Properly deal with multiqc in the config files before the next release

[maxulysse]

Description of feature

cc @adamrtalbot @svar

[adamrtalbot]

Could we have a little explanation? I don't really know what this refers to.

[svarona]

Hi again! Correct me if I'm wrong @maxulysse, but I think @adamrtalbot, this is related to the problem that viralrecon has two workflows, each of them with its .config file in conf folder. So each time nf-core-tools are updated, TEMPLATE branch will update MULTIQC in the conf/modules.config file instead of in each of the workflow's config files modules_nanopore.config and modules_illumina.config. Isn't it?

Have you been working on this already?

[maxulysse]

Sorry, I missed @adamrtalbot's comment many moons ago.
What I meant was since we have 2 workflows, why don't we try to run multiQC just once as an after step in the NFCORE_VIRALRECON workflow from the main main.nf