Agreed. You could also use nice and use all processors:
nice -19 bwa -t 16 ...
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OK, I'm really not a hardware-guy: I want to run bwa and here is a snapshot of my /proc/cpuinfo
#grep "physical id" /proc/cpuinfo | sort | uniq | wc -l
4
#grep ^processor /proc/cpuinfo | wc -l
16
#grep 'cpu cores' /proc/cpuinfo | sort | uniq
cpu cores : 4
what would you suggest as a good value for the number of threads to be used by bwa (option -t ) ?
Thank you ! :-)
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