[Bioclusters] Benchmarks on a dual core Xeon

Joe Landman landman at scalableinformatics.com
Fri Jan 20 12:48:16 EST 2006

Hi Chris:

   Interesting results.  In the report you wrote that your blastn nt 
results were limited by IO.  Could you clarify this?  That is, on a 16 
GB ram machine, one should expect that the indices are completely cached 
upon the first scan through the sequences, as the indices fit into much 
less than 16 GB ram.  We see this happen on 8 GB ram machines and below.



Christopher Dwan wrote:
> I recently had the opportunity to perform some benchmarks (BLAST,  
> Clustalw, Clustalw-mpi, and MrBayes) on one of the new quad chip,  dual 
> core Xeon (Paxville) servers from Intel.  This isn't a  comparative 
> study between chips, but rather a look at how batch,  multi-thread, and 
> MPI jobs scale on this machine.
> The report is linked from our main page:  http://bioteam.net
> Disclaimer:  I did this work in my corporate guise at Bioteam.    Intel 
> provided the hardware, access to their compilers, and they paid  for the 
> preparation of the report.  They did not, however, exercise  editorial 
> control over the content.
> -Chris Dwan
>  The BioTeam _______________________________________________
> Bioclusters maillist  -  Bioclusters at bioinformatics.org
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Joseph Landman, Ph.D
Founder and CEO
Scalable Informatics LLC,
email: landman at scalableinformatics.com
web  : http://www.scalableinformatics.com
phone: +1 734 786 8423
fax  : +1 734 786 8452
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