Hi all,
did anyone of you come across the mysterious "internal compiler error:
Segmentation fault"
while compiling pymol from source?
The offending lines are in contrib/champ/champ.c:2787
PRINTFD(FB_smiles_parsing)
" ChampParseBlockAtom: called.\n"
ENDFD;
Can I get around it somehow? Is it a 64-bit/gcc issue?
Any help would be greatly appreciated.
Some more error/system details:
> python setup.py install
...
building 'chempy.champ._champ' extension
gcc -pthread -fno-strict-aliasing -DNDEBUG -O2 -fmessage-length=0 -Wall
-D_FORTIFY_SOURCE=2 -g -fPIC -Icontrib/champ -I/usr/include/python2.4 -c
contrib/champ/champ.c -o build/temp.linux-ia64-2.4/contrib/champ/champ.o
contrib/champ/champ.c: In function 'ChampParseBlockAtom':
contrib/champ/champ.c:2787: internal compiler error: Segmentation fault
Please submit a full bug report,
with preprocessed source if appropriate.
See <URL:http://www.suse.de/feedback> for instructions.
error: command 'gcc' failed with exit status 1
> uname -a
Linux mars 2.6.16.27-0.6-default #1 SMP Wed Dec 13 09:34:50 UTC 2006
ia64 ia64 ia64 GNU/Linux
> gcc -v
Using built-in specs.
Target: ia64-suse-linux
Configured with: ../configure --enable-threads=posix --prefix=/usr
--with-local-prefix=/usr/local --infodir=/usr/share/info
--mandir=/usr/share/man --libdir=/usr/lib --libexecdir=/usr/lib
--enable-languages=c,c++,objc,fortran,java,ada --enable-checking=release
--with-gxx-include-dir=/usr/include/c++/4.1.0 --enable-ssp
--disable-libssp --enable-java-awt=gtk --enable-gtk-cairo
--disable-libjava-multilib --with-slibdir=/lib --with-system-zlib
--enable-shared --enable-__cxa_atexit --enable-libstdcxx-allocator=new
--with-system-libunwind --host=ia64-suse-linux
Thread model: posix
gcc version 4.1.0 (SUSE Linux)
ia64 GNU/Linux
Cheers,
Andreas
--
Andreas Henschel
Bioinformatics Group
TU Dresden
Tatzberg 47-51
01307 Dresden, Germany
Phone: +49 351 463 40063
EMail: a...@biotec.tu-dresden.de
