@Anabella Trigila @Nicolas Vannieuwkerke I think I've fixed your subworkflow, but I'd love it if you confirmed I hadn't misinterpreted the intent https://github.com/nf-core/modules/pull/11180

I'll leave this up to Anabella as I don't know the purpose of the tool well enough here

I ported this local subworkflow to nf-core here: https://github.com/nf-core/rnafusion/commit/52b43dd0f279d2412ef00f5ff8ef5a4d4498204d#diff-8a88e53ba373f101b0e4ddaac[…]5776c683ea7f81c8f764faabc87b16 The exact purpose of the tool in the pipeline is probably known by Annick since she implented it originally. I think your changes do make sense, but we can tag her for the final review in case we are overlooking something.

OK done. Slack is telling me she's on parental leave though, we may need to make a call for now

Yeah, this looks good to me

Thanks!