[Bioclusters] Benchmarks on a dual core Xeon

[Joe Landman]

or possibly answering my own question, you saw the IO limitation as 
being apparant under the WGS benchmark and not the NT?

Joe Landman wrote:
> 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.
> 
>   Thanks.
> 
> Joe
> 
> 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
>> https://bioinformatics.org/mailman/listinfo/bioclusters
> 
> 

-- 
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
cell : +1 734 612 4615