Segemehl aligner multithread issue

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9.7 years ago

win ▴ 990

Hi all,

I downloaded and installed Segemehl aligner and created an index file which completed as expected. I am trying to align a 150 GB fastq file to grch38.p2 and when i run the following command I can see segmhel as one of the processes. However the process does not seem to use multithread, the server has 16 cores and after setting 8 thread usage it still uses only one thread. The OS is Ubuntu 14 LTS.

http://www.bioinf.uni-leipzig.de/Software/segemehl/

./segemehl.x -i genome.idx -d genome.fa -q data.fa --threads 8 &gt; alignment.sam

Has anyone else also faced the same problem? Anything I am missing here?

Thanks in advance.

alignment • 1.9k views

ADD COMMENT • link updated 6.6 years ago by Ram 44k • written 9.7 years ago by win ▴ 990

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Please use the formatting bar (especially the code option) to present your post better. I've done it for you this time.

ADD REPLY • link 6.6 years ago by Ram 44k

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