Amazon HealthOmics · Arazzo Workflow

Amazon HealthOmics Run a Workflow in a Run Group

Version 1.0.0

Create a run group, start a run inside it, and poll the run to completion.

1 workflow 2 source APIs 1 provider
View Spec View on GitHub BioinformaticsGenomicsHealthcareLife SciencesCloud ComputingArazzoWorkflows

Provider

amazon-healthomics

Workflows

run-workflow-in-group
Create a run group, start a run within it, and wait for the run to finish.
Creates a run group with concurrency and resource limits, starts a run bound to that group against an existing workflow, and polls GetRun until the run status is COMPLETED, CANCELLED, DELETED, or FAILED.
3 steps inputs: groupName, groupRequestId, maxCpus, maxDuration, maxRuns, parameters, roleArn, runName, runRequestId, workflowId outputs: finalRunStatus, runGroupId, runId
1
createRunGroup
Create a run group that caps concurrency and resource usage for its runs.
2
startRun
Start a run inside the new run group against an existing workflow.
3
pollRun
Poll the run until it reaches a terminal status. The status enum is PENDING, STARTING, RUNNING, STOPPING, COMPLETED, DELETED, CANCELLED, or FAILED.

Source API Descriptions

Arazzo Workflow Specification

Raw ↑
arazzo: 1.0.1
info:
  title: Amazon HealthOmics Run a Workflow in a Run Group
  summary: Create a run group, start a run inside it, and poll the run to completion.
  description: >-
    Run groups let teams cap the concurrency, CPU, GPU, and duration consumed by
    a set of HealthOmics runs. This workflow creates a run group, starts a run
    that belongs to that group against an existing workflow, and polls GetRun
    until the run 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: runApi
  url: ../openapi/amazon-healthomics-run-api-openapi.yml
  type: openapi
- name: rungroupApi
  url: ../openapi/amazon-healthomics-rungroup-api-openapi.yml
  type: openapi
workflows:
- workflowId: run-workflow-in-group
  summary: Create a run group, start a run within it, and wait for the run to finish.
  description: >-
    Creates a run group with concurrency and resource limits, starts a run
    bound to that group against an existing workflow, and polls GetRun until the
    run status is COMPLETED, CANCELLED, DELETED, or FAILED.
  inputs:
    type: object
    required:
    - groupRequestId
    - workflowId
    - roleArn
    - runRequestId
    properties:
      groupName:
        type: string
        description: A name for the run group.
      maxCpus:
        type: integer
        description: The maximum number of CPUs the group may use.
      maxRuns:
        type: integer
        description: The maximum number of concurrent runs in the group.
      maxDuration:
        type: integer
        description: A maximum run time for the group in minutes.
      groupRequestId:
        type: string
        description: Idempotency token for the CreateRunGroup request.
      workflowId:
        type: string
        description: The existing workflow ID to run.
      roleArn:
        type: string
        description: The service role ARN the run assumes.
      runName:
        type: string
        description: A name for the run.
      parameters:
        type: object
        description: Parameters passed to the run.
      runRequestId:
        type: string
        description: Idempotency token for the StartRun request.
  steps:
  - stepId: createRunGroup
    description: Create a run group that caps concurrency and resource usage for its runs.
    operationId: CreateRunGroup
    requestBody:
      contentType: application/json
      payload:
        name: $inputs.groupName
        maxCpus: $inputs.maxCpus
        maxRuns: $inputs.maxRuns
        maxDuration: $inputs.maxDuration
        requestId: $inputs.groupRequestId
    successCriteria:
    - condition: $statusCode == 201
    outputs:
      runGroupId: $response.body#/id
      runGroupArn: $response.body#/arn
  - stepId: startRun
    description: Start a run inside the new run group against an existing workflow.
    operationId: StartRun
    requestBody:
      contentType: application/json
      payload:
        workflowId: $inputs.workflowId
        workflowType: PRIVATE
        roleArn: $inputs.roleArn
        name: $inputs.runName
        runGroupId: $steps.createRunGroup.outputs.runGroupId
        parameters: $inputs.parameters
        requestId: $inputs.runRequestId
    successCriteria:
    - condition: $statusCode == 201
    outputs:
      runId: $response.body#/id
      runStatus: $response.body#/status
  - stepId: pollRun
    description: >-
      Poll the run until it reaches a terminal status. The status enum is
      PENDING, STARTING, RUNNING, STOPPING, COMPLETED, DELETED, CANCELLED, or
      FAILED.
    operationId: GetRun
    parameters:
    - name: id
      in: path
      value: $steps.startRun.outputs.runId
    successCriteria:
    - condition: $statusCode == 200
    outputs:
      runStatus: $response.body#/status
    onSuccess:
    - name: runComplete
      type: end
      criteria:
      - context: $response.body
        condition: $.status == "COMPLETED"
        type: jsonpath
    - name: runFailed
      type: end
      criteria:
      - context: $response.body
        condition: $.status == "FAILED" || $.status == "CANCELLED"
        type: jsonpath
    - name: runStillRunning
      type: goto
      stepId: pollRun
      criteria:
      - context: $response.body
        condition: $.status == "PENDING" || $.status == "STARTING" || $.status == "RUNNING"
        type: jsonpath
  outputs:
    runGroupId: $steps.createRunGroup.outputs.runGroupId
    runId: $steps.startRun.outputs.runId
    finalRunStatus: $steps.pollRun.outputs.runStatus

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