[Bioperl-l] Bio-Perl and multiple cores of CPU

[Chris Fields]

You can specify the number of processors to use.  With legacy BLAST this is -a 8, with BLAST+ I think this is -num_threads 8 (with the explicit caveat I haven't tried the latter much, so no guarantees, we're not liable for explosions and such).

chris

On May 7, 2010, at 4:34 PM, polsum wrote:

> Hi - We have a pretty powerful computer with Dual-Quadcore intel Xeon w5580
> prcoessor with 24 GB ram. When I use Bioperl programs for routine operations
> like Blastn and blast parsing etc. the programs dont seem to utilize the
> computer power to the fullest. I mean they just use one of the 8 cores and
> only 8GB of RAM. Is there a way to ask Perl to use all the available power?
> I have 64 bit windows and 64 bit Ubuntu and Ubuntu is definitely faster but
> still it also doesnt use entire cores of the cpu.
> 
> thanks in advance
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