On Sat, Feb 14, 2009 at 00:17, <ashr...@ucdavis.edu> wrote: Hi,
I was trying to read ~400 chips in an affybatch and I got the same message. Could you find a remedy for that. My server has 128 GB of RAM. However, R halted ever before it uses the memory. I have been able to load upto 250 CEL files but this time I wanted to test what would happen if I want to normalize 400 chips. Thanks for your prompt response. Hamid > > > > Martin Maechler wrote: >> >>>>>>> "VK" == Vadim Kutsyy <va...@kutsyy.com> >>>>>>> on Fri, 01 Aug 2008 07:35:01 -0700 writes: >> >> VK> Martin Maechler wrote: >> >> >> VK> The problem is in array.c, where allocMatrix check for >> VK> "if ((double)nrow * (double)ncol > INT_MAX)". But why >> VK> itn is used and not long int for indexing? (max int is >> VK> 2147483647, max long int is 9223372036854775807) >> >> >> >> Well, Brian gave you all info: >> >> >> VK> exactly, and given that most modern system used for >> VK> computations (i.e. 64bit system) have long int which is >> VK> much larger than int, I am wondering why long int is not >> VK> used for indexing (I don't think that 4 bit vs 8 bit >> VK> storage is an issue). >> >> Did you really carefully read ?Memory-limits ?? >> >> >> VK> Yes, it is specify that 4 bit int is used for indexing >> VK> in all version of R, but why? I think 2147483647 >> VK> elements for a single vector is OK, but not as total >> VK> number of elements for the matrix. I am running out of >> VK> indexing at mere 10% memory consumption. >> >> Hmm, do you have 160 GBytes of RAM? >> But anyway, let's move this topic from R-help to R-devel. >> >> [...........] >> >> VK> PS: I have no problem to go and modify C code, but I am >> VK> just wondering what are the reasons for having such >> VK> limitation. >> >> This limitation and its possible remedies are an interesting topic, >> but really not for R-help: >> >> It will be a lot about C programming the internal represenation of R >> objects, etc. >> Very fascinating .... but for R-devel. >> >> "See you there!" >> Martin >> >> ______________________________________________ >> r-h...@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/r-help >> PLEASE do read the posting guide >> http://www.R-project.org/posting-guide.html >> and provide commented, minimal, self-contained, reproducible code. >> >> > Quoted from: > http://www.nabble.com/allocMatrix-limits-tp18763791p18776531.html > > [[alternative HTML version deleted]] ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
