From: Michael K. <Mic...@tu...> - 2007-04-26 13:58:21
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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, >=20 > did anyone of you come across the mysterious "internal compiler error: > Segmentation fault" > while compiling pymol from source? >=20 > The offending lines are in contrib/champ/champ.c:2787 >=20 > PRINTFD(FB_smiles_parsing) > " ChampParseBlockAtom: called.\n" > ENDFD; >=20 > Can I get around it somehow? Is it a 64-bit/gcc issue? > Any help would be greatly appreciated. >=20 > Some more error/system details: >=20 >> python setup.py install > ... > building 'chempy.champ._champ' extension > gcc -pthread -fno-strict-aliasing -DNDEBUG -O2 -fmessage-length=3D0 -Wa= ll > -D_FORTIFY_SOURCE=3D2 -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 >=20 >> 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 >=20 >> gcc -v > Using built-in specs. > Target: ia64-suse-linux > Configured with: ../configure --enable-threads=3Dposix --prefix=3D/usr > --with-local-prefix=3D/usr/local --infodir=3D/usr/share/info > --mandir=3D/usr/share/man --libdir=3D/usr/lib --libexecdir=3D/usr/lib > --enable-languages=3Dc,c++,objc,fortran,java,ada --enable-checking=3Dre= lease > --with-gxx-include-dir=3D/usr/include/c++/4.1.0 --enable-ssp > --disable-libssp --enable-java-awt=3Dgtk --enable-gtk-cairo > --disable-libjava-multilib --with-slibdir=3D/lib --with-system-zlib > --enable-shared --enable-__cxa_atexit --enable-libstdcxx-allocator=3Dne= w > --with-system-libunwind --host=3Dia64-suse-linux > Thread model: posix > gcc version 4.1.0 (SUSE Linux) > ia64 GNU/Linux >=20 > Cheers, > Andreas >=20 --=20 ____________________________________________ Michael Kluge, M.Sc. Technische Universit=E4t 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: mic...@tu... WWW: http://www.tu-dresden.de/zih |