nf-core / nf-core/denovotranscript
Duplicated error with soft_filtered_transcripts is true
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bug
- Dominant language
- Nextflow
- Stars
- 26
- Forks
- 3
- PR merge metrics
- No merged PRs in 30d
Description
Description of the bug
Hello,
The EVIGENE would throw a dup error (255) if soft_filtered_transcripts of SPADES is set to TRUE. Is there a way to use soft_filtered_transcripts and avoid the duplications?
Thanks
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
No relevant files, command, or terminal output are provided. Start by reproducing the EVIGENE duplicate error with SPADES soft_filtered_transcripts set to TRUE, then trace how that option's transcripts enter the duplication check. Done means the pipeline can use the option without producing duplicate error 255.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100