similar to: Memory allocation error

Dear All, I am running R in a system with the following configuration *Processor: Intel(R) Xeon(R) CPU X5650 @ 2.67GHz OS: Ubuntu X86_64 10.10 RAM: 24 GB* The R session info is * R version 2.14.1 (2011-12-22) Platform: x86_64-pc-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8

Dear R-users -- -- Heather Anne ------------------------------------------- Heather A. Wright, PhD candidate Ecology and Evolution of Plankton Stazione Zoologica Anton Dohrn Villa Comunale 80121 - Napoli, Italy website<http://www.szn.it/SZNWeb/cmd/ShowArchiveItem?TYPE_ID=HUMANRESOURCE&ITEM_ID=21942&LANGUAGE_ID=2> Lab: +39 081 583 3201 Cell: +39 366 484 2196 Fax: +39 081 764 1355 *

Apologies for the empty email earlier! I have species abundance data sampled at a weekly frequency or sometimes monthly depending on the year. The goal is to identify the dates in an annual cycle in which the cumulative abundance of a species reaches some threshold. Here's an example of the data for 1 species over an annual period: "mc_pheno" is the object created from this data:

Dear All, I have built a package which has a data.frame "annotIndex.rda in its "data" folder. I am using this data frame within two functions in my package. Though my package works fine, yet when I do a R CMD check to my package I get the following two notes get.affy.ensembl: no visible binding

Dear all I would like to use R and make some maps. I want to have strict control, over the details of the produced map, like remove borders, city names, add markers, add labels. Is there any package apart Rgooglemaps that can do something like that? B.R Alex [[alternative HTML version deleted]]

Good afternoon, I have a 63 small .csv files which I process daily, and until two weeks ago they processed just fine and only took a matter of moments and had non noticeable memory problem. Two weeks ago they have reached 318 lines and my script "broke". There are some missing-values in some of the files. I have tried hard many times over the last two weeks to create a

I know citation() gives the R citation to be used in publications. Has anyone put this into endnote nicely? I'm not very experienced with endnote, and the way I have it at the momeny the 'R Development Core Team' becomes R. D. C. T. etc. Cheers.

Hi developers, After some investigation I have found there can be large discrepancies in the same object being saved as an external "xx.RData" file. The immediate repercussion of this is the possible increased size of your .RData workspace for no apparent reason. The function and its three scenarios below highlight these discrepancies. Note that the object being returned is exactly

Hi all, I have never worked with this kind of data before, so Please help me out with it. I have the following data set, in a csv file, looks like the following: Jan 27, 2010 16:01:24,000 125 - - - Jan 27, 2010 16:06:24,000 125 - - - Jan 27, 2010 16:11:24,000 176 - - - Jan 27, 2010 16:16:25,000 159 - - - Jan 27, 2010 16:21:25,000 142 - - - Jan 27, 2010 16:26:24,000 142 - - - Jan 27, 2010

Is it expected behavior for gc() to return shrinking values as it gets called multiple times? Here's what I've got: > gc() used (Mb) gc trigger (Mb) Ncells 221754 6.0 467875 12.5 Vcells 3760209 28.7 14880310 113.6 > gc() used (Mb) gc trigger (Mb) Ncells 221760 6.0 467875 12.5 Vcells 3016206 23.1 11904247 90.9 > gc() used (Mb) gc

This might be because I didn't get it right, but; I thought R would release memory back to the system as (big) objects get removed? Here is my platform (with 1Gb of RAM): platform sparc-sun-solaris2.8 arch sparc os solaris2.8 system sparc, solaris2.8 status major 1 minor 3.1 year 2001 month 08 day 31 language R A little example: Start a new section of R, with

Hi, I''ve been trying to use E5520 and X5650 together in an heterogeneous pool without success. I know the combination is not on the official XenServer supported list (http://hcl.xensource.com/CPUPoolsList.aspx), but I thought it would be possible to set the mask anyway and see for myself if the combination works… My problem is that the mask doesn''t "stick" after a

Hi, when doing as.double() on an object that is already a double, the object seems to be copied internally, doubling the memory requirement. See example below. Same for as.character() etc. Is this intended? Example: % R --vanilla > x <- double(1e7) > gc() used (Mb) gc trigger (Mb) max used (Mb) Ncells 234019 6.3 467875 12.5 350000 9.4 Vcells 10103774 77.1

Hello Everyone, I am having problem in defining specific axis for plotting a vactor. vecAVG <- c(0.2, 0.4, 0.6, 0.2, 0.4) names(vecAVG)<-c("brain","heart","kidney","lung","blood") par(mar=c(12,4.1,4.1, 2.1))

I am getting "Error: cannot allocate vector of size 197 MB". I know that similar problems were discussed a lot already, but I didn't find any satisfactory answers so far! Details: *** I have XP (32bit) with 4GB ram. At the time when the problem appeared I had 1.5GB of available physical memory. *** I increased R memory limit to 3GB via memory.limit(3000) *** I did gs() and got

Please, I have a 2GB computer and a huge time-series to embedd, and i tried increasing memory.limit() and memory.size(max=TRUE), but nothing. Just before the command: > memory.size(max=TRUE) [1] 13.4375 > memory.limit() [1] 1535.875 > gc() used (Mb) gc trigger (Mb) max used (Mb) Ncells 209552 5.6 407500 10.9 350000 9.4 Vcells 125966 1.0 786432 6.0 496686 3.8

Full_Name: Charles Dupont Version: Version 2.3.1 OS: linux Submission from: (NULL) (160.129.129.136) I think that this is infinite. I let it run for 30 minutes. During which it consumed 98% of my memory (1Gb) and steadily helled 90-99% of CPU. Steps to reproduce problem 1. get a source package e.g. Hmisc. 2. $ echo "library(Hmisc)" > Hmisc/R/test.R 3. $ R CMD INSTALL -d -l

Hi, I'm trying to calculate 95% confidence interval of C statistic of logistic regression model using rcorr.cens in rms package. I wrote a brief function for this purpose as the followings; CstatisticCI <- function(x) # x is object of rcorr.cens. { se <- x["S.D."]/sqrt(x["n"]) Low95 <- x["C Index"] - 1.96*se Upper95 <- x["C

hey guys, I am trying to add mapping functionality to the example application from the book. The mapping (mapquest''s openAPI) uses javascript to generate maps. So I was thinking that I''ll have a partial view to which i''ll pass the addresses and it''ll plot them. I''ll then put the partial view in the main view. Is this a good way of implementing this

Dear All, I am trying to build a package for a set of functions. I am able to build the package and its working fine. When I check it with R CMD check I get a following warning : no visible global function definition for ‘biocLite’ I have used biocLite to load a user defined library from within a function if that library is not pre-installed