Add fasta existence check for prepare_genome
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Nobody has claimed this yet.
bug
- Dominant language
- Nextflow
- Stars
- 35
- Forks
- 23
- Avg merge
- 16d 3h
- Merged PRs (30d)
- 1
Description
Description of the bug
If no fasta provided then the error message is quite obscure:
ERROR ~ Argument of `file()` function cannot be null
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 by locating the prepare_genome entry point and tracing how the fasta input reaches file(). Check whether the pipeline has an existing validation path or test for missing inputs. Done means a missing fasta produces a clear, specific error instead of the null file() message.
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
- Quiet
- Clarity
- Mostly clear
- Newbie friendliness
- 55/100