Alexander Peltzer

Reached automation hook

2

### Description of the bug Once the pipeline finishes and some email is set, it will not finish sending it. Attached the logfile of whats going on in the background,...

### Description of feature Allow different flowcells to be specified within one CSV pipeline samplesheet, e.g. 2x bclconvert 1x mkfastq

### Description of feature Missing mkfastq at the moment

### Description of feature Ideally, we should use the latest subworkflows for bcl-demultiplex and other modules used, e.g. MultiQC was updated to 1.24.1.

Add more tests for BCLconvert

1

### Description of feature At the moment, bclconvert is solely tested with one testcase. It would be great to have a few more, e.g. "standard" use cases tested other than...

Make tests work again on release PR upon fixes in modules / utils subworkflows

4

Unfortunately the tests don't work anymore. I suspect that it has to do something with this one here: https://github.com/nf-core/test-datasets/pull/1283

WIP PR for Release 2.4.0

1

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

Update Docs & Consistency checks

1

### Description of feature Docs should be updated and consistency checked to match pipeline