Stats & some other minor changes

[FriederikeHanssen]

Many thanks to contributing to qbic-pipelines/bamtofastq!

Please fill in the appropriate checklist below (delete whatever is not relevant). These are the most common things requested on pull requests (PRs).

As discussed on slack, this pipeline can now be run without any stats computation. This should speed up the process. Additionally, some further minor changes were made: updated testate for index files, changed, and docs.

PR checklist

• [x] This comment contains a description of changes (with reason)
• [x] If you've fixed a bug or added code that should be tested, add tests!
• [x] If necessary, add test data to testdata/
• [x] Ensure the test suite passes (nextflow run . -profile test,docker).
• [x] Make sure your code lints (nf-core lint .).
• [x] Documentation in docs is updated
• [x] CHANGELOG.md is updated
• [ ] README.md is updated

Learn more about contributing: https://github.com/qbic-pipelines/bamtofastq/tree/master/.github/CONTRIBUTING.md

[FriederikeHanssen]

I am afraid the CI tests are not passing. as far as I see the reason is, that the test data is not merged yet, but I have updated the config already.

[ggabernet]

The bai for the tests are missing from the test data though

[FriederikeHanssen]

I see them here. They will be merged in now, which makes the tests fail right now :(