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  • Tophat Multi-Thread

    Hi, I've used the following command:
    ./tophat -r 5 -p 12 ../bowtie-0.12.1/indexes/chr21 ../bowtie-0.12.1/TestData/s_1_1_sequence.txt ../bowtie-0.12.1/TestData/s_1_2_sequence.txt

    -p 12 I think it could use up to 12 core/thread processing
    So, I use "top" command to see the system monitor.
    However, the bowtie operation, which is called by tophat uses only 100%CPU.
    Why not approaching 1200%CPU usage?

    Thanks.

  • #2
    kind of weird...
    now it shows 1200%CPU

    Don't know why?

    Comment


    • #3
      This is normal - not all phases of the TopHat run are multi-threaded.

      Comment

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