Dear Edith,
You have overwritten the python that comes with the system with that from a
mgltools install. That particular install is 32 bit, your system is 64 bit.
Look in your shell configuration file (.bashrc most probably) for something
like export PYTHON_PATH and comment it temporally.
Rerun the instalation
http://www.pymolwiki.org/index.php/Linux_Install#Generic_Linux
Best regards,
Marius
On Mon, Mar 21, 2011 at 5:04 PM, Edith Gincel <
edith.gin...@parisdescartes.fr> wrote:
> I am working on Linux 2.6.18-8.el5 x86_64 GNU/Linux
>
> I had problem with the 0,99 version of pymol (it was working but with
> very strange behaviour thant no one could explain), so I am trying to
> install the 1.3r2 version
>
> I download it and then followed the instructions :
> I untarred and dezipped and then :
> python setup.py build install
>
> I get this error message which I don't understand at all. Could someone
> help me please?
>
> 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
> gcc -pthread -fno-strict-aliasing -DNDEBUG -g -O3 -Wall
> -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE
> -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -Iov/src -Ilayer0 -Ilayer1 -Ilayer2
> -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2
> -Imodules/cealign/src -Imodules/cealign/src/tnt
> -I/home/edith/logiciels/mgltools_i86Linux2_1.5.4/include/python2.5 -c
> modules/cealign/src/ccealignmodule.cpp -o
> build/temp.linux-x86_64-2.5/modules/cealign/src/ccealignmodule.o
> -ffast-math -funroll-loops -O3
> cc1plus: attention : l'option de la ligne de commande
> "-Wstrict-prototypes" est valide pour Ada/C/ObjC mais pas pour C++
> Dans le fichier inclus à partir
> de
> /home/edith/logiciels/mgltools_i86Linux2_1.5.4/include/python2.5/Python.h:57,
> à partir de layer0/os_python.h:30,
> à partir de modules/cealign/src/ccealignmodule.H:57,
> à partir de modules/cealign/src/ccealignmodule.cpp:32:
> /home/edith/logiciels/mgltools_i86Linux2_1.5.4/include/python2.5/pyport.h:734:2:
> erreur: #error "LONG_BIT definition appears wrong for platform (bad
> gcc/glibc config?)."
> modules/cealign/src/ccealignmodule.cpp: In function ‘PyObject*
> findBest(cePoint*, cePoint*, afp**, int, int, int)’:
> modules/cealign/src/ccealignmodule.cpp:553: attention : comparaison
> entre des expressions entières signée et non signée
> modules/cealign/src/ccealignmodule.cpp: In function
> ‘TNT::Array2D<double> transpose(const TNT::Array2D<double>&)’:
> modules/cealign/src/ccealignmodule.cpp:628: attention : comparaison
> entre des expressions entières signée et non signée
> modules/cealign/src/ccealignmodule.cpp:629: attention : comparaison
> entre des expressions entières signée et non signée
> error: command 'gcc' failed with exit status 1
>
>
>
>
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