Add module: sylph/query

[nghiaagent]

This module adds the query command from sylph. It accepts inputs similar to sylph profile, but instead of returning the metagenomic profile of a sample, it returns cANI estimates per detected genome in a sample.

PR checklist

Closes #12396

• 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.
• Broadcast software version numbers to topic: versions - See version_topics
• 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

[mashehu]

Please join the nf-core github org via the slack channel so the CI runs for you.

[nghiaagent]

@mashehu thank you, I can see you have added me to the org as well!

[nghiaagent]

I applied the requested changes and merged from upstream. nf-test with Docker worked locally. @mashehu some of the changes you suggested are also in the remaining sylph modules, should I go adjust them as well in another issue after this is done?