similar to: R CMD check --help

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

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

>>>>> 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,

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

[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, 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

I'm just trying to install 62.1 under Solaris. Making the program reports no errors, but when I try to run R I get ld.so.1: /home/res8/gilp/R-versions/R-0.62.1/bin/R.binary: fatal: libF77.so.2: can't open file: errno=2 Is there any standard place where I should be looking to find libF77? When make moves on to building the documents I get the errors below. (Is this because configure did

For some of my packages I am getting a segmentation fault in Linux when I use R CMD check. (Using R 1.0.1) The segmentation fault does not happen in Solaris and in some cases it does not happen in Linux if I set R_NSIZE and R_VSIZE much higher than I need in Solaris. Should I expect a segmentation fault if there is not enough memory for R CMD check, or are these unrelated? Paul Gilbert

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

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

I'm having trouble with make at the documentation. (R 0.63.2 on Solaris) Paul Gilbert ______ g77 -O2 -fPIC -c kmns.f -o kmns.o ld -G -o mva.so dblcen.o hclust.o kmns.o mkdir ../../../../library/mva/libs mkdir ../../../library/stepfun mkdir ../../../library/stepfun/R Building system startup profile You should `make docs' now ... make: Fatal error: Don't know how to make target

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

I've loaded R-0.50-a1 but when I try to apply the patches it cannot find the files to apply patches to. [9] gilp/R0.50 : patch <R-0.50-a1.patch1 Looks like a new-style context diff. File to patch: [10] gilp/R0.50 : [10] gilp/R0.50 : [10] gilp/R0.50 : cd R-0.50-a1 [11] gilp/R0.50/R-0.50-a1 : ls CHANGES RESOURCES configure.mac* COPYING TASKS configure.win* COPYRIGHTS TASKS.OLD

Installing 0.61 in Solaris (SunOS 5.5) I am getting the following error when I try to make docs or make help [28] /home/res8/gilp/R : make docs make: Fatal error: Don't know how to make target `../src/library/*/man/*.Rd' Current working directory /home/res8/gilp/R-versions/R-0.61/etc Paul Gilbert -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-devel

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.

I shouldn't try to do this on Monday morning. Can anyone suggest why the make for R 0.63 is failing for me under Solaris (SunOS 5.6). Paul Gilbert ... creating src/scripts/html2dos creating tests/Makefile creating tests/Examples/Makefile creating src/include/Platform.h R is now configured for sparc-sun-solaris2.6 Source directory: . Installation directory: /usr/local C

I've seen a few recent references here to `passing the R CMD check'. Is this Unix/Linux only? (I'm presuming it's some kind of function reference check ... that would be really useful) Simon -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html Send "info",

Where is the best place to put evaluation/test code in creating an R package? I thought about a test subdirectory, but might it be better to put in the R directory? I guess I'm more concerned about the output used for evaluating the success of the test, rather than the test code and data, itself. best, -tony -- A.J. Rossini UW Biostatistics & Center for AIDS Research 206-543-1044 /

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,