CWL description for https://github.com/merkys/ChemOnomatopist

chemonomatopist.cwl

cwlVersion: v1.2
class: CommandLineTool

inputs:
  structures:
    type: File
    streamable: true

  debug_mode:
    type: boolean?
    default: false
    inputBinding:
      prefix: --debug

stdin: $(inputs.structures.path)

# echo C=C1C=CC=C1 | chemonomatopist

baseCommand: chemonomatopist

hints: 
  DockerRequirement:
    dockerFile: |
        FROM debian:testing-slim
        RUN apt-get update && apt-get install -y chemonomatopist

stdout: resulting_IUPACs.txt

outputs:
  IUPACs:
    type: File
    format: iana:text/tab-separated-values
    outputBinding:
       glob: '*.txt'
       #loadContents: true
       #outputEval: $(self[0].contents)

$namespaces:
  iana: https://www.iana.org/assignments/media-types/