Example of programmatic CWL creation

[mr-c]

Addresses #57

[codecov]

Codecov Report

Merging #70 (6519118) into main (3387a34) will not change coverage.
The diff coverage is n/a.

@@           Coverage Diff           @@
##             main      #70   +/-   ##
=======================================
  Coverage   23.82%   23.82%           
=======================================
  Files          14       14           
  Lines       19277    19277           
=======================================
  Hits         4593     4593           
  Misses      14684    14684           

---

Continue to review full report at Codecov.

Legend - Click here to learn more
Δ = absolute <relative> (impact), ø = not affected, ? = missing data
Powered by Codecov. Last update 3387a34...6519118. Read the comment docs.

[mr-c]

Target file:

#!/usr/bin/env cwl-runner

class: CommandLineTool
cwlVersion: v1.2

inputs:
  file1: File

outputs:
  output:
    type: File
    outputBinding: { glob: output }

baseCommand: [cat]

stdin: $(inputs.file1.path)
stdout: output

Produced by this script:

class: CommandLineTool
inputs:
- id: file1
  type: File
outputs:
- id: output
  type: File
  outputBinding:
    glob: output
cwlVersion: v1.2
baseCommand: cat
stdin: $(inputs.file1.path)
stdout: output

After running cwl-format

#!/usr/bin/env cwl-runner

cwlVersion: v1.2
class: CommandLineTool

inputs:
- id: file1
  type: File

outputs:
- id: output
  type: File
  outputBinding:
    glob: output
stdout: output

baseCommand: cat
stdin: $(inputs.file1.path)

These are all equivalent