Use barrnap to filter reads

[erikrikarddaniel]

Description of feature

Run all four profiles, filter reads that match before assembly.

[erikrikarddaniel]

@tfalkarkea : Interested in taking on this one? If it's barrnap or sortmerna doesn't matter to me (and I think I can speak for @danilodileo too), as long as it's a tool that doesn't bring any license issues with it.

[tfalkarkea]

I can definitely take this. I already have some code for SortMeRNA and there is an existing module so I'll proceed with implementing that.

[danilodileo]

We will postpone this module after the release.
Barrnap will be part of a two step subworkflow:

1. barrnap will find the rrnas and will store the names in a list
2. bbmap_filterbyname (/~https://github.com/BioInfoTools/BBMap/blob/master/sh/filterbyname.sh) will filter out the reads from the samples.

This subworkflow needs to be placed before the assembly step, along with bbduk.