Jay Osvatic posted a comment on discussion General Discussion

Hello, I am currently trying to make a more reproducible workflow (removing weird paths to files mostly) and I am having trouble figuring out the shortcut that can be used for phiX174 as a reference for BBDuk. It looks like the adapters file can be called like this: "ref=adapters", eliminating the extra path before it. Is there a similar way to write the phiX174_ill.ref.fa.gz file? Thanks!