R-2.12.0 hangs while loading RGtk2 on FreeBSD
On 28.10.2010 20:07 (UTC+1), Michael Lawrence wrote:
On Wed, Oct 27, 2010 at 12:09 PM, Rainer Hurling <rhurlin at gwdg.de
<mailto:rhurlin at gwdg.de>> wrote:
On 27.10.2010 15:07 (UTC+1), Michael Lawrence wrote:
On Sat, Oct 23, 2010 at 2:49 AM, Rainer Hurling <rhurlin at gwdg.de
<mailto:rhurlin at gwdg.de>
<mailto:rhurlin at gwdg.de <mailto:rhurlin at gwdg.de>>> wrote:
On 22.10.2010 22:10 (UTC+1), Rainer Hurling wrote:
On 22.10.2010 16:18 (UTC+2), Rainer Hurling wrote:
On 22.10.2010 14:57 (UTC+1), Michael Lawrence wrote:
On Thu, Oct 21, 2010 at 9:42 AM, Rainer Hurling
<rhurlin at gwdg.de <mailto:rhurlin at gwdg.de>
<mailto:rhurlin at gwdg.de <mailto:rhurlin at gwdg.de>>
<mailto:rhurlin at gwdg.de <mailto:rhurlin at gwdg.de>
<mailto:rhurlin at gwdg.de <mailto:rhurlin at gwdg.de>>>> wrote:
[moved from R-help]
On 21.10.2010 18:09 (UTC+1), Prof Brian Ripley
wrote:
If you do R CMD INSTALL --no-test-load this will
skip
the part
that is
hanging and you can try loading in stages (e.g.
dyn.load
on the
RGtk2.so).
With '--no-test-load' it installs and ends normal.
Loading per
dyn.load("RGtk2.so") works, just as
dyn.load("RGtk2.so",F) and
dyn.load("RGtk2.so",,F). Unloading works, too.
Normal loading over library(RGtk2) within R does not
work. R than is
hanging.
It seems the problem is not with the library itself?
It looks like something is happening when
initializing
GTK+ and the
event loop. This happens in the function
R_gtkInit in
Rgtk.c. If you
could run R -d gdb and break on that function,
perhaps
you could step
through until it hangs.
Michael, thank you for answering. As I wrote earlier (on
R-help@),
unfortunately I have no experience with debugging (I
am not a
programmer). So I would need some more assistence.
Is there a difference between 'library(RGtk2)' and
'dyn.load(RGtk2)' in
initializing GTK+? I am able to dyn.load, but
library does
not work.
After starting with 'R -d gdb' is the following right?
(gdb) break R_gtkInit
Function "R_gtkInit" not defined.
Make breakpoint pending on future shared library
load? (y or
[n]) y
Breakpoint 1 (R_gtkInit) pending.
When I try to proceed, it gives me the following message
(gdb) run
Starting program: /usr/local/lib/R/bin/exec/R
/libexec/ld-elf.so.1: Shared object "libRblas.so"
not found,
required by "R"
Program exited with code 01.
Ok, I am one step further now:
(gdb) run
Starting program: /usr/local/lib/R/bin/exec/R
[..SNIP..]
> library(RGtk2)
[New LWP 100174]
Breakpoint 2 at 0x318bd490: file Rgtk.c, line 104.
Pending breakpoint "R_gtkInit" resolved
[New Thread 2f408b00 (LWP 100174)]
[Switching to Thread 2f408b00 (LWP 100174)]
Breakpoint 2, R_gtkInit (rargc=0x30b11d10, rargv=0x30a98458,
success=0x30afbad0) at Rgtk.c:104
104 Rgtk.c: No such file or directory.
in Rgtk.c
(gdb)
What do you suggest I should do next?
Rgtk.c was not found from gdb because RGtk2 was not build with
DEBUG=T and R_KEEP_PKG_SOURCE=yes.
So this is the next try. I can trace the code until it hangs:
library(RGtk2)
[New LWP 100250]
Breakpoint 2 at 0x458bd490: file Rgtk.c, line 104.
Pending breakpoint "R_gtkInit" resolved
[New Thread 4322ef00 (LWP 100250)]
[Switching to Thread 4322ef00 (LWP 100250)]
Breakpoint 2, R_gtkInit (rargc=0x446d0980, rargv=0x44698618,
success=0x446d09e0) at Rgtk.c:104
104 {
(gdb) n
107 argc = (int) *rargc;
(gdb) n
104 {
(gdb) n
107 argc = (int) *rargc;
(gdb) n
109 if (!gdk_display_get_default()) {
(gdb) n
110 gtk_disable_setlocale();
(gdb) n
111 if (!gtk_init_check(&argc, &rargv)) {
(gdb) n
121 if (!GDK_DISPLAY()) {
(gdb) n
127 addInputHandler(R_InputHandlers,
ConnectionNumber(GDK_DISPLAY()),
(gdb) n
132 if (!pipe(fds)) {
(gdb) n
133 ifd = fds[0];
(gdb) n
134 ofd = fds[1];
(gdb) n
135 addInputHandler(R_InputHandlers, ifd,
R_gtk_timerInputHandler, 32);
(gdb) n
133 ifd = fds[0];
(gdb) n
134 ofd = fds[1];
(gdb) n
135 addInputHandler(R_InputHandlers, ifd,
R_gtk_timerInputHandler, 32);
(gdb) n
136 if (!g_thread_supported ()) g_thread_init (NULL);
(gdb) n
137 g_thread_create(R_gtk_timerThreadFunc, NULL,
FALSE, NULL);
(gdb) n
Line 138 (R_CStackLimit = -1;) is hanging. It seems there is
something wrong with piping the file descriptor?
Thanks for looking into this. It looks like the g_thread_create
line is
hanging. I wonder if your version of GTK+/GLib is not built with
threading support? But if that were the case, g_thread_init() should
have aborted. You could try breaking on the
R_gtk_timerThreadFunc just
to see if the thread is executed at all or where it is hanging.
Michael, I have to thank you :-) I set a break at
'R_gtk_timerThreadFunc'. It seems this function does not return:
[..see above..]
library(RGtk2)
[New LWP 100172]
Breakpoint 2 at 0x458bd5c0: file Rgtk.c, line 78.
Pending breakpoint "R_gtk_timerThreadFunc" resolved
[New Thread 4322ef00 (LWP 100172)]
[..hanging from here on..]
Next I tried a new run with break at 'g_main_context_new' (line 79),
which steps into glib-2.0.so.0, before it hangs:
library(RGtk2)
[New LWP 100195]
Breakpoint 2 at 0x47c7c660
Pending breakpoint "g_main_context_new" resolved
[New Thread 4322ef00 (LWP 100195)]
[Switching to Thread 4322ef00 (LWP 100195)]
Breakpoint 2, 0x0000000047c7c660 in g_main_context_new () from
/usr/local/lib/libglib-2.0.so.0
(gdb) n
Single stepping until exit from function g_main_context_new,
which has no line number information.
0x0000000047c7aed0 in g_source_set_priority () from
/usr/local/lib/libglib-2.0.so.0
(gdb) n
Single stepping until exit from function g_source_set_priority,
which has no line number information.
0x0000000047c7ac70 in g_main_loop_quit () from
/usr/local/lib/libglib-2.0.so.0
(gdb) n
Single stepping until exit from function g_main_loop_quit,
which has no line number information.
0x0000000047c7a280 in g_source_get_context () from
/usr/local/lib/libglib-2.0.so.0
(gdb) n
Single stepping until exit from function g_source_get_context,
which has no line number information.
0x0000000047c7c6f3 in g_main_context_new () from
/usr/local/lib/libglib-2.0.so.0
(gdb) p ctx
No symbol "ctx" in current context.
(gdb) p data
No symbol "data" in current context.
(gdb) n
Single stepping until exit from function g_main_context_new,
which has no line number information.
0x0000000047c7c8b2 in g_main_context_default () from
/usr/local/lib/libglib-2.0.so.0
(gdb) n
Single stepping until exit from function g_main_context_default,
which has no line number information.
0x0000000047c7dea5 in g_source_attach () from
/usr/local/lib/libglib-2.0.so.0
(gdb) n
Single stepping until exit from function g_source_attach,
which has no line number information.
0x0000000047c79c50 in g_list_remove_link () from
/usr/local/lib/libglib-2.0.so.0
(gdb) n
Single stepping until exit from function g_list_remove_link,
which has no line number information.
0x0000000047c7dde6 in g_source_attach () from
/usr/local/lib/libglib-2.0.so.0
(gdb) n
Single stepping until exit from function g_source_attach,
which has no line number information.
0x0000000047c7ac70 in g_main_loop_quit () from
/usr/local/lib/libglib-2.0.so.0
(gdb) n
Single stepping until exit from function g_main_loop_quit,
which has no line number information.
0x0000000047c7a280 in g_source_get_context () from
/usr/local/lib/libglib-2.0.so.0
(gdb) n
Single stepping until exit from function g_source_get_context,
which has no line number information.
0x0000000047c7de00 in g_source_attach () from
/usr/local/lib/libglib-2.0.so.0
(gdb) n
Single stepping until exit from function g_source_attach,
which has no line number information.
0x0000000047c7a280 in g_source_get_context () from
/usr/local/lib/libglib-2.0.so.0
(gdb) n
Single stepping until exit from function g_source_get_context,
which has no line number information.
0x0000000047c7de11 in g_source_attach () from
/usr/local/lib/libglib-2.0.so.0
(gdb) n
Single stepping until exit from function g_source_attach,
which has no line number information.
0x000000004608eec8 in gdk_add_client_message_filter () from
/usr/local/lib/libgdk-x11-2.0.so.0
(gdb) n
Single stepping until exit from function gdk_add_client_message_filter,
which has no line number information.
[..hanging from here on..]
Is there an easy way to find out if GTK+/GLib is built with
threading support?
The g_thread_init() call should abort the program if there is no
threading support, so I'm assuming it's there. I'm not sure what's wrong
here, but maybe I'll just #ifdef out the threaded event handling for
FreeBSD. A new RGtk2 will be released in the next few days.
Great news! I could test the unthreaded version before releasing if you would like to. Thanks so far, Rainer
Michael
Thanks, Rainer
Thanks again for taking the time to work on this. Sorry I have been
non-responsive.
Michael
[..mail deleted from here on..]