Code

Fix configargparse in CWL#4618

Code

Merged

stxue1 merged 15 commits intomasterDataBiosphere/toil:masterfrom issues/4615-configargparse-cwlDataBiosphere/toil:issues/4615-configargparse-cwlCopy head branch name to clipboardOct 26, 2023

+73-99

Commits

Commits on Oct 10, 2023

• Parse config file separately from rest of args

  stxue1

  committed
  0b3f120

• Mypy

  stxue1

  committed
  fbb2ce2

• update configargparse stub

  stxue1

  committed
  bed1263

Commits on Oct 11, 2023

• Dont try to eat cwl arguments

  stxue1

  committed
  970caa2

• Use simpler workaround

  stxue1

  committed
  6186a6c

Commits on Oct 18, 2023

• Revert to just CWL

  stxue1

  committed
  111e713

Commits on Oct 19, 2023

• Change REMAINDER to "*", add help statements and test command line inputs

  stxue1

  committed
  1ff1ec3

• Remove extradockergroup name

  stxue1

  committed
  96bac9b

• Declare type

  stxue1

  committed
  e946f4f

Commits on Oct 20, 2023

• Merge branch 'master' into issues/4615-configargparse-cwl

  adamnovak

  authored
  7bf3dce

Commits on Oct 24, 2023

• Add proper relative path to cwl file

  stxue1

  committed
  66b0648

• Remove unnecessary test

  stxue1

  committed
  5ac04ea

• Merge remote-tracking branch 'origin/issues/4615-configargparse-cwl' into issues/4615-configargparse-cwl

  stxue1

  committed
  f7683b9

Commits on Oct 25, 2023

• Merge branch 'master' into issues/4615-configargparse-cwl

  stxue1

  authored
  293d8c7

Commits on Oct 26, 2023

• Merge branch 'master' into issues/4615-configargparse-cwl

  adamnovak

  authored
  d66aa6d