Set phred to 33 on trimmomatic task

[cimendes]

🆒

Avoiding heartache and keyboard smashing on why trimmomatic is setting everything to the wrong phred encoding!

[kapsakcj]

agreed. Here's how I always run theiaprok_illumina_PE to avoid these trimmomatic errors. Should apply to TheiaCov workflows as well:

The exact string is "-phred33"

I think this could be a task-level default as it should be applied everywhere. As opposed to a workflow-level default (for example in the read_QC_trim subworkflows