Alfa integration

Integrate ALFA output to pipeline. This branch is a rebased version of alfa_qc.

changed milestone to %v0.1.0 release

So @burri0000: so ready to merge right? :) If so, I'll have a look as well. Given that it's quite a big change, might be good to have both me and Foivos double check the final changes

Well, actually, it looks good to me. Haven't looked at the Snakefile though. @gypas: if you don't have anything else to add, please go ahead and merge. Remember not to squash in this case.

The only thing that i am not sure is the rule rename_star_rpm_for_alfa that copies files. Do we want to have a container for this or running it by a local rule is enough?

Well maybe it's ok like this for now.

merged

mentioned in commit 14e4b746

@burri0000: can i delete the original branch?

Yes, should be fine.

mentioned in issue #18 (closed)