Paolo Di Tommaso

Thanks for reporting. Indeed, we need to work to improve this

Sorry Ben, let's move this ahead. I've also added some stuff to the RST docs. Let's plan the markdown version post 22.10.0 nextflow release.

This looks like something weird in the pipeline code, but it's not accessible https://github.com/nf-core/mycosnp/

To look into this, it's required minimal testing that replicate the problem. This pipeline it's too big for a troubleshooting

Thanks for this PR, I think it's very valuable. I saw you were proposing also ``` Channel.fromMap("my.bam").flatMap(Htsjdk::extractSamples) ``` That's neat, but there isn't support for modern java methods reference in...

I have to say, neat! at this point, I need to find a nice to include it as a plugin

> I can't find any 'plugin' in the NF doc :-) This is the problem :) I'm dreaming a mechanism to import it as an external module https://www.nextflow.io/docs/latest/dsl2.html#modules

Now that we have the support for custom operators. it could be possible to integration this into separate plugin. Tagging @bentsherman in the case he wants to give a try...

and it crashes!

I've patched, don't worry