blog-examples/debugging/fastq_example/fastqc_blog_broken.cwl

   1 cwlVersion: v1.1
   2 class: CommandLineTool
   3 label: Quality check on FASTQ
   4
   5 requirements:
   6   DockerRequirement:
   7     dockerPull: biocontainers/fastqc:v0.11.9_cv6
   8
   9 inputs:
  10   fastq1:
  11     type: Files
  12   fastq2:
  13     type: File
  14
  15 outputs:
  16   out-html:
  17     type: File
  18     outputBinding:
  19       glob: "*html"
  20   out-zip:
  21     type: File[]
  22     outputBinding:
  23       glob: "*fastqc.zip"
  24
  25 baseCommand: fastqc
  26
  27 arguments:
  28   - $(inputs.fastq1.path)
  29   - $(inputs.fastq2.path)