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Add deepsomatic module scaffolding

Open vaxyzek opened this issue 1 year ago • 2 comments

This is a first version of PR to add deepsomatic capabilities into nf-core/modules.

PR checklist

Closes #XXX

  • [x] This comment contains a description of changes (with reason).
  • [x] If you've fixed a bug or added code that should be tested, add tests!
  • [x] If you've added a new tool - have you followed the module conventions in the contribution docs
  • [x] If necessary, include test data in your PR.
  • [x] Remove all TODO statements.
  • [x] Emit the versions.yml file.
  • [x] Follow the naming conventions.
  • [x] Follow the parameters requirements.
  • [x] Follow the input/output options guidelines.
  • [x] Add a resource label
  • [x] Use BioConda and BioContainers if possible to fulfil software requirements.
  • Ensure that the test works with either Docker / Singularity. Conda CI tests can be quite flaky:
    • For modules:
      • [x] nf-core modules test deepsomatic --profile docker

vaxyzek avatar Sep 10 '24 17:09 vaxyzek

@nf-core-bot fix linting pretty please :pray:

maxulysse avatar Sep 12 '24 09:09 maxulysse

Nothing for me to do here! :shrug: This is probably because the linting errors come from nf-core lint and have to be fixed manually (or with nf-core lint --fix).

github-actions[bot] avatar Sep 12 '24 09:09 github-actions[bot]

@nf-core-bot fix linting pretty please :pray:

maxulysse avatar Nov 01 '24 08:11 maxulysse

Please @nf-core-bot fix linting pretty please :pray: :pray:

maxulysse avatar Nov 01 '24 08:11 maxulysse

hi @maxulysse, I've committed proposed input channels re-arrangement and excluded deepsomatic from conda and singularity tests.

vaxyzek avatar Nov 05 '24 21:11 vaxyzek

@nf-core-bot fix linting pretty please :pray:

maxulysse avatar Nov 11 '24 17:11 maxulysse

Nothing for me to do here! :shrug: This is probably because the linting errors come from nf-core lint and have to be fixed manually (or with nf-core lint --fix).

github-actions[bot] avatar Nov 11 '24 17:11 github-actions[bot]