zatsu-cwl-generator

This is a simple CWL document generator from given execution commands.

Build Requirements

• Visual Studio Code (optional)
  • This repository provides a development environment for Visual Studio Code Remote - Containers extension
• D compiler
  • I confirmed with dmd and ldc2 but it should work with other compilers such as gdc.

How to execute

There are several ways to execute it. See zatsu-cwl-generator --help for more details.

• Use Docker container

  $ docker run --rm ghcr.io/tom-tan/zatsu-cwl-generator "cat aaa.txt bbb.txt > output.txt"
  #!/usr/bin/env cwl-runner
  # Generated from: cat aaa.txt bbb.txt > output.txt
  class: CommandLineTool
  cwlVersion: v1.0
  baseCommand: cat
  arguments:
    - $(inputs.aaa_txt)
    - $(inputs.bbb_txt)
  inputs:
    - id: aaa_txt
      type: File
      default:
        class: File
        location: aaa.txt
    - id: bbb_txt
      type: File
      default:
        class: File
        location: bbb.txt
  outputs:
    - id: all-for-debugging
      type:
        type: array
        items: [File, Directory]
      outputBinding:
        glob: "*"
    - id: out
      type: stdout
  stdout: output.txt

• Download the latest binary from the release page

  $ export ver=v1.1.0
  $ export os=linux # `export os=osx` for macOS
  $ wget -O zatsu-cwl-generator.tar.xz https://github.com/tom-tan/zatsu-cwl-generator/releases/download/${ver}/zatsu-cwl-generator-${ver}-${os}-x86_64.tar.xz
  $ tar xf zatsu-cwl-generator.tar.xz
  $ chmod +x zatsu-cwl-generator
  $ ./zatsu-cwl-generator "cat aaa.txt bbb.txt > output.txt"
  ...

• Use rdmd

  $ rdmd -J. zatsu-cwl-generator.d "cat aaa.txt bbb.txt > output.txt"
  ...

• Build a binary and use it

  $ ldc2 -J. zatsu-cwl-generator.d
  $ ./zatsu-cwl-generator "cat aaa.txt bbb.txt > output.txt"
  ...

If you need a static linked binary, add -static to the build command:

$ ldc2 -J. zatsu-cwl-generator.d # for dynamic link (default)
$ ldd zatsu-cwl-generator
        /lib/ld-musl-x86_64.so.1 (0x7f476696e000)
        libgcc_s.so.1 => /usr/lib/libgcc_s.so.1 (0x7f4766711000)
        libc.musl-x86_64.so.1 => /lib/ld-musl-x86_64.so.1 (0x7f476696e000)

$ ldc2 -J. -static zatsu-cwl-generator.d # for static link
$ ldd zatsu-cwl-generator
/lib/ld-musl-x86_64.so.1: zatsu-cwl-generator: Not a valid dynamic program

How to test this program

$ rdmd -J. -unittest -run zatsu-cwl-generator.d

How to generate an internal document

$ ldc2 -J. -Dddocs zatsu-cwl-generator.d

You can see a HTML file in the docs directory.