HPC Cluster

sequenceserver
#1

Hi,

Anyone running this software in a cluster setup? Got 8 nodes from my old HPC cluster that I have been requested to use but before I configuring them individually for Sequenceserver I figured I’ll check if this have been done before?

Thanks
Petter

#2

Hi Peter,

Thanks for your community spirit. I’m not aware of anyone using seqserv with a cluster before, but I don’t see why it couldn’t be done.

Not sure if this recent thing might be of use?
http://lists.open-bio.org/pipermail/bioruby/2013-September/002530.html

Thanks,

ben

#3

Hey Petter,

I don’t know about use on a real cluster. Anurag managed to set things up to run blast calculations on a machine that is different from the web machine using the following type of wrapper (eg. what follows is a “fake” blastp binary):


#!/usr/bin/env sh
ssh blastuser@fat.server.com /path/to/ncbi-blast-2.2.27+/bin/blastp "$@"

You can probably use something similar to send blast commands to a queue.

Cheers
Yannick