Samtools merge module not respecting prefix
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bug
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- Nextflow
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Description
Have you checked the docs?
Description of the bug
Prefix should be prefix in stub. Current behavior is not mimicking the script section.
Command used and terminal output
Relevant files
No response
System information
No response
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 at modules/nf-core/samtools/merge/main.nf around line 49 and compare the script section with the stub section. Check how the prefix is assigned in each path; done means the stub uses the expected prefix consistently with the script behavior.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics
- Issue type
- Bug
- Difficulty
- 2/5
- Estimated time
- 1-3 hours
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 45/100