Dear list: I know this has been discussed before, but I can't open the link to the Bioconductor Archives. My question is regarding the key system requirements to be able to "comfortably" analyze Affy cel files. The bottleneck on my machine (more like a dead end) is trying to run bg.adjust.gcrma(). I'm running Windows 2000, on a Pentium 4 CPU 1.80GHz with 526M of RAM. Is there informed opinion on the relative importance of the various factors? Operating system: Windows vs Linux/Unix? Speed of Processor? Memory capacity? Other factors? Thanks -francois [[alternative HTML version deleted]]

I would rank importance in this order: 1.) RAM 2.) OS 3.) Processor speed 512 Mb of RAM is probably too little for any reasonable number of chips, so you are probably running out of memory. If you are using R < devel, then you may be having malloc problems. If you can compile R-devel (or simply download from Duncan Murdoch's web page), this will help with memory allocation of large objects. First off, however, I would get another 512 Mb (or better yet, another 1 Gb) of RAM. Best, Jim James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623 >>> Francois Collin <fcollin@sbcglobal.net> 01/08/04 10:55AM >>> Dear list: I know this has been discussed before, but I can't open the link to the Bioconductor Archives. My question is regarding the key system requirements to be able to "comfortably" analyze Affy cel files. The bottleneck on my machine (more like a dead end) is trying to run bg.adjust.gcrma(). I'm running Windows 2000, on a Pentium 4 CPU 1.80GHz with 526M of RAM. Is there informed opinion on the relative importance of the various factors? Operating system: Windows vs Linux/Unix? Speed of Processor? Memory capacity? Other factors? Thanks -francois [[alternative HTML version deleted]] _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor