Updates a bunch of nf-core modules.
Most of them are just formatting, only a few version bumps.

I had to change the mmseqs database of test_assembly_input to Kalamari, because with UniProt i got a weird error:

  Query database size: 28661 type: Aminoacid
  Estimated memory consumption: 2G
  Target database size: 573661 type: Aminoacid
  Index table k-mer threshold: 127 at k-mer size 6
  Index table: counting k-mers
  [=================================================================] 573.66K 0s 91ms
  Index table: Masked residues: 0
  No k-mer could be extracted for the database UniProtKB-Swiss-Prot/database.
  Maybe the sequences length is less than 14 residues.
  Error: Prefilter died
  Error: search step died
  Error: predictexons step died

But the runtime is basically the same.

PR checklist

• 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 pipeline conventions in the contribution docs
• If necessary, also make a PR on the nf-core/mag branch on the nf-core/test-datasets repository.
• Make sure your code lints (nf-core pipelines lint).
• Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
• Check for unexpected warnings in debug mode (nextflow run . -profile debug,test,docker --outdir <OUTDIR>).
• Usage Documentation in docs/usage.md is updated.
• Output Documentation in docs/output.md is updated.
• CHANGELOG.md is updated.
• README.md is updated (including new tool citations and authors/contributors).