Hi,
I have compiled openbabel with support for python on Mac OS X, and
while the compilation is successful (and the command line version,
obabel, works) the module is not functional because of a missing symbol:
import openbabel
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/home/amelie/software/local_disk/openbabel_2.3/ob_build/
scripts/pybuild/openbabel.py", line 175, in <module>
_openbabel = swig_import_helper()
File "/home/amelie/software/local_disk/openbabel_2.3/ob_build/
scripts/pybuild/openbabel.py", line 171, in swig_import_helper
_mod = imp.load_module('_openbabel', fp, pathname, description)
ImportError: dlopen(/home/amelie/software/local_disk/openbabel_2.3/
ob_build/scripts/pybuild/_openbabel.so, 2): Symbol not found:
__ZTVN9OpenBabel20OBRMSDConformerScoreE
Referenced from: /home/amelie/software/local_disk/openbabel_2.3/
ob_build/scripts/pybuild/_openbabel.so
Expected in: flat namespace
in /home/amelie/software/local_disk/openbabel_2.3/ob_build/scripts/
pybuild/_openbabel.so
I did get the following warning when compiling the module, not sure if
this has anything to do with the issue:
gcc-4.2 -fno-strict-aliasing -fno-common -dynamic -DNDEBUG -g -
fwrapv -Os -Wall -Wstrict-prototypes -DENABLE_DTRACE -arch x86_64 -
pipe -I/home/amelie/software/local_disk/openbabel_2.3/ob_src/scripts/
python/../../include -I../include -I/System/Library/Frameworks/
Python.framework/Versions/2.6/include/python2.6 -c /home/amelie/
software/local_disk/openbabel_2.3/ob_src/scripts/python/openbabel-
python.cpp -o build/temp.macosx-10.6-universal-2.6/home/amelie/
software/local_disk/openbabel_2.3/ob_src/scripts/python/openbabel-
python.o
cc1plus: warning: command line option "-Wstrict-prototypes" is valid
for C/ObjC but not for C++
/home/amelie/software/local_disk/openbabel_2.3/ob_src/scripts/python/
openbabel-python.cpp: In static member function ‘static Type
swig::traits_as<Type, swig::value_category>::as(PyObject*, bool) [with
Type = unsigned int]’:
/home/amelie/software/local_disk/openbabel_2.3/ob_src/scripts/python/
openbabel-python.cpp:3596: warning: ‘v’ may be used uninitialized in
this function
/home/amelie/software/local_disk/openbabel_2.3/ob_src/scripts/python/
openbabel-python.cpp: In static member function ‘static Type
swig::traits_as<Type, swig::value_category>::as(PyObject*, bool) [with
Type = int]’:
/home/amelie/software/local_disk/openbabel_2.3/ob_src/scripts/python/
openbabel-python.cpp:3596: warning: ‘v’ may be used uninitialized in
this function
Also, I had to re-run compilation of _openbabel [the python module] by
hand as the setting CMAKE_OSX_ARCHITECTURES:STRING=x86_64 seems to be
ignored in the compilation of the module.
If you have any advice on how to get the module to work I'd appreciate
it!
Amelie
------------------------------------------------------------------------------
Got Input? Slashdot Needs You.
Take our quick survey online. Come on, we don't ask for help often.
Plus, you'll get a chance to win $100 to spend on ThinkGeek.
http://p.sf.net/sfu/slashdot-survey
_______________________________________________
OpenBabel-discuss mailing list
OpenBabel-discuss@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/openbabel-discuss
