Properly test the cram output of bwa/mem and bwamem2/mem
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enhancement
nf-test
tests
- Dominant language
- Nextflow
- Stars
- 429
- Forks
- 1.1k
- Avg merge
- 1d 6h
- Merged PRs (30d)
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Description
The cram output files should be tested for those modules. This can also be done with the nft-bam plugin!
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start with the bwa/mem and bwamem2/mem module tests and inspect the nft-bam plugin mentioned in the issue. Add coverage for their CRAM output files, then run the relevant nf-test checks to confirm the outputs are tested.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics, testing-qa
- Issue type
- Feature
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100