[Bioclusters] Local blast server,beowulf vs mosix + BIOITWORLDconference

Jeff Layton bioclusters@bioinformatics.org
Wed, 06 Mar 2002 05:53:40 -0500

Eric Engelhard wrote:

> Jeff Layton wrote:
> [snip]
> > If you have the memory, why not make a RAM disk to store any
> > local information (I guess it depends on the size of the database).
> > However, have you seen the new motherboards from Tyan and
> > Supermicro that can handle up to 16 Gigs of DDR!? Very cool
> > possibilities now.
> An interesting idea. One issue I have, however, is the need to BLAST
> genomic vs genomic without masking for repetitive sequence. BLAST
> tackles this by storing a huge number of alignments and often delivers
> 80MB+ result files. Sure, I can parse the result on the fly before
> sending it back to the master node, but I have never paid attention to
> RAM usage under these circumstances. I will make a note to check during
> the next batch. In any event, RAM may be cheaper now, but a 40GB IDE or
> even high end SCSI is far, far cheaper than 16GB of DDR.

Agreed. Good observation. However, the speed freak in me is just
drooling over 16 Gigs on a single motherboard.



> --
> Eric Engelhard - www.cvbig.org - www.sagresdiscovery.com
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