This is strange. Because, from your install, I can now import openbabel but not pybel:
Python 2.6.6 (r266:84292, Dec 26 2010, 22:31:48) [GCC 4.4.5] on linux2 Type "help", "copyright", "credits" or "license" for more information. >>> import pybel ============================== *** Open Babel Error in openLib /home/mirix/openbabel/lib/openbabel/2.3.90/plugin_ops.so did not load properly. Error: /home/mirix/openbabel/lib/openbabel/2.3.90/plugin_ops.so: undefined symbol: _ZTVN9OpenBabel22OBEnergyConformerScoreE >>> import openbabel >>> On 09/15/2011 10:01 PM, Noel O'Boyle wrote: > After testing it out on your system, it seems to be that "make > install" fails if using EIGEN2 and the Python bindings (this is > already reported at > http://sourceforge.net/tracker/?func=detail&aid=3399341&group_id=40728&atid=428742). > I need to fix this. > > If not using Eigen2, then it all works fine for me with the system > python (python2.6) and swig: > > cmake ../trunk -DCMAKE_INSTALL_PREFIX=`pwd`/../install > -DPYTHON_BINDINGS=ON -DEIGEN2_INCLUDE_DIR= -DRUN_SWIG=ON > > After make&& make install, I defined > LD_LIBRARY_PATH=`pwd`/install/lib and > PYTHONPATH=`pwd`/install/lib/python2.6/site-packages, then "import > pybel" worked fine. > > - Noel > >> 2) I added the local python libraries folder to LD_LIBRARY_PATH (I had >> previously added the local OpenBabel path) >> >> 3) I modified all the relevant lines at CMakeCache.txt in the build >> directory >> 4) Then "touch openbabel-python.i" and, just in case, "touch >> scripts/openbabel-python.i" >> >> 5) I recompiled and reinstalled and it seems that now it is using the local >> installation. >> >> 6) Yet: >> >> Python 2.7.2 (default, Sep 15 2011, 12:37:05) >> [GCC 4.4.5] on linux2 >> Type "help", "copyright", "credits" or "license" for more information. >>>>> import openbabel >> Traceback (most recent call last): >> File "<stdin>", line 1, in<module> >> File "/home/mirix/python/lib/python2.7/site-packages/openbabel.py", line >> 212, in<module> >> _openbabel = swig_import_helper() >> File "/home/mirix/python/lib/python2.7/site-packages/openbabel.py", line >> 208, in swig_import_helper >> _mod = imp.load_module('_openbabel', fp, pathname, description) >> ImportError: dynamic module does not define init function (init_openbabel) >> >> On 09/15/2011 12:16 PM, Noel O'Boyle wrote: >>> One Python is 2.6, the other is 2.7. You need to decide which you want >>> to use as you can't compile against 2.7 and then use the 2.6 one. Can >>> you check all Python related variables in CMakeCache to see whether >>> they point to the version you want to use (and then "touch >>> openbabel-python.i" and recompile)? >>> >>> - Noel >>> >>> On 15 September 2011 11:05, Miro Moman<miromo...@gmail.com> wrote: >>>> Debian 6.0.2 64-bit. >>>> >>>> Yes, I have OpenBabel installed globally using apt-get because there are >>>> several packages that depend on it. I also have it locally. PYTHONPATH >>>> now >>>> points to the locally installed version, but I was getting the same error >>>> before defining the environmental variable PYTHONPATH. In fact, I >>>> performed >>>> a local install because I was having problems with the global one. The >>>> program is running fine (both versions). The only problem appears to be >>>> the >>>> Python bindings. >>>> >>>> The local installation: >>>> >>>> mirix@aeolux:~/openbabel/bin$ ../../python/bin/python2.7 >>>> Python 2.7.2 (default, Sep 14 2011, 12:28:39) >>>> [GCC 4.4.5] on linux2 >>>> Type "help", "copyright", "credits" or "license" for more information. >>>>>>> import openbabel >>>> Traceback (most recent call last): >>>> File "<stdin>", line 1, in<module> >>>> File "/home/mirix/python/lib/python2.7/site-packages/openbabel.py", line >>>> 170, in<module> >>>> _openbabel = swig_import_helper() >>>> File "/home/mirix/python/lib/python2.7/site-packages/openbabel.py", line >>>> 166, in swig_import_helper >>>> _mod = imp.load_module('_openbabel', fp, pathname, description) >>>> ImportError: dynamic module does not define init function >>>> (init_openbabel) >>>> [2]+ Stopped ../../python/bin/python2.7 >>>> >>>> The global installation >>>> >>>> mirix@aeolux:~/openbabel/bin$ python >>>> Python 2.6.6 (r266:84292, Dec 26 2010, 22:31:48) >>>> [GCC 4.4.5] on linux2 >>>> Type "help", "copyright", "credits" or "license" for more information. >>>>>>> import openbabel >>>> Traceback (most recent call last): >>>> File "<stdin>", line 1, in<module> >>>> File "/home/mirix/python/lib/python2.7/site-packages/openbabel.py", line >>>> 170, in<module> >>>> _openbabel = swig_import_helper() >>>> File "/home/mirix/python/lib/python2.7/site-packages/openbabel.py", line >>>> 166, in swig_import_helper >>>> _mod = imp.load_module('_openbabel', fp, pathname, description) >>>> ImportError: dynamic module does not define init function >>>> (init_openbabel) >>>> [3]+ Stopped python >>>> >>>> >>>> >>>> >>>> On 09/15/2011 11:55 AM, Noel O'Boyle wrote: >>>>> On 15 September 2011 10:37, Miro Moman<miromo...@gmail.com> wrote: >>>>>> So, I do not understand what is wrong. Is this a bug? >>>>> What operating system? Do you have other versions of Open Babel >>>>> installed. Also, what is the result of testing the installation as >>>>> described in the install instructions: >>>>> >>>>> >>>>> http://openbabel.org/docs/current/UseTheLibrary/PythonInstall.html#test-the-installation >>>>> >>>>> - Noel >> ------------------------------------------------------------------------------ BlackBerry® DevCon Americas, Oct. 18-20, San Francisco, CA http://p.sf.net/sfu/rim-devcon-copy2 _______________________________________________ OpenBabel-discuss mailing list OpenBabel-discuss@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/openbabel-discuss
