Opened 6 months ago

Closed 6 months ago

#1424 closed defect (fixed)

Incorrect path to UCSC_hg38_knownGenes_22sep2014.gtf

Reported by: Nicklas Nordborg Owned by: Nicklas Nordborg
Priority: minor Milestone: Reggie v4.41.1
Component: net.sf.basedb.reggie Keywords:


The default configuration for the legacy pipeline on the Slurm cluster is incorrect. Jobs fail with:

File 'CGTF-->/casa20/reference/scanb//UCSC_hg38_knownGenes_22sep2014.gtf' doesn't exists

It seems like UCSC_hg38_knownGenes_22sep2014 is missing between the \\ in the path. The same issue is present in the path to UCSC_hg38_knownGenes_22sep2014_duplicate_transcript_id.txt.

Change History (1)

comment:1 Changed 6 months ago by Nicklas Nordborg

Resolution: fixed
Status: newclosed

In 6940:

Fixes #1424: Incorrect path to UCSC_hg38_knownGenes_22sep2014.gtf

Note: See TracTickets for help on using tickets.