A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

Dear <#CEA7TBJGJ> people, I am currently updating <#C024915L4KB> for a coming release.
I have done <https://github.com/nf-core/fetchngs/pull/383> to replace the old <https://github.com/nf-core/fetchngs/pull/324> / <https://github.com/nf-core/fetchngs/pull/361>
Am I missing anything?

Evangelos (now on vacation, so do not ping) want a <#C024915L4KB> release (cf <https://nfcore.slack.com/archives/C043UU89KKQ/p1786351418319259?thread_ts=1786349565.618369&amp;cid=C043UU89KKQ>)
And I figured it was a fun side quest to do to get back on track

In <https://nf-co.re/ampliseq/2.18.0/docs/usage/#sample-sheet-input|2.18.0> we support two kinds of sample sheets and in the next release we will support only the more nf-core-style pattern described <https://nf-co.re/ampliseq/dev/docs/usage#sample-sheet-input|here>, i.e. mandatory are sample, fastq_1, fastq_2. "run" would be optimal to fill in by study or such to mark files that need separate read error correction, but not required.

we already have fastq_1 and fastq_2, and this PR is adding run

So can I get your aproval on <https://github.com/nf-core/fetchngs/pull/383> ?