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  • Installation of bowtie2 with multithreading failed

    Hi

    I am in need of running the bowtie2 with enabled multithread option on a linux cluster. I do not have the root access.

    I installed the tool as follows:


    unzip $USER_HOME/bin/bowtie2-2.2.5-source.zip
    cd $USER_HOMEHOME/bin/bowtie2-2.2.5
    make BOWTIE_PTHREADS=/lib64/libpthread.so.0
    bowtie2 -p 3 -x example/index/lambda_virus -U example/reads/reads_1.fq -S eg1.sam

    Installation goes fine but I am not sure if the tool takes the libpthread option. When running the tool, I see that the multithread option (-p 3) is ignored.

    Any suggestions ?

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