Luca Cozzuto

### Is there an existing module for this? - [X] I have searched for the existing module ### Is there an open PR for this? - [X] I have searched...

Hello, I. would like to add our pipeline for nanopore data to your list. Best, Luca Cozzuto

Node.js 12 actions are deprecated.

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### Have you checked the docs? - [X] [nf-core website: troubleshooting](https://nf-co.re/usage/troubleshooting) - [X] [nf-core modules documentation](https://nf-co.re/docs/contributing/modules) ### Description of the bug Hi, when doing tests I got this warning: ```...

### Description of the bug nf-core modules install is asking for two files: main.nf and nextflow.config. I think this is not necessary, since one can use a different naming convention...

Main instead of master for branch name when generating a new pipeline?

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### Is your feature request related to a problem? Please describe I'm setting up a new local pipeline and I got three branches. I think the master one should be...

the PARAMS of each BioNextflow object can be different from tool to tool. So it can be good to have an hash with custom parameters and some defined like PARAMS["label"]...

storeDir is not working

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## Bug report Using storeDir makes the pipeline crash complaining that the required output file is not there any more. ### Expected behavior and actual behavior In past storeDir was...

multi-threading is not working

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Dear authors, I used multi-threading and I got only a few reads generated. While removing that option gives me no error. Also using -t 1 is generating an error. Thanks,...