Version update: Modkit repair, callmods and bedmethyltobigwig

[jkh00]

Update modkit version fro v0.5.0 to v0.6.0 for module modkit repair and modkit callmods. No codes were changed, only the tool version was updated.

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

[jkh00]

also bumping for another modkit module: modkit/bedmethyltobigwig, adding it shortly

[jkh00]

not sure why the snapshots were different for modkit/bedmethyltobigwig here. I've run nf-core modules test --update locally and the md5 matches everytime, no idea why it is in conflict here