On 22.10.2010 14:57 (UTC+1), Michael Lawrence wrote:
On Thu, Oct 21, 2010 at 9:42 AM, Rainer Hurling <rhur...@gwdg.de
<mailto:rhur...@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.
Obviously there is some wrong with my try?
Thanks again,
Rainer
Thanks,
Michael
I think this is rather technical for R-help, so maybe move to
R-devel?
I moved to R-devel.
And can you check the RGtk2 version? A recent but not current
version
(2.12.17?) did hang initializing Gtk+ on some platforms and Michael
Lawrence had to be involved.
I am using RGtk2_2.12.18.tar.gz for month now.
On Thu, 21 Oct 2010, Rainer Hurling wrote:
Am 21.10.2010 16:12 (UTC+1) schrieb Prof Brian Ripley:
On Thu, 21 Oct 2010, Rainer Hurling wrote:
I am working with R-2.12.0 on FreeBSD 9.0-CURRENT
for a while now. I
successfully installed more than 300 packages (most
as dependencies of
others).
There are two packages I am not able to install:
RGtk2 and rggobi.
For example rggobi builds fine and after that it
wants to load:
------------------------------------------------------
# R CMD INSTALL rggobi_2.1.16.tar.gz
[..SNIP..]
gcc -std=gnu99 -shared -L/usr/local/lib -o rggobi.so
RSEval.o brush.o
colorSchemes.o conversion.o data.o dataset.o
display.o displays.o
edges.o ggobi.o identify.o init.o io.o keyHandlers.o
longitudinal.o
modes.o plot.o plots.o plugins.o print.o session.o
smooth.o ui.o
utils.o -pthread -L/usr/local/lib -lggobi
-lgtk-x11-2.0 -lxml2
-lgdk-x11-2.0 -latk-1.0 -lgdk_pixbuf-2.0
-lpangocairo-1.0 -lXext
-lXrender -lXinerama -lXi -lXrandr -lXcursor
-lXcomposite -lXdamage
-lpangoft2-1.0 -lgio-2.0 -lXfixes -lcairo -lX11
-lpango-1.0 -lm
-lfreetype -lfontconfig -lgobject-2.0 -lgmodule-2.0
-lgthread-2.0
-lglib-2.0
installiert nach /usr/local/lib/R/library/rggobi/libs
** R
** data
** moving datasets to lazyload DB
** demo
** preparing package for lazy loading
------------------------------------------------------
At this point the install process is hanging, R
utilises no more CPU
time. Same with package RGtk2.
Is this a known error? Please let me know if I can
give more
information or try something different.
Well, those are exactly the two packages using Gtk+.
There is no known general problem, and as you could have
checked from
the CRAN check pages, those packages install without
problems on several
platforms. (Not Solaris, where ggobi does not install
and RGtk2 requires
gcc, and not x64 Windows where both need to be patched.)
So it does look very like there is a problem with
loading against the
Gtk+ system libraries on your system.
I think you are right. With previous versions of R (until
R-2.10.x) I
did not have this hanging when loading RGtk2 ... And I am
pretty sure
that I have no problems with gtk2 outside of R on my FreeBSD
system.
In the meantime I found out that the reported loading error
of rggobi
is a loading error of RGtk2, which fails (hangs). So there
remains
only a loading error with RGtk2. (Because of that I changed
the subject.)
After building/installing RGtk2, there are the following
messages:
------------------------------------------------------
[..SNIP..]
gcc -std=gnu99 -shared -L/usr/local/lib -o RGtk2.so
RGtkDataFrame.o
Rgtk.o atkAccessors.o atkClasses.o atkConversion.o atkFuncs.o
atkManuals.o atkUserFuncs.o cairo-enums.o cairoAccessors.o
cairoConversion.o cairoFuncs.o cairoManuals.o cairoUserFuncs.o
classes.o conversion.o eventLoop.o gdkAccessors.o gdkClasses.o
gdkConversion.o gdkFuncs.o gdkManuals.o gdkUserFuncs.o glib.o
gobject.o gtkAccessors.o gtkClasses.o gtkConversion.o gtkFuncs.o
gtkManuals.o gtkUserFuncs.o libgladeAccessors.o libgladeFuncs.o
libgladeManuals.o libgladeUserFuncs.o pangoAccessors.o
pangoClasses.o
pangoConversion.o pangoFuncs.o pangoManuals.o
pangoUserFuncs.o utils.o
zcompat.o -pthread -L/usr/local/lib -lglade-2.0
-lgtk-x11-2.0 -lxml2
-lgdk-x11-2.0 -latk-1.0 -lgdk_pixbuf-2.0 -lpangocairo-1.0 -lXext
-lXrender -lXinerama -lXi -lXrandr -lXcursor -lXcomposite
-lXdamage
-lpangoft2-1.0 -lgio-2.0 -lXfixes -lcairo -lX11 -lpango-1.0 -lm
-lfreetype -lfontconfig -lgobject-2.0 -lgmodule-2.0
-lgthread-2.0
-lglib-2.0 -pthread -L/usr/local/lib -lgthread-2.0 -lglib-2.0
installiert nach /usr/local/lib/R/library/RGtk2/libs
** R
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded [..hanging
from here..]
------------------------------------------------------
Is there a chance to find out what is wrong with loading
RGtk2 on my
system? Unfortunately I have almost no experience with real
debugging
methods on R. But of course I am willing to help and try out ...
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