Joon Klaps

Add nf_core_version to .nf-core.yml

2

[#2741](https://github.com/nf-core/tools/issues/2741) ## PR checklist - [X] This comment contains a description of changes (with reason) - [x] `CHANGELOG.md` is updated - [X] If you've fixed a bug or added code...

## PR checklist Solves [#2814](https://github.com/nf-core/tools/issues/2814) - [ ] This comment contains a description of changes (with reason) - [x] `CHANGELOG.md` is updated - [x] If you've fixed a bug or...

417 allow skipping freyja boot

5

## PR checklist Solves issue #417, allow freyja boostrapping module to be skipped if specified by the user. + version bump of modules. - [X] This comment contains a description...

See issue #3 Adding argument `--insecure` to ignore the bad SSL certificate of `nextnuc.gbiomed.kuleuven.be`. Might be redundant in the future if they update their certificate. But does the trick as...

I got a security thread from the [`https://nextnuc.gbiomed.kuleuven.be`](https://nextnuc.gbiomed.kuleuven.be) and checked their SSL certificate with https://whatsmychaincert.com/. Because of this, `curl` didn't get complete responses: ```shell nextcloud_share_url_downloader.sh https://nextnuc.gbiomed.kuleuven.be/index.php/s/TOKEN Enter NextCloud share password:...

New Subworkflow: Bam_trim_primers_ivar

3

## PR checklist Addresses first bullet from https://github.com/nf-core/viralrecon/issues/371 adds the subworkflow bam_trim_primers_ivar used in nf-core/viralrecon to nf-core/modules - [X] This comment contains a description of changes (with reason). - [X]...

## PR checklist Fixes #3045 - [ ] This comment contains a description of changes (with reason) - [ ] `CHANGELOG.md` is updated - [ ] If you've fixed a...

### Description of feature Currently, `modules update` prints a lot of differences including those of nf-test which is not always needed. Could it be possible to add a flag that...

## PR checklist Closes #3490 - [ ] This comment contains a description of changes (with reason). - [ ] If you've fixed a bug or added code that should...

### Description of feature [Metabuli](https://github.com/steineggerlab/Metabuli) is metagenomic classifier that jointly analyze both DNA and amino acid (AA) sequences. DNA-based classifiers can make specific classifications, exploiting point mutations to distinguish close...