similar to: Absolute ceiling on R's memory usage = 4 gigabytes?

Happy new year to all; A few days ago, I posted similar problem. At that time, I found out that our R program had been 32-bit compiled, not 64-bit compiled. So the R program has been re-installed in 64-bit and run the same job, reading in 150 Affymetrix U133A v2 CEL files and perform dChip processing. However, the memory problem happened again. Since the amount of physical memory is 64GB, I think

Hi, all; I got an unusual error while using mclust library 2.1-7 on R 2.0.1. When I tried to run Mclust(rnorm(100)), I got segmentation fault error. Does anyone know what causes this problem? I came across the same problem even when I tried to run the example shown in Mclust help using iris data. Thanks in advance, Tae-Hoon Chung -------------------------------------------------- Tae-Hoon Chung

Hi, All; I have a question. In R, what is the best way to make R idle for a while and try something again later? For example, suppose there is an R job which accesses a file that may be shared with other active jobs. So when the file is being accessed by other job, your job will not be able to access the file and your job will crash because of that. To avoid this, you want your job to try to

Basically, the `Detail' section of ?tune says it all: Details: As performance measure, the classification error is used for classification, and the mean squared error for regression. ... Andy > From: Tae-Hoon Chung > > Hi, all; > > Basically, the subject contains the all information I need to know. > In e1071 library, there are functions to tune parameters.

Hi, all; Our group is planning to develop a web-based analysis package with R. I have some questions. (1) Can we use R as a daemon-like way such that, after invoking R and making it run in a kind of background mode, just put some R script into R using some pipe-like mechanism and retrieve the result out of it? (2) If this is possible, then how can we do it? If this is not possible, then what

Hi, all. Something strange happened to my ESS. I use Mac OS X. When R is used in stand alone mode, it recognizes external libraries like "affy", "e1071" etc. However, when R is invoked through ESS in Emacs, it produces errors like: Error in library(affy) : There is no package called 'affy' Interestingly, I remember I successfully used these libraries through ESS in

Hi, all; I know there has been a lot of discussions on memory usage in R. However, I have some odd situation here. Basically, I have a rare opportunity to run R in a system with 64GB memory without any limit on memory usage for any person or process. However, I encountered the memory problem error message like this: Error: cannot allocate vector of size 594075 Kb I got this error message while

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Hi, All; When I generate a "special" paper postscript image larger than "a4" or "letter" using R, I can only see one-page portion of all image, of course. What will be the simple solution for this? Is there any way I can set the bounding box information on the image? Or any other suggestions? Thanks in advance; Tae-Hoon Chung

Hi, All; Suppose I have a class 'dat' such that setClass('dat', representation (.version='character', x='numeric', y='numeric')). If I want to make a method that changes the .version slot of 'dat' class in a way like set.version(d) <- '0.2' when d is an object of 'dat' class, how can I do this? Thanks in advance. Tae-Hoon

Is there any requirement for TclTk support for R? When I tried to call the tcltk library, it failed with the following message: > library(tcltk) Error in firstlib(which.lib.loc, package) : Tcl/Tk support is not available on this system Error in library(tcltk) : .First.lib failed for 'tcltk' The system information is as follows: Linux osirus.tgen.org 2.6.9-42.0.10.ELsmp #1

Hi, All; I tried to use library mclust in 64-bit compiled R 2.0.1 but failed. Installation went smoothly without any warning or error. However, when I tried to use them with the following simple code, it crashed. Library(mclust) Dat <- c(rnorm(20, mean=0, sd=0.2), rnorm(30, mean=1, sd=0.2)) Ind <- Mclust(dat, 1, 5)$classification cbind(Dat, Ind) The error message was:

I am trying to preprocess a large dataset of affymetrix data. Creating an affybatch is not possible with the computer I am running it on, so I have used the justRMA command to run RMA. I have read the affy document describing the justRMA command and the help documentation but I am unclear as to whether this command uses median polish after normalization. I assume this is the case but would like

I'm trying to select a subset of a dataframe while dropping some factors. While the dataset gets smaller all Factor levels remain and I need to get rid of them. Strangely enough, I am almost certain that the same code on the same data worked OK earlier today - and it is not the first time that I'm not able to replicate earlier results with this command (I know, I might just be going

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I am trying to work with 75 affymetrix U133plus2 chips and am running into memory allocation errors when trying to merge or convert probe level data to expression values. I keep getting - Error: cannot allocate vector of size 561011 Kb and that is simply with a data subset. Is there a way around this limitation? -- Rodney A. Staggs Cancer Center Informatics Shared Resource 425 Delaware St S.E.

How can I get a single backslash in a character string? My goal is to escape dots in a string that will be used as a regular expression. I thought I could do it this way: gsub(".", "\\.", x) Unfortunately, "\\" does not represent a literal backslash as I expected, but rather a pair of backslashes: > "\\." [1] "\\." > "\\" [1]

Dear R-mailing list Hope you can help me. I am using R for windows to analyze my 107 HGU133Plus2.0 chips, however, R chrash when I try to use ReadAffy(). I want to buy a computer that can handle all these arrays, do you know how big a computer I need to buy? Best, Skov, Denmark [[alternative HTML version deleted]]

Hi How do I install "gregmisc" packages? I did- % sudo R > install.packages("gregmisc") . . > barplot2() but, Error: couldn't find function "barplot2" -- atuya Mac OSX 10.2.6 R 1.7.1

Dear all, One can use ks.test(x,y) for a one-sample kolmogorov-smirnov test: x being the data sample y being a string specifying a distribution I notice the help on ks.test does not tell you how to get such a list. Is this a hole in my R knowledge? Where can I get a list of the strings specifying the possible distributions? and more specifically What would be the string and following