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  • pe_se
    Junior Member
    • Aug 2019
    • 3
    #1

    bowtie2-align died with signal 11 after fastq2bam & leeHom trimming

    Hi,
    I tried to run bowtie2 on bam files which I previously converted from fastq using BCL2BAM2FASTQ fastq2bam and then trimmed using leeHom, however, it consistently aborts (tried with 18 different input files)

    bowtie2 -x mitogenomes --phred33 -b sample1.bam > SAMPLE1.sam
    (ERR): bowtie2-align died with signal 11 (SEGV) (core dumped)

    Can anyone comment on what may be the problem?
    thanks!
    Tags: None
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