cuffdiff error: Segmentation fault: 11

Question

[jolin0701-dy]

I got an error from cuffdiff

 $ ~/programs/cufflinks-2.2.1.OSX_x86_64/cuffdiff -o diff_out -b ~/GRCm38_86/mouse.fa -L 67,89 -u merged_asm/merged.gtf ./106_thout/accepted_hits.bam,./107_thout/accepted_hits.bam ./108_thout/accepted_hits.bam,./109_thout/accepted_hits.bam
    You are using Cufflinks v2.2.1, which is the most recent release.
    [20:40:48] Loading reference annotation and sequence.
    [20:41:14] Inspecting maps and determining fragment length distributions.
    Segmentation fault: 11

Any suggestions ?

thanks so much~~

[Persistent LABS]

Segmentation faults are generally related to out of memory issues. Can you try the above command without -b and -u options, just to check if these parameters are causing too much memory usage.

[jolin0701-dy]

you are right. It is due to low memory...Thanks~~