Actually, the python which I used when trying to install openbabel python
bindings, was from Xcode disk. I will use fink to install another version of
python. (It seems that in fink one can install openbabel-py if the the
fink-version of python is downloaded, but I was hoping I could compile
openbabel bindings from scratch using "native" python).
Thank you,
Visvaldas
________________________________
From: Noel O'Boyle <[email protected]>
To: Visvaldas K. <[email protected]>
Cc: "[email protected]"
<[email protected]>
Sent: Thursday, January 5, 2012 3:34 PM
Subject: Re: [OpenBabel-scripting] OSX 6.8 Openbabel python bindings
Can you try using a different version of Python, e.g. your system
installation of Python. (I forget where this is located, check on
Google.)
To do this, set the CMake variables (using -D) PYTHON_EXECUTABLE,
PYTHON_INCLUDE_PATH and PYTHON_LIBRARY appropriately, and force a SWIG
rebuild by "touch $OBSRC/scripts/openbabel-python.i" (with the
appropriate value for $OBSRC). To see the current values of the Python
variables, use "grep -i python CMakeCache.txt".
- Noel
On 4 January 2012 20:58, Visvaldas K. <[email protected]> wrote:
> Dear colleagues,
>
> I tried to compile openbabel python bindings for trunk version of openbabel
> on December 30 on my mac, os version 10.6.8 (with python 2.5 - perhaps it's
> too old!), with the following error:
> ng error:
>
> {visvaldas}~/openbabel/build% make bindings_python -j2
> [ 4%] [ 4%] Building CXX object src/CMakeFiles/openbabel.dir/atom.o
> Building CXX object src/CMakeFiles/openbabel.dir/base.o
> [ 4%] Building CXX object src/CMakeFiles/openbabel.dir/bitvec.o
> [ 9%] Building CXX object src/CMakeFiles/openbabel.dir/bond.o
> [ 9%] Building CXX object src/CMakeFiles/openbabel.dir/bondtyper.o
> [ 9%] Building CXX object src/CMakeFiles/openbabel.dir/builder.o
> [ 14%] Building CXX object src/CMakeFiles/openbabel.dir/canon.o
>
> <similar part chopped off - VK>
>
> [ 95%] Building CXX
> object src/CMakeFiles/openbabel.dir/stereo/perception.o
> [100%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/facade.o
> Linking CXX shared library ../lib/libopenbabel.dylib
> [100%] Built target openbabel
> [100%] Generating ../../scripts/python/openbabel-python.cpp,
> ../../scripts/python/openbabel.py
> /Users/visvaldas/openbabel/include/openbabel/isomorphism.h:159: Warning 325:
> Nested class not currently supported (Functor ignored)
> Scanning dependencies of target bindings_python
> [100%] Building CXX object
> scripts/CMakeFiles/bindings_python.dir/python/openbabel-python.cpp.o
> In file included from
> /Library/Frameworks/Python.framework/Headers/Python.h:57,
> from
> /Users/visvaldas/openbabel/scripts/python/openbabel-python.cpp:150:
> /Library/Frameworks/Python.framework/Headers/pyport.h:730:2: error: #error
> "LONG_BIT definition appears wrong for platform (bad gcc/glibc config?)."
>
>
> make[3]: ***
> [scripts/CMakeFiles/bindings_python.dir/python/openbabel-python.cpp.o]
> Error 1
> make[2]: *** [scripts/CMakeFiles/bindings_python.dir/all] Error 2
> make[1]: *** [scripts/CMakeFiles/bindings_python.dir/rule] Error 2
> make: *** [bindings_python] Error 2
>
>
> Best regards,
>
> Visvaldas
>
>
>
>
> Hello Pierre,
>
> I've been doing some work on the Python bindings getting them to work
> on MacOSX 64-bit. Please try our development code (trunk). You will
> need to recreate the bindings using -DRUN_SWIG=TRUE with a recent
> version of Swig (>=2.0.1) on the path.
>
> You should also "grep -i python CMakeCache.txt" and check that all of
> the Python related variables are pointing to the same desired Python
> installation. If not, you can edit CMakeCache.txt directly or else
> specify the correct values when calling CMake.
>
> - Noel
>
>
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