: activationFailed
      type: end
      criteria:
      - context: $response.body
        condition: $.status == "FAILED" || $.status == "CANCELLED"
        type: jsonpath
    - name: activationStillRunning
      type: goto
      stepId: pollActivationJob
      criteria:
      - context: $response.body
        condition: $.status == "IN_PROGRESS" || $.status == "SUBMITTED"
        type: jsonpath
  outputs:
    activationJobId: $steps.startActivationJob.outputs.activationJobId
    finalStatus: $steps.pollActivationJob.outputs.jobStatus