Note that this is happening in R_GetTraceback. Running under gdb told me
where (deparse2buff, but I guessed that) and on my system that the problem
was in sprintf.
Eh voila:
case EXTPTRSXP:
{
char tpb[12+sizeof(void *)];
d->sourceable = FALSE;
sprintf(tpb, "<pointer: %p>", R_ExternalPtrAddr(s));
print2buff(tpb, d);
}
break;
is too small a buffer. I've just fixed that in the R sources.
So the unusual circumstance was deparsing an external pointer.
On Wed, 6 Aug 2008, Michael Lawrence wrote:
Yea I am aware of this. This is because the Ubuntu binary has stack smashing
detection enabled. It's possible to build R without this checking:
export CFLAGS="-fno-stack-protector"
I have not been able to figure out why stack smashing is detected. I'm
cc'ing this to r-devel in case anyone else has an idea.
Michael
On Wed, Aug 6, 2008 at 12:31 AM, Felix Andrews <[EMAIL PROTECTED]> wrote:
Hi Michael,
I wonder whether you have come across this before? I am testing RGtk2
on Ubuntu and it seems that any error that occurs in that context
kills the R process with a message "stack smashing detected". This is
on Ubuntu 8.04. Minimal example:
library(RGtk2)
sessionInfo()
R version 2.7.1 (2008-06-23)
i486-pc-linux-gnu
locale:
LC_CTYPE=en_AU.UTF-8;LC_NUMERIC=C;LC_TIME=en_AU.UTF-8;LC_COLLATE=en_AU.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_AU.UTF-8;LC_PAPER=en_AU.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_AU.UTF-8;LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] RGtk2_2.12.1
stop("hello")
Error: hello
foo <- GtkWindow()
Error: could not find function "GtkWindow"
foo <- gtkWindow()
butt <- gtkButton("error")
gSignalConnect(butt, "clicked", function(...) stop("hello"))
clicked
16
attr(,"class")
[1] "CallbackID"
foo$add(butt)
## click button
Error in function (...) : hello
*** stack smashing detected ***: /usr/lib/R/bin/exec/R terminated
======= Backtrace: =========
/lib/tls/i686/cmov/libc.so.6(__fortify_fail+0x48)[0xb7b98138]
/lib/tls/i686/cmov/libc.so.6(__fortify_fail+0x0)[0xb7b980f0]
/usr/lib/R/lib/libR.so[0xb7e12094]
/usr/lib/R/lib/libR.so[0xb7c8422e]
/usr/lib/R/lib/libR.so[0xb7c86fd7]
/usr/lib/R/lib/libR.so[0xb7c84082]
/usr/lib/R/lib/libR.so[0xb7c87b13]
/usr/lib/R/lib/libR.so(R_GetTraceback+0xc6)[0xb7cb8576]
/usr/lib/R/lib/libR.so[0xb7cba85c]
/usr/lib/R/lib/libR.so[0xb7cb966f]
/usr/lib/R/lib/libR.so(Rf_errorcall+0x3af)[0xb7cb9e7f]
/usr/lib/R/lib/libR.so[0xb7cba0c5]
/usr/lib/R/lib/libR.so[0xb7cfc89a]
/usr/lib/R/lib/libR.so(Rf_eval+0x451)[0xb7cc62e1]
/usr/lib/R/lib/libR.so[0xb7cc86c2]
/usr/lib/R/lib/libR.so(Rf_eval+0x451)[0xb7cc62e1]
/usr/lib/R/lib/libR.so[0xb7cc78f0]
/usr/lib/R/lib/libR.so(Rf_eval+0x451)[0xb7cc62e1]
/usr/lib/R/lib/libR.so(Rf_applyClosure+0x2ac)[0xb7cc9e5c]
/usr/lib/R/lib/libR.so(Rf_eval+0x349)[0xb7cc61d9]
/usr/lib/R/lib/libR.so(Rf_applyClosure+0x2ac)[0xb7cc9e5c]
/usr/lib/R/lib/libR.so(Rf_eval+0x349)[0xb7cc61d9]
/usr/lib/R/lib/libR.so[0xb7c75b89]
/usr/lib/R/lib/libR.so(R_ToplevelExec+0xb8)[0xb7c763b8]
/usr/lib/R/lib/libR.so(R_tryEval+0x3e)[0xb7c7643e]
/usr/lib/R/site-library/RGtk2/libs/RGtk2.so(R_GClosureMarshal+0x86)[0xb6ff18c6]
/usr/lib/libgobject-2.0.so.0(g_closure_invoke+0x129)[0xb68a7759]
/usr/lib/libgobject-2.0.so.0[0xb68bbd1d]
/usr/lib/libgobject-2.0.so.0(g_signal_emit_valist+0x8c6)[0xb68bd916]
/usr/lib/libgobject-2.0.so.0(g_signal_emit+0x29)[0xb68bdc59]
/usr/lib/libgtk-x11-2.0.so.0(gtk_button_clicked+0x8a)[0xb6bf301a]
/usr/lib/libgtk-x11-2.0.so.0[0xb6bf4b7e]
/usr/lib/libgobject-2.0.so.0(g_cclosure_marshal_VOID__VOID+0x4f)[0xb68b4a4f]
/usr/lib/libgobject-2.0.so.0[0xb68a6079]
/usr/lib/libgobject-2.0.so.0(g_closure_invoke+0x129)[0xb68a7759]
/usr/lib/libgobject-2.0.so.0[0xb68bb975]
/usr/lib/libgobject-2.0.so.0(g_signal_emit_valist+0x8c6)[0xb68bd916]
/usr/lib/libgobject-2.0.so.0(g_signal_emit+0x29)[0xb68bdc59]
/usr/lib/libgtk-x11-2.0.so.0(gtk_button_released+0x8a)[0xb6bf30aa]
/usr/lib/libgtk-x11-2.0.so.0[0xb6bf30d1]
/usr/lib/libgtk-x11-2.0.so.0[0xb6ccc8d4]
/usr/lib/libgobject-2.0.so.0[0xb68a6079]
/usr/lib/libgobject-2.0.so.0(g_closure_invoke+0x129)[0xb68a7759]
/usr/lib/libgobject-2.0.so.0[0xb68bbea0]
/usr/lib/libgobject-2.0.so.0(g_signal_emit_valist+0x5fe)[0xb68bd64e]
/usr/lib/libgobject-2.0.so.0(g_signal_emit+0x29)[0xb68bdc59]
/usr/lib/libgtk-x11-2.0.so.0[0xb6deb667]
/usr/lib/libgtk-x11-2.0.so.0(gtk_propagate_event+0xc1)[0xb6cc5b21]
/usr/lib/libgtk-x11-2.0.so.0(gtk_main_do_event+0x2b8)[0xb6cc6d88]
/usr/lib/libgdk-x11-2.0.so.0[0xb6b3fa9a]
/usr/lib/libglib-2.0.so.0(g_main_context_dispatch+0x178)[0xb681fbf8]
/usr/lib/libglib-2.0.so.0[0xb6822e5e]
/usr/lib/libglib-2.0.so.0(g_main_context_iteration+0x6c)[0xb68233ac]
/usr/lib/libgtk-x11-2.0.so.0(gtk_main_iteration+0x34)[0xb6cc70d4]
/usr/lib/R/site-library/RGtk2/libs/RGtk2.so(R_gtk_eventHandler+0x19)[0xb6f9fb19]
/usr/lib/R/lib/libR.so(R_runHandlers+0x46)[0xb7db9586]
/usr/lib/R/lib/libR.so[0xb7dba98f]
/usr/lib/R/lib/libR.so(R_ReadConsole+0x35)[0xb7db7945]
/usr/lib/R/lib/libR.so(Rf_ReplIteration+0x42b)[0xb7cea63b]
/usr/lib/R/lib/libR.so(run_Rmainloop+0x102)[0xb7cea7b2]
/usr/lib/R/lib/libR.so(Rf_mainloop+0x1c)[0xb7cea80c]
/usr/lib/R/bin/exec/R(main+0x46)[0x8048776]
/lib/tls/i686/cmov/libc.so.6(__libc_start_main+0xe0)[0xb7ac1450]
======= Memory map: ========
08048000-08049000 r-xp 00000000 08:02 288844 /usr/lib/R/bin/exec/R
08049000-0804a000 rw-p 00000000 08:02 288844 /usr/lib/R/bin/exec/R
0804a000-08ee1000 rw-p 0804a000 00:00 0 [heap]
b6387000-b6418000 r--p 00000000 08:02 261255
/usr/share/fonts/truetype/ttf-dejavu/DejaVuSans.ttf
b6418000-b641a000 r-xp 00000000 08:02 188205
/usr/lib/pango/1.6.0/modules/pango-basic-fc.so
b641a000-b641b000 rw-p 00001000 08:02 188205
/usr/lib/pango/1.6.0/modules/pango-basic-fc.so
b641b000-b6421000 r--s 00000000 08:02 187720
/var/cache/fontconfig/945677eb7aeafAborted
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--
Brian D. Ripley, [EMAIL PROTECTED]
Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
University of Oxford, Tel: +44 1865 272861 (self)
1 South Parks Road, +44 1865 272866 (PA)
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