sanda-v2.yml

apiVersion: sanda.broad.io/v1
workflow:
  name: updated_example_workflow_in_version_2
  description: This is an example workflow
  version: 0.1.1
  environment:
    - DATABASE_URL
    - SECRET_KEY
    - BASE_URL
  jobs:
    - id: create_workspace
      name: create_workspace
      uses: docker.io/spitfire:latest
      entrypoint: create-workspace
      timeout: 10
      resources:
        cpu: 1
        memory: 1Gi
      needs: [ ]
      environment:
        - DATABASE_URL
        - SECRET_KEY
        - FIRECLOUD_URL
      inputs:
        - name: workspace_name
          type: str
          default: "workspace-1"
      outputs:
        - name: workspace_name
          type: str

    - name: extract_data_from_single_cell_portal
      image: ubuntu:latest
      entrypoint: extract_data
      needs: [ create_workspace ]
      inputs:
       - name: workspace_name
          type: str
          value: create_workspace.workspace_name
      retries: 3,
      outputs:
        - name: files
          type: list

    - name: process_data
      image: ubuntu:latest
      entrypoint: extract_data
      needs: [ create_workspace, extract_data_from_single_cell_portal]
      scatter: [files]
      inputs:
       - name: workspace_name
          type: str
          value: create_workspace.workspace_name
        - name: files
          type: list
          value: extract_data_from_single_cell_portal.files
      retries: 3,
      outputs:
        - name: files
          type: list

    - name: send_email
      image: ubuntu:latest
      entrypoint: extract_data
      needs: [ extract_data_from_single_cell_portal]
      conditions:
        - name: "check_success"
          type: "success"
          depends_on: "process_data"
        - name: "check_run_status"
          type: "run"
          depends_on: "another_task"
          expression: "another_task.status == 'completed' AND process_data.status == 'success'"

      inputs:
       - name: workspace_name
          type: str
          value: create_workspace.workspace_name
      retries: 3