Hi Andreas, gcc is not the best compiler on an IA64 machine. We always recommend using the Intel compilers. Would it be possible to try those?
Regards, Michael Andreas Henschel wrote: > 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 > -- ____________________________________________ Michael Kluge, M.Sc. Technische Universität Dresden Center for Information Services and High Performance Computing (ZIH) D-01062 Dresden Germany Contact: Willersbau, Room HRSK 151 Phone: (+49) 351 463-32424 Fax: (+49) 351 463-37773 e-mail: michael.kl...@tu-dresden.de WWW: http://www.tu-dresden.de/zih
