Hi, Not sure if this is more appropriate for R general or Xserve, but has anyone managed to run bioconductor scripts on a cluster of Xserves? thanks, g -- Systems Programmer Yale Center for Medical Informatics fax: 203-737-5708

Guoneng- I haven't run Bioconductor scripts on Xserve hardware specifically. I have however successfully set up a test installation of webbioc on a small cluster of a G3 and G4 Power Mac linked together with the Sun Grid Engine. Your best bet is probably installing the prebuilt R package (from CRAN) onto each cluster node. Then you'll need to create a R library directory where you install all the Bioconductor packages. That directory could either be shared over NFS, etc. or copied to each node. It's fairly straightforward to write simple shell scripts which can execute a file containing a series of R commands. For analysis of Affymetrix data, webbioc takes care of all of that for you and has an easy to use web interface for submitting jobs to the cluster. If you only have a user account on the Xserve cluster, it is of course possible to compile and run R/Bioconductor from entirely within your home directory. -Colin On Dec 4, 2004, at 3:00, Guoneng Zhong <guoneng.zhong@yale.edu> wrote: > Date: Fri, 03 Dec 2004 14:43:23 -0500 > From: Guoneng Zhong <guoneng.zhong@yale.edu> > Subject: [BioC] bioconductor on xserve > To: bioconductor@stat.math.ethz.ch > > Hi, > > Not sure if this is more appropriate for R general or Xserve, but has > anyone > managed to run bioconductor scripts on a cluster of Xserves? > > thanks, > g