STAR OOM

Open ihodes opened this issue 9 years ago • 1 comments

STAR needs memory limit some cases

Mar 22 07:03:21 ..... Started sorting BAM
EXITING because of fatal ERROR: not enough memory for BAM sorting: 
SOLUTION: re-run STAR with at least --limitBAMsortRAM 65209053098
Mar 22 07:03:21 ...... FATAL ERROR, exiting

Mar 22 '17 19:03 ihodes

Can't the bam be sorted by Samtools and then STAR be told not to attempt sorting?

Because if STAR keeps trying in-memory sorts this will never end :)

Mar 22 '17 20:03 smondet