similar to: R CMD check seg fault in Linux

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

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

[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

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,

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

Dear R users we're having a problem reading a largish data file using read.table(). The file consists of 175000 lines of 4 floating pt numbers. Here's what happens: > dat_read.table('sst.dat') Error: memory exhausted (This is line 358 of src/main/memory.c). Cutting down the file to around 15000 lines allows read.table() to work OK. I edited the memory limits in Platform.h

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

Martin M has suggested I widen this discussion to R-devel, and > I agree that we should increase them, > but I'm not sure at all about the amount. > > The default could even depend on the architecture (via "./configure").. Views, please. ------------- Begin Forwarded Message ------------- Is is not time we increased the defaults a bit? As the base gets bigger I hit

Dear R people, I wonder if some kind person can tell me the correct syntax to set the R_VSIZE environmental variable. I tried R_VSIZE = 10M in ~/.Renviron and also export R_VSIZE = 10M. These don't seem to work. I scrounged around looking for details about this, couldn't find any, got fed up. Faheem.

I've been trying to build a bundle with the R-devel snapshot from yesterday. (Yes I know it is unstable and just tell me if I shouldn't be trying to do this yet.) It is failing with the message tar : /dev/rmt/0 : Permission denied It happens after "removing junk files" and just after the message "building dse_2000.9-1.tar.gz" It looks to be coming from the line in

I have a problem with my dynamically loaded code in R not finding pow_ii, which for some time I thought was because library f2c is not on my Sparcstation. However, I have now been experiencing the same problem in Linux, with all the proper libraries in place. My incomplete understanding of elf and shared libraries does not help, but when compiling a complete program I usually muddle through.

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

What is the Rd file alias and usage syntax for an S4 assignment method? I have been trying variations on \alias{TSdoc<-,default-method} \usage{ \S4method{TSdoc}{default}(x) <- value but so far I have not got it right according to various codoc, etc, checks. Paul Gilbert ==================================================================================== La version fran?aise

I just tried to load r-devel (using rsync -r rsync.r-project.org::r-devel) and I get "operation not permitted" when I try ./configure. It appears the permissions and sticky bits are messed up again. Paul Gilbert -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-devel mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html Send

"[<-" in R 0.63 does not appear to strip attributes, whereas Splus and previous versions of R did. Paul _____ R 0.63: > data <- matrix(rnorm(300),100,3) > attr(data, "tframe") <- c(1981.50, 2006.25 , 4.00) > attributes(data) $dim [1] 100 3 $tframe [1] 1981.50 2006.25 4.00 > z <- data[10:90,] > attributes(z) $dim [1] 81 3 $tframe [1]

I've noticed that the arguments and result list of prcomp in the mva package (with 61.1) are not quite the same as in the Blue Book and in Splus. Is this intentional or can I change it? If I change it who should I send the code to? Paul Gilbert -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-devel mailing list -- Read

There was at one time some discussion about supporting documentation of multiple functions in one Rd file. Is that supported or still in the plans? Paul Gilbert -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-devel mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html Send "info", "help", or "[un]subscribe" (in the