[Bioclusters] blast server on OpenMosix cluster

[Hong Zhang]

Thanks for your information. I read the article before.
I'd like to know 
1. whether it is possible to set up a wwwblast server on 
cluster. Our goal is allow users to access blast database through web page 
instead of command line. I am not sure whether query from web page can be 
migrated. 

2. whether SGE can be used in Debian.


 On Fri, 2 Jan 2004, Ron Chen wrote:

> 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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-- 
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