Get rid of checksamplesheet.py and switch to nf-schema
Open
enhancement
- Dominant language
- Nextflow
- Stars
- 246
- Forks
- 184
- PR merge metrics
- No merged PRs in 30d
Description
Description of feature
As requested here, the pipeline should switch to nf-schema. As the validation needs to use features of nf-schema and the current template still uses nf-validation, this will be implemented once nf-schema is included in the template.
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
Review the current pipeline template and its nf-validation setup, then compare the requested nf-schema features with the existing checksamplesheet.py workflow. Done means the template supports nf-schema and the pipeline no longer relies on checksamplesheet.py for validation.
Written by the indexing model from the issue text.
Assessment
- Domain
- bioinformatics
- Issue type
- Refactor
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 25/100