Dear usegalaxy team,
The Lumpy preprocessing tool runs successfully, but generate three empty datasets. I think these lines from the standard error might explain the issue. Could you please, check?
History API ID aab52abe370e60be
Job API ID: 11ac94870d0bb33a9add9e5560333e8c
samblaster: Version 0.1.26 samblaster: Inputting from stdin samblaster: Outputting to stdout [E::bgzf_flush] File write failed (wrong size) samtools collate: Couldn't write to intermediate file "/tmp/collate23496a.0010.bam": No space left on device