Dear List Members, I am trying to get started by following along with the affy textual description manual, but I'm having early problems. I am working with 53 Cel files, but I have been testing by attempting to load as few as two Cel files. In all cases, I get a similar error message. Here's an example: Error: cannot allocate vector of size 83170 Kb In addition: Warning message: Reached total allocation of 509 Mb: see help(memory.size) I'm a little wary of changing memory allocation without having a good idea about what I am doing. I am working in a Windows NT environment. Can someone suggest a good course of action or a good (in-depth) resource on memory allocation within R? Thanks. Jeff Lande University of Minnesota

Hey Jeff, It is simple to change memory allocation for R. Simply right-click the shortcut you are using to start R and add --max-mem=<however much="" ram="" you="" have="">. For instance, I have --max-mem=2G. Check ?Memory for help. If you don't have a serious amount of RAM, you will not be able to do 53 chips (for instance I am unable to process 53 U133A chips with 2Gb RAM). You might be able to get away with justRMA or justRMA2 (devel version) if you simply want RMA expression values. 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 >>> "Jeff Lande" <land0038@umn.edu> 07/22/03 05:17PM >>> Dear List Members, I am trying to get started by following along with the affy textual description manual, but I'm having early problems. I am working with 53 Cel files, but I have been testing by attempting to load as few as two Cel files. In all cases, I get a similar error message. Here's an example: Error: cannot allocate vector of size 83170 Kb In addition: Warning message: Reached total allocation of 509 Mb: see help(memory.size) I'm a little wary of changing memory allocation without having a good idea about what I am doing. I am working in a Windows NT environment. Can someone suggest a good course of action or a good (in-depth) resource on memory allocation within R? Thanks. Jeff Lande University of Minnesota _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor