nf-core / nf-core/variantbenchmarking
tabix modules are depreciated
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- Dominant language
- Nextflow
- Stars
- 51
- Forks
- 31
- Avg merge
- 1d 22h
- Merged PRs (30d)
- 1
Description
Replace tabix/* modules with htslib/bgziptabix
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
Locate all tabix/* module references in the repository and compare their usage with modules/nf-core/htslib/bgziptabix/main.nf. Replace the deprecated references with the htslib/bgziptabix module, then confirm that no obsolete tabix/* references remain and the pipeline still resolves them correctly.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics
- Issue type
- Refactor
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Active
- Clarity
- Mostly clear
- Newbie friendliness
- 68/100