num_threads with blastn in blast 2.6.0+
Can someone confirm that using the -num_threads option uses multiple cores for blastn in blast2.6.0+? I am unable to get blastn running on multiple cores even for part of the blast process. I am blasting against the nt database.
blastp against nr database uses multiple cores when num_threads is set >1 but not blastn against nt database.
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It may not use all the threads allocated by you. However it uses multiple threads according to its requirement.
KK
have you tried it and seen it using multiple cores?
Ofcourse several times.
Here is the sample command..
Yes. The cores specified by -num_threads are not always used in the process. You can look at this link http://voorloopnul.com/blog/how-to-correctly-speed-up-blast-using-num_threads/. When the -num_threads is 4, your can get a good balance between time and resource.