Notes on how to upgrade to current nf-core standards

[chasemc]

nf-core updated and their module format changed a pretty decent amount. At first I was really confused trying to figure out what changed but I think the changes, while a pain to switch to, actually are easier to maintain/understand once switched.

I'm currently updating another pipeline to the current nf-core format. Opened this issue to take a few notes to help out when/if someone does that for Autometa.