cwlVersion: v1.1
class: CommandLineTool
hints:
  ResourceRequirement:
    coresMin: 1
    ramMin: 3000
inputs:
  reversed_sorting:
    type: string
    inputBinding: {position: 3}
  readsFA:
    type: File
    inputBinding: {position: 2}
  script:
    type: File
    inputBinding: {position: 1}
    default: {class: File, location: sort_fasta_by_quality_and_len.py}
stdout: $(inputs.readsFA.nameroot).sorted_by_quality_and_len.fasta
outputs:
  sortedReadsFA:
    type: stdout
  dups:
    type: File
    outputBinding: {glob: dups.txt}
requirements:
  InlineJavascriptRequirement: {}
  ShellCommandRequirement: {}
baseCommand: [python]