[Bioclusters] blast server on OpenMosix cluster

[Ron Chen]

It takes time to let openmosix to migrate your jobs.
SGE is more suitable in the compute farm environment.

"Integrating BLAST with Sun ONE Grid Engine Software"
available at:
http://developers.sun.com/solaris/articles/integrating_blast.html

 -Ron

--- Hong Zhang <hzhang@research.dfci.harvard.edu>
wrote:
> But I have trouble make blast command line execute
> in every node.
> 
> And don't you think openmosix is suitable for blast
> cluster? You suggested 
> SGE?
> 
> 
> 
>  On Thu, 11 Dec 2003, Farul Mohd. Ghazali wrote:
> 
> > On Wed, 10 Dec 2003
> hong.zhang@research.dfci.harvard.edu wrote:
> > 
> > > I am working on set up a blast server on
> Debian/OpenMosix cluster with 4
> > > nodes. Actually it is totally new to me. So is
> there anyone can give me
> > > some advice? Thanks.
> > 
> > I've used OpenMosix in the form of ClusterKnoppix
> some months back to test
> > it out. The setup was very easy, boot off the CD,
> configure some settings
> > and the rest of the nodes boot off the network.
> Applications are
> > automatically load balanced across nodes.
> > 
> > While configuration and actual use was very easy,
> performance wasn't too
> > great. I think the main reason was that OpenMosix
> dynamically migrates
> > applications to the different nodes to
> automatically load balance the
> > system thus the overhead of migration for long
> running jobs suddenly
> > became apparent.
> > 
> > To be honest, we didn't try to optimize it much
> and went to implement our
> > blast cluster with SGE and hopefully soon
> mpiblast.
> > 
> > 
> > 
> > _______________________________________________
> > Bioclusters maillist  - 
> Bioclusters@bioinformatics.org
> >
>
https://bioinformatics.org/mailman/listinfo/bioclusters
> > 
> 
> -- 
> Hong Zhang, MIS
> Bioinformatics Analyst
> Dana Farber Cancer Institute
> Harvard Medical School
> 44 Binney St, D1510A
> Boston MA 02115
> Email: hong.zhang@research.dfci.harvard.edu
> Phone: 617-632-3824
> Fax: 617-632-3351
> 
> _______________________________________________
> Bioclusters maillist  - 
> Bioclusters@bioinformatics.org
>
https://bioinformatics.org/mailman/listinfo/bioclusters


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