getorganelle partial output
Open
Nobody has claimed this yet.
bug
- Dominant language
- Nextflow
- Stars
- 429
- Forks
- 1.1k
- Avg merge
- 1d 6h
- Merged PRs (30d)
- 153
Description
Have you checked the docs?
Description of the bug
Hi! I think getorganelle/fromreads has a potential to exclude some outputs by using too strict find pattern in the line 37: graph1.1* will exclude outputs named graph1.2*, and the user will think they have a single configuration.
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
Open modules/nf-core/getorganelle/fromreads/main.nf and inspect line 37, especially the graph1.1* find pattern. Review the linked GetOrganelle FAQ to understand the graph1.2* outputs. Done means the module retains all relevant output configurations instead of excluding graph1.2* files.
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
- Clearly specified
- Newbie friendliness
- 55/100