ultra/pipeline nf-test conversion

Open SPPearce opened this issue 9 months ago • 4 comments

Will close #7615

Mar 24 '25 12:03 SPPearce

Not currently working as the test gives an error :(

Mar 24 '25 12:03 SPPearce

So I ran the old pytest and nf-test locally and I found that the "sorted" gtf is different across the two invocations.

Your module args are not being injected into the sort command: sort genome.gtf > test.gtf

Mar 25 '25 04:03 awgymer

Ok, working now. Note that the md5sum for the SAM output matches in the snapshot and the old pytest yml

Mar 25 '25 05:03 awgymer

Thanks @awgymer !

Mar 25 '25 05:03 SPPearce