Matthias Hörtenhuber

changed icon for gitfolders and git related files

1

### Description Changes the git icon to a non-text version: Before:  After: The folder icon can be a bit difficult to read on low-res screens,...

### Description Hi, I find the current git icon not so fitting in with the rest of the icons (since it is simple the word "git"). It is probably not...

convert `console` snippets to `bash` snippets where applicable

3

`console` snippets are in general only nice to display terminal outputs, not anything related to scripts or commands. ## PR checklist - [x] This comment contains a description of changes...

Give better suggestion when modules.json file is out-of-date.

3

Running `nf-core modules info` never recreates the modules.json. So, if it is out-of-date, the suggested help message is not useful. I think explicitly stating a command is more useful here.

tag gitpod docker images by branch

1

### Description of feature As mentioned in https://github.com/nf-core/tools/pull/1464#issuecomment-1070691726, we should have the branch name as a tag for the docker image and only use `:master` in the templates.

As discussed on [slack](https://nfcore.slack.com/archives/CE5LG7WMB/p1602757500146100), it would be good to run the `Schema.params_help()` function also in the `output_documentation` step (together with a `copyTo` for `output.md` and `usage.md`) and put the output...

Changelog bot should add reviewers

2

### Description of feature Would be great if changelog bot could list the reviewers (and contributors at the end of the changelog entry)

Add new command `nf-core rocrate` to create a Research Object (RO) crate for a pipeline

8

Example crate from the rnaseq pipeline: [ro-crate-metadata.json](https://github.com/nf-core/tools/files/14041343/ro-crate-metadata.json)

### Description of feature the install command should then automatically add an include statement into the target file in the input section.

Add `force_pr` flag to sync, to force a PR even though there are no changes committed

2

fixes problems when template branch is already updated but we failed opening a PR