Referring the following, I'm trying to install PyMOL 1.4.1 with attached 'compile_pymol.sh', but no success. Would you please help to finish installation, or give me some advices? If information inadequate, please contact me.
http://www.pymolwiki.org/index.php/Linux_Install - Requirements - Get latest Source from SVN - Compile and install - Problems - "gcc-4.5 is broken for pymol install, use gcc-4.4" -- My distribution has gcc4.5, so installed /usr/bin/gcc44, /usr/bin/g++44. Attached 'install_error.txt' gathers some information: - Original module files are in $HOME/install_module/pymol-archive - Intends to install in $HOME/pymol-svn - Original log has some Japanese messages so I added /* means ... */ Regards, Masataka
# ---------------------------------------------------------------------------------- [user01@rain02 etc]$ cat /etc/issue CentOS release 5.5 (Final) Kernel \r on an \m # ---------------------------------------------------------------------------------- [user01@rain02 etc]$ python -V Python 2.4.3 [user01@rain02 etc]$ # ---------------------------------------------------------------------------------- [user01@rain02 pymol-archive]$ gcc -v Using built-in specs. COLLECT_GCC=gcc COLLECT_LTO_WRAPPER=/usr/local/libexec/gcc/x86_64-unknown-linux-gnu/4.5.1/lto-wrapper Target: x86_64-unknown-linux-gnu /* means "config option" */: ./configure -disable-multilib --with-gmp=/usr/local --with-mpfr=/usr/local --with-mpc=/usr/local /* means "thread model" */: posix gcc version 4.5.1 (GCC) # ---------------------------------------------------------------------------------- [user01@rain02 pymol-archive]$ which gcc44 /usr/bin/gcc44 [user01@rain02 pymol-archive]$ which g++44 /usr/bin/g++44 [user01@rain02 pymol-archive]$ export CC=/usr/bin/gcc44 [user01@rain02 pymol-archive]$ echo $CC /usr/bin/gcc44 [user01@rain02 pymol-archive]$ ./compile_pymol.sh running build running build_py package init file 'modules/web/javascript/__init__.py' not found (or not a regular file) package init file 'modules/web/javascript/__init__.py' not found (or not a regular file) running build_ext building 'pymol._cmd' extension /usr/bin/gcc44 -fno-strict-aliasing -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -D_GNU_SOURCE -fPIC -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -DNO_MMLIBS -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Imodules/cealign/src -Imodules/cealign/src/tnt -I/usr/include/python2.4 -c layer0/Isosurf.c -o build/temp.linux-x86_64-2.4/layer0/Isosurf.o -ffast-math -funroll-loops -O3 layer0/Isosurf.c:2197:1: error: I[³êĢȢøXgª}N "fprintf" ðN®µæ¤ÆµÜµ½ /* means <unterminated argument list invoking macro \"fprintf\"" */ layer0/Isosurf.c: In function eIsosurfGetRangef: layer0/Isosurf.c:765: x: /* means warning */ statement with no effect layer0/Isosurf.c:765: error: expected e;f at end of input layer0/Isosurf.c:765: error: expected declaration or statement at end of input layer0/Isosurf.c:765: error: expected declaration or statement at end of input layer0/Isosurf.c:765: error: expected declaration or statement at end of input layer0/Isosurf.c:764: x: unused variable eclampedf layer0/Isosurf.c:763: x: unused variable ebf layer0/Isosurf.c:763: x: unused variable eaf layer0/Isosurf.c:762: x: unused variable eimixf layer0/Isosurf.c:762: x: unused variable emixf layer0/Isosurf.c:761: x: unused variable eimxf layer0/Isosurf.c:761: x: unused variable eimnf layer0/Isosurf.c:760: x: unused variable ermxf layer0/Isosurf.c:760: x: unused variable ermnf error: command '/usr/bin/gcc44' failed with exit status 1 [user01@rain02 pymol-archive]$
compile_pymol.sh
Description: Bourne shell script
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