fix(fastk/merge): use topic versions and update snapshots

[prototaxites]

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.
• 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

[charles-plessy]

I tried "*.ktab*" on my computer and the linting went without error. Is it really needed to hide something here?

[prototaxites]

It seems to be a regression in the dev version of tools: https://nfcore.slack.com/archives/CE5LG7WMB/p1768480946931369

I agree we should just use *.ktab* here ideally! But we do need to capture the hidden files in the module as the kmer databases consist of a normal index file and N hidden files with a . prefix.

[charles-plessy]

Same here, is hidden: true really needed?

[charles-plessy]

I tried in my computer with { assert snapshot(process.out).match() } and it works fine. Is it really needed to check each output channel one by one?

[prototaxites]

This one was also passing fine locally on my computer, but the snapshot was not stable when run on CI. I think the merging of two tables is non-deterministic in some way that might depend on e.g. the locale...