similar to: --nsize and --vsize

Just wanted to start a discussion on whether R could ship with more appropriate GC parameters. Right now, loading the recommended package Matrix leads to: > library(Matrix) > gc() used (Mb) gc trigger (Mb) max used (Mb) Ncells 1076796 57.6 1368491 73.1 1198505 64.1 Vcells 1671329 12.8 2685683 20.5 1932418 14.8 Results may vary, but here R needed 64MB of N cells and 15MB

On Thu, Jan 15, 2015 at 3:55 PM, Michael Lawrence <lawrence.michael at gene.com> wrote: > Just wanted to start a discussion on whether R could ship with more > appropriate GC parameters. I've been doing a number of similar measurements, and have come to the same conclusion. R is currently very conservative about memory usage, and this leads to unnecessarily poor performance on

>>>>> Peter Haverty <haverty.peter at gene.com> >>>>> on Mon, 19 Jan 2015 08:50:08 -0800 writes: > Hi All, This is a very important issue. It would be very > sad to leave most users unaware of a free speedup of this > size. These options don't appear in the R --help > output. They really should be added there. Indeed,

This example from the INSTALL help seems to be broken in R 0.90.1 (on Solaris): gilp/dse : R CMD check --help Usage: R CMD check [options] [-l lib] pkg_1 ... pkg_n I'm trying to figure out how to request more nsize and vsize when using R CMD check. Paul Gilbert -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-devel mailing list -- Read

[RFC = Request for Comments] { Yes, the documentation for .Renviron is really not there (but the FAQ...); the rest is in ?Startup } In R's Startup (on Unix only??) {unless --no-environ is specified} ~/.Renviron (if there) is read as an 'sh' script before R is called, then R looks ((for the site-wide Rprofile and then)) for .Rprofile in the current directory and then for

Full_Name: Markus Neteler Version: 1.0.0 OS: Linux 2.2.10/i686 Submission from: (NULL) (130.75.72.37) Hi, I wanted to "check" the R.GRASS GIS interface from Roger Bivand: http://www.geog.uni-hannover.de/grass/statsgrasslist.html using R CMD check --vsize=10M GRASS but: [error message shortened] > G <- gmeta() Error: heap memory (6144 Kb) exhausted [needed 1024 Kb more]

I am running R version ??? under Redhat 5.2. It seems as though the --nsize object has no effct on the size of the allocated Ncells as determined using gc(). Yes, I have that much data.... That is if I envoke R with R --vsize 100 --nsize 5000000 then type gc() I get free total Ncells 92202 200000 Vcells 12928414 13107200 Thanks Tony Long Ecology and Evolutionary Biology Steinhaus

Hi, somtimes i have trivial recodings like this: > dim(tt) [1] 252382 98 system.time(for(i in 2:length(tt)){ tt[,i][is.na(tt[,i])] <- 0 }) ...and a win2000(XP2000+,1GB) machine makes it in several minutes, but my linux notebook (XP2.6GHZ,512MB) don't get success after some hours. I recognize that the cpu load is most time relative small, but the hardisk

Hi, The Gnome version now compiles, and it should also be working (at least as much as it ever has). I've changed Makefile.in to the new system, which is very cool. What I want to work on now is: - Graphics. I want to move to the Gnome canvas for this, which should be reasonably easy. This will give us rotated text (which I never got going properly before) and the option for

Hi All, This is a very important issue. It would be very sad to leave most users unaware of a free speedup of this size. These options don't appear in the R --help output. They really should be added there. Additionally, if the garbage collector is working very hard, might it emit a note about better setting for these variables? It's not really my place to comment on design philosophy,

Full_Name: Laurent Gautier Version: 0.65.0 OS: mips SGI-Irix 6.5 Submission from: (NULL) (195.110.4.98) Using R through emacs with ess5.1.8, I cannot set R workspace (--vsize and --nsize). So far I was using R0.64.2 without such a problem. I am aware my bug report is a bit light, but just let me know if anything I could do with my R and emacs would be of any help for\ specifying better what is

Dear R-ers, somehow it is not possible to increase nsize to more than 20000k. When I specify e.g. > R --vsize=10M --nsize=21000K the result is: free total (Mb) Ncells 99658 350000 6.7 Vcells 1219173 1310720 10.0 Maybe I have overlooked s.th.... Marcus -- +------------------------------------------------------- | Marcus Eger | E-Mail: eger.m at gmx.de (NEW) |

Hi Folks, I loaded a couple of quite large data sets into an R session and then quit (after saving the image). Now I get: Error: a read error occured Fatal error: unable to restore saved data (remove .RData or increase memory) after trying to start my R session using something like: R --vsize XXX --nsize 1000000 For any value of XXX (I went up to 300 or 400, which is as high as I could go.

Hi all, I'm having a very minor problem. Most every time I use the pager (I think) I get the following error about character 32. It works fine, but the error is a bit annoying. > ?version sh: invalid character 32 in exportstr for export R_NSIZE sh: invalid character 32 in exportstr for export R_VSIZE R.Version package:base R Documentation (and then the

Dear All, I am running R version 0.65.0 under a) Suse-Linux 6.1, and Suse-Linux 6.2, compiler gcc-2.95, CPUs pentium pro 200, 128MB, and pentium II 450, 128MB b) Solaris 5.7, compiler gcc-2.95, cpu SUN sparc, 4000MB When I set --nsize to more than 1M, R's internal storage management runs havoc. gc() indicates the requested sizes, but the overall process size is much too big: Running R with

Hi , I ''ve got a trouble with using R. When I want to load a file that contains 93 thousand raws and 22 colums of data (essentially float) R shows me this error message "heap size trouble" Does anyone could tell me what parameter shall I precise before launching R in order to load my big file. Thanks a lot -------------- next part -------------- A non-text attachment was

Hi everyone, I have a problem that some people may have already encountered but i did not find the solution yet. As I use R to simulate several arrays of data, my workspace is now 35Mb big and I cannot launch R with it. An "xdr real data read error occured" and R tells me to delete .RData or increase memory. I WON'T delete this file and changing the max-nsize to 40600k did not

Dear sir, I am using R in windows. I want to extend R Memory size. I use the following command, but unfortunately it doesn't work. -- vsize=15M --nsize=1000K Your help is appreciated. Thanks, Esmail Amiri. __________________________________________________ Do You Yahoo!? Get email at your own domain with Yahoo! Mail. http://personal.mail.yahoo.com/

When I use the -v I can modify the size of the heap, as assessed by gc(), but the -n key seems to be without effect ? On a machine with 48 mB ram I can load the libraries without problem, but on my own 36 mB ram machine, I get dynload problems with the larger, eg survival4. Any suggestions ? Troels -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-help mailing list

When I use the -v I can modify the size of the heap, as assessed by gc(), but the -n key seems to be without effect ? On a machine with 48 mB ram I can load the libraries without problem, but on my own 36 mB ram machine, I get dynload problems with the larger, eg survival4. Any suggestions ? Troels -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-help mailing list