Question: Pindel-0.2.5 Segmentation Fault
gravatar for piyu.shettiwar
5.1 years ago by
piyu.shettiwar0 wrote:

I was using Pindel-0.2.5 (latest version) on SUSE Linux to process a single bam file but getting a segmentation fault. I tried adjusting the window size (-w) to minimum, setting the -l false and -k false but it didn't seem to work. Anyone have any ideas on this?

pindel • 1.8k views
ADD COMMENTlink modified 9 months ago by Biostar ♦♦ 20 • written 5.1 years ago by piyu.shettiwar0
gravatar for kaiye.tgi
5.0 years ago by
kaiye.tgi0 wrote:

can you post the last 50 lines of your console output (or send an email to and show me where it went wrong? provide your ref.fa.fai and samtools view -H output. I might need a small part of your bam to produce the error, if we cannot find the reason based on the console output, the reference, bam index files. BTW, can you tell me your command line as well? is this 0.2.5 specific? do you have the same issue with earlier version?

ADD COMMENTlink written 5.0 years ago by kaiye.tgi0
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