hra-do-processor/do-processor.cwl at main · aishwarya-sinhasane/hra-do-processor · GitHub

1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
#!/usr/bin/env cwl-runner

cwlVersion: v1.0
class: CommandLineTool

requirements:
  DockerRequirement:
    dockerPull: ghcr.io/hubmapconsortium/hra-do-processor:main
    dockerOutputDirectory: /output
  EnvVarRequirement:
    envDef:
      DO_HOME: /output/digital-objects
      DEPLOY_HOME: /output/dist
  InitialWorkDirRequirement:
    listing:
    - entryname: digital-objects
      writable: true
      entry: $(inputs.do_home)
    - entryname: dist
      writable: true
      entry: $(inputs.deploy_home)

inputs:
  do_home:
    type: Directory
  deploy_home:
    type: Directory
  arguments:
    type: string[]
    inputBinding:
      position: 1

outputs:
  do_home:
    type: Directory
    outputBinding:
      glob: digital-objects
  deploy_home:
    type: Directory
    outputBinding:
      glob: dist
  output:
    type: stdout
stdout: output.txt