port parabricks/indexgvcf to nf-test

[famosab]

PR checklist

Closes #XXX

• This comment contains a description of changes (with reason).
• If you've fixed a bug or added code that should be tested, add tests!
• If you've added a new tool - have you followed the module conventions in the contribution docs
• If necessary, include test data in your PR.
• Remove all TODO statements.
• Emit the versions.yml file.
• Follow the naming conventions.
• Follow the parameters requirements.
• Follow the input/output options guidelines.
• Add a resource label
• 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:
    • nf-core modules test <MODULE> --profile docker
    • nf-core modules test <MODULE> --profile singularity
    • nf-core modules test <MODULE> --profile conda
  • For subworkflows:
    • nf-core subworkflows test <SUBWORKFLOW> --profile docker
    • nf-core subworkflows test <SUBWORKFLOW> --profile singularity
    • nf-core subworkflows test <SUBWORKFLOW> --profile conda

[famosab]

@nf-core-bot Can you fix the linting please?

[mashehu]

are the tests passing on a test instance/local gpu cluster?

[famosab]

yes (I only tested with docker)

[jfy133]

Note I'm not familiar with the GPU udptes but mostly looksl ike adding tags to go on the right runner so fine with me from that PoV 👍

[famosab]

Note: the .idx file did not produce stable snapshots so I am just checking for the filename at the moment but I am happy to extend with other ideas.