Alex Valcourt Caron

Add native support for multiple `org_path` in modules and subworkflows directories

3

### Description of feature As discussed with @edmundmiller and the infrastructure team at the Boston Hackathon 2024. `Neuroimaging` modules and subworkflows in nf-core will live aside of the `nf-core` directories,...

Lean down CLI for remote component repositories

4

### Description of feature When using a remote component repository, most `modules` and `subworkflows` commands need to be augmented with `--git-remote` or `-g` and if needed the `--branch`. It ok...

First Neuroimaging module : denoising/nlmeans

6

## PR checklist - [ ] This comment contains a description of changes (with reason). - [x] If you've fixed a bug or added code that should be tested, add...

Error linting module that has the keyword `val` in its emit name

1

### Description of the bug I am linting the module [reconst/shmetrics](https://github.com/AlexVCaron/nf-neuro/tree/feat/nf-core_3.2.0/modules/nf-neuro/reconst/shmetrics) on my `nf-core/modules` clone ([nf-neuro](github.com/scilus/nf-neuro)). I'm getting a lint error that the **output** section is badly formatted, saying the...

As we know now (I think so), `nf-core` conventions encompass the ones imposed by the **language server**, but do apply more restrictions. Under that, **VSCode highlighting wil follow current Nextflow...

I removed the `multiqc` module from `nf-core` from my pipeline to install my own for development purposes. Now, I get this error for no valid reason : The error disappear...