I've been experiencing this error with several versions of rpy. The only version that did work properly was Rpy1RC3, however newer versions of R require newer versions of Rpy, and I had to update to a newer Rpy and survive with the error. I've heard that this issue only arises on *nix systems (i.e linux). There are two errors that occur indistinctly when redrawing the X display containing a plot. Here is how it can be reproduced
-------------------------------------------------------------------------------------------------------- ~$ R R version 2.5.1 (2007-06-27) Copyright (C) 2007 The R Foundation for Statistical Computing ISBN 3-900051-07-0 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. Natural language support but running in an English locale R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > plot(c(1,2,3),c(4,5,6)) > >>>>>>>>>>>>>> This plots a figure in X that can be resized, minimized and closed without errors > Save workspace image? [y/n/c]: Save workspace image? [y/n/c]: y ~$ python Python 2.5.1 (r251:54863, Mar 7 2008, 04:10:12) [GCC 4.1.3 20070929 (prerelease) (Ubuntu 4.1.2-16ubuntu2)] on linux2 Type "help", "copyright", "credits" or "license" for more information. >>> import rpy >>> rpy.r.plot([1,2,3],[4,5,6]) >>>>>>>>>>>>>>>this plots a figure in X, when resizing, minimising, and whenever the X has to be redrawn, it kicks this error and terminates the python session with error >>> Error during wrapup: C stack usage is too close to the limit *** stack smashing detected ***: python terminated Aborted (core dumped) ~$ ------------------------------------------------------------------------------------------------------------ sometimes this error is produced, and the X display stays open and zombie, but control is returned to python >>> rpy.r.plot([1,2,3],[4,5,6]) >>> Error during wrapup: C stack usage is too close to the limit *** caught segfault *** address 0x18, cause 'memory not mapped' Possible actions: 1: abort (with core dump, if enabled) 2: normal R exit 3: exit R without saving workspace 4: exit R saving workspace Selection: >>> --------------------------------------------------------------------------------------------------------- Hope this can be solved. I'm willing to collaborate, but have no idea where to start. Any clues? Thanks Andres Lukasz Szybalski wrote: > On Wed, Apr 9, 2008 at 3:26 AM, Laurent Gautier <[EMAIL PROTECTED]> wrote: > >> Issues with the C stack are encountered now and then, and this might >> be a problem >> with R: >> http://tolstoy.newcastle.edu.au/R/e4/help/08/01/2069.html >> >> More generally, whenever the host application (here the Python >> process) is manipulating the stack (like when using threads I think) >> the problem might be more likely to appear. >> >> What is probably needed is a 100% reproducible example (I have not >> looked at Lucas' yet) that would help locate precisely (and hopefully >> fix) the problem. >> >> > > So who ever experienced a similar error, could you try: > > I get an error here on each machine I have: > > >>>> from rpy import * >>>> x = range(1,11) >>>> y = [i**2 for i in x] >>>> z = [i**3 for i in x] >>>> r.plot(x, y, main='My second plot', xlab='x', ylab='y', type='l', >>>> > col='blue') > >>>> r.lines(x, z, col='red') >>>> > > > Lucas > > ------------------------------------------------------------------------- > This SF.net email is sponsored by the 2008 JavaOne(SM) Conference > Don't miss this year's exciting event. There's still time to save $100. > Use priority code J8TL2D2. > http://ad.doubleclick.net/clk;198757673;13503038;p?http://java.sun.com/javaone > _______________________________________________ > rpy-list mailing list > rpy-list@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/rpy-list > ------------------------------------------------------------------------- This SF.net email is sponsored by the 2008 JavaOne(SM) Conference Don't miss this year's exciting event. There's still time to save $100. Use priority code J8TL2D2. http://ad.doubleclick.net/clk;198757673;13503038;p?http://java.sun.com/javaone _______________________________________________ rpy-list mailing list rpy-list@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rpy-list
