Thanks. I am going through the options suggested by different members. Thanks, Senthil Sundaram, MD Assistant Professor of Pediatrics and Neurology Wayne State University PET Center Children's Hospital of Michigan 3901 Beaubien Street Detroit, MI 48201 Ph:? 313-993-2870 Email: ssundaram at pet.wayne.edu -----Original Message----- From: Markus Schmidberger [mailto:schmidb@ibe.med.uni-muenchen.de] Sent: Thursday, October 16, 2008 4:41 PM To: Jo?o Fadista Cc: Senthil Kumar Sundaram; bioconductor at stat.math.ethz.ch; r-sig-hpc at r-project.org Subject: Re: [BioC] multicore processor You also should have a look to Luke Tierney's website and his pnmath code (using openMP): http://www.cs.uiowa.edu/~luke/R/experimental/ And there is a new mailing list for HPC: R SIG on High-Performance computing: r-sig-hpc at r-project.org. And there is a lot of other stuff for parallelization in R and managing big datasets: snow, Rmpi, affyPara, aroma.affymetrix, ... And have a look to Dirks tutorial at the UseR2008. This should be a good starting point for optimization in R: http://www.statistik.uni- dortmund.de/useR-2008/tutorials/eddelbuettel.html Best Markus Jo?o Fadista wrote: > Check out this paper about R in parallel: > http://www.biomedcentral.com/1471-2105/9/390 > > Regards, > Jo?o > > ________________________________ > > De: bioconductor-bounces at stat.math.ethz.ch em nome de Senthil Kumar Sundaram > Enviada: qui 16-10-2008 21:17 > Para: bioconductor at stat.math.ethz.ch > Assunto: [BioC] multicore processor > > > > Hi, > > I am new to using bioconductor. We have more than 200 CEL files to > analyze and would like do it on a Linux(64 bit) system with 2 quadcore Intel > Xeon processors and 16GB RAM. We would like to utilize all 8 processors > using Oligo package. But currently, it runs only on one processor. Can > anyone help us to configure bioconductor to use all 8 processors? > > > > Thanks, > > > > Senthil Sundaram, MD > Assistant Professor of Pediatrics and Neurology > > Wayne State University > PET Center > Children's Hospital of Michigan > 3901 Beaubien Street > Detroit, MI 48201 > Ph: 313-993-2870 > Email: ssundaram at pet.wayne.edu > > > > > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor -- Dipl.-Tech. Math. Markus Schmidberger Ludwig-Maximilians-Universit?t M?nchen IBE - Institut f?r medizinische Informationsverarbeitung, Biometrie und Epidemiologie Marchioninistr. 15, D-81377 Muenchen URL: http://www.ibe.med.uni-muenchen.de Mail: Markus.Schmidberger [at] ibe.med.uni-muenchen.de Tel: +49 (089) 7095 - 4599