Goalign cleanseqs

[andersgs]

Closes #1782

PR checklist

• [X] If you've added a new tool - have you followed the module conventions in the contribution docs
• [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:
  • [X] PROFILE=docker pytest --tag <MODULE> --symlink --keep-workflow-wd --git-aware
  • [ ] PROFILE=singularity pytest --tag <MODULE> --symlink --keep-workflow-wd --git-aware
  • [X] PROFILE=conda pytest --tag <MODULE> --symlink --keep-workflow-wd --git-aware

[andersgs]

@Emiller88 and @matthdsm thank you for the review. I'll work on it over the weekend.

[edmundmiller]

@andersgs I think you didn't push your work? You added comments but there's no new commits. No rush, just wanted to review them if you were ready!

[andersgs]

@Emiller88 that is true. I am working on adding the extra tests for different formats. I am also trying to work upstream to allow for compressed output. While the tool allows compressed input, it always outputs uncompressed output. I'll make the push as soon as I can get the test datasets into the test data repo.

[matthdsm]

@andersgs, are you still to work on this? No pressure, we're just cleaning up for the upcoming nf-core hackathon.