A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

another one adressing <@U02AYM7HVR7> lower case PR from ages ago: <https://github.com/nf-core/sarek/stack/2415|github.com/nf-core/sarek/stack/2415>
1. Remove when’s where we can
2. Fix all stray params.tools calls in configs or .nf files
3. add the lower case check. I played around here a bunch with using a function from a groovy vs what I implemented now. Reason I went for this, it;s simple, easy to read, and it looks the same in the config and the nf files. I couldn’t call the groovy function in the config, so it ended up with a bunch of ugly conversion afterall


done anyway - general feedback, I would turn `tools` and `skip_tools` into a `List[str]`  earlier and then test for tool presence or absence outside the subworkflows

if you have time, it’s not very urgent, just picked it up in between

Side note, could we turn tools into a record?

```record Tools {
    tool1: Bool
    tool2: Bool
    // etc
}```
And then we can do `if tools.tool1:`