Hi Chris, thanks for your excellent comments. chris dagdigian <dag@sonsorol.org> wrote on Sat, 25 Aug 2001: > Blackstone and others have tacked this problem by breaking up the databases > into pieces that are small enough to be dynamically shipped peer-to-peer ... > It does work though- we did some blazing fast searching on nodes with 256mb > RAM using this approach. Assume a database that fits into 2 GB RAM. How much faster is your BLAST analysis on 8 blades (with 8 x 256 MB RAM and 8 CPUs) as compared to a single-Athlon board with 2 GB DDR? > There is no need for high speed interconnect for bioinformatics and > sequence analysis. As you said most of those apps are embarrassingly > parallel and most in fact are rate limited by things like RAM and disk I/O. That's exactly our experience. > Once you start having researchers who want to do computational chemistry, > molecular modeling, QSAR and virtual screening then Okay okay okay ... these are totally different topics ... and you are absolutely right in what you write. I did not refer to those topics. Ivo