I didn't see this message on the list yesterday after I posted it, so I'm sending it again. Glen Begin forwarded message: > From: Glen Otero <gotero at linuxprophet.com> > Date: March 2, 2004 9:33:52 AM PST > To: Soumyadeep nandi <soumyadeep_nandi at yahoo.com> > Cc: BioBrew-Users at bioinformatics.org > Subject: Re: [BioBrew Users] post installation? > > Soumyadeep- > > I guess it's time to post the full BioBrew User's Guide. The User's > Guide I'm going to post is the one my company distributes with > clusters we install for people using Callident Rx, our base cluster > solution. Except for the few extra steps noted in the BioBrew 1.0 > README and Install Pictorial needed to get BioBrew up and running, the > manual contains all the goodies needed to prep you for world > domination. It has the answers to your questions about how to run mpi > jobs and testing the cluster with Linpack. Page 41 has information on > providing web access to the cluster. With regard to getting the bio > apps running, the directories only need be put into users' paths. Joe > Landman has some very useful scripts (run_mpibalst, run_mpiblastrc, > sge_mpiblast) for running mpiBLAST that I recommend people look into > and adapt for running mpiblast in BioBrew. The scripts can be found > at http://downloads.scalableinformatics.com/. > > Hope this helps. Comments and suggestions on the manual and software > are encouraged. > > Glen > > On Mar 2, 2004, at 8:24 AM, Soumyadeep nandi wrote: > >> Hi Everybody, >> >> Thrilled to have installed BioBrew. It looks like the >> base for exactly what we want. Would like R etc...but >> more of that later. >> >> We are more or less familiar with all the (Bio) >> packages that constitute BioBrew, and have run HMMER >> using pvm strung over a cluster of workstations...but >> >> We have never used Rocks. So though installation went >> without any hiccups - the frontend and compute nodes >> boot smoothly, we cannot access anything easily : No >> http access to the frontend for the homepage or (web) >> blast. We identified the BioBrew packages to the >> /opt/BioBrew >> >> Can we have some pointers to: >> >> 1. Setting up the lam-mpi and pvm environments >> >> 2. Activating Apache to allow access to the frontend >> >> 3. Testing the cluster >> >> 4. Running the biobrew packages (Do we just have to >> add the directories to the path?) >> >> 5. Is there a x-windows based browser as part of the >> frontend? >> >> regards, >> Soumyadeep Nandi >> >> Bioinformatics Center >> Jawaharlal Nehru University >> New Delhi >> >> __________________________________ >> Do you Yahoo!? >> Yahoo! Search - Find what you’re looking for faster >> http://search.yahoo.com >> _______________________________________________ >> BioBrew-Users mailing list >> BioBrew-Users at bioinformatics.org >> https://bioinformatics.org/mailman/listinfo/BioBrew-Users >> >> > Glen Otero, Ph.D. > Linux Prophet > 619.917.1772 > > Glen Otero, Ph.D. Linux Prophet 619.917.1772 -------------- next part -------------- A non-text attachment was scrubbed... Name: not available Type: text/enriched Size: 3166 bytes Desc: not available Url : http://bioinformatics.org/pipermail/biobrew-users/attachments/20040303/66343c37/attachment.bin