Handle modules with custom scripts
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modules
- Dominant language
- Python
- Stars
- 322
- Forks
- 255
- Avg merge
- 2d 3h
- Merged PRs (30d)
- 5
Description
We need a way to handle modules with custom scripts.
Ideally this could be handled by nextflow by
- either considering
bindirectories within$moduleDirautomaticall, see https://github.com/nextflow-io/nextflow/issues/1798, - or reliably mounting
$moduleDirinto containers, see https://github.com/nextflow-io/nextflow/issues/1798
If it turns out this can't be solved on the nextflow side, we would need some tooling in this repo that installs those scripts into
the pipeline directory upon nf-core modules install.
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 with the nf-core modules install entry point and review the two linked Nextflow issue paths: automatic $moduleDir/bin handling and mounting $moduleDir into containers. Done means there is a decided, reliable way to make module custom scripts available, either through Nextflow or tooling in this repository.
Written by the indexing model from the issue text.
Assessment
- Domain
- tooling
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100