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Published 20 hours ago • verified publisher icon nf-core

rnaseq: tar.gz indices for STAR, HiSAT2, Salmon with chromI

Open olgabot opened this issue 6 years ago • 2 comments

Not show what's the right way to do this, but this is kinda combining both the smaller data in https://github.com/nf-core/test-datasets/pull/72 and the gzipped references in https://github.com/nf-core/test-datasets/pull/70

olgabot avatar Sep 04 '19 22:09 olgabot

But there are also Salmon / STAR indices in here that we don't need right?

apeltzer avatar Sep 05 '19 12:09 apeltzer

They're for testing if someone provides --compressedReference and a path to a STAR index for https://github.com/nf-core/rnaseq/pull/275. Currently it's implemented that if --compressedReference is set, then ALL references are assumed to be compressed either as gz or tar.gz files so ones that were found online, e.g. from STAR's website, can be used.

olgabot avatar Sep 05 '19 13:09 olgabot