Hi Christian: I ran into a series of such problems while making the fink package for this a few weeks ago. Fink has the same edict (which is a good idea by the way) not to use DYLD_LIBRARY_PATH. My work-around was to use install_name_tool to properly hard-code the correct paths into the libraries after compiling.
You can see how I did it here: http://fink.cvs.sourceforge.net/viewvc/fink/dists/10.7/stable/main/finkinfo/sci/rdkit.info?view=markup Feel free to use any or all of it for making a macports package. Bill William G. Scott Professor Department of Chemistry and Biochemistry and The Center for the Molecular Biology of RNA 228 Sinsheimer Laboratories University of California at Santa Cruz Santa Cruz, California 95064 USA On Mar 26, 2013, at 1:57 AM, Christian Kramer <[email protected]> wrote: > Dear all, > > I write this Email to report a bug/problem for the combination RDKit & > MacPorts that has kept me busy for two days. > > After recompiling a new version of boost I managed to install rdkit on my OS > X 10.8 mac, otherwise using the libraries provided by MacPorts. As far as I > can tell, RDKit works, but a lot of the other python modules that provide > graphical output like matplotlib, Tkinter etc. do not work any more. For > example, when trying to import Tkinter into python I get the following error: > > ########## > > In [1]: import Tkinter > --------------------------------------------------------------------------- > ImportError Traceback (most recent call last) > <ipython-input-1-a0c812564da3> in <module>() > ----> 1 import Tkinter > > /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/lib-tk/Tkinter.py > in <module>() > 37 # Attempt to configure Tcl/Tk without requiring PATH > 38 import FixTk > ---> 39 import _tkinter # If this fails your Python may not be configured for > Tk > 40 tkinter = _tkinter # b/w compat for export > 41 TclError = _tkinter.TclError > > ImportError: > dlopen(/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/_tkinter.so, > 2): Symbol not found: __cg_jpeg_resync_to_restart > Referenced from: > /System/Library/Frameworks/ImageIO.framework/Versions/A/ImageIO > Expected in: /opt/local/lib/libJPEG.dylib > in /System/Library/Frameworks/ImageIO.framework/Versions/A/ImageIO > > ########## > > After a long search, it turned out that this is because I have to set the > DYLD_LIBRARY_PATH for RDKit, which is incompatible with MacPorts. When I > remove the DYLD_LIBRARY_PATH statement from my ~/.bash_profile and > /etc/bashrc, Tkinter an matplotlib work, but RDKit does not work any more. > Also, RDKit does not work using the DYLD_LIBRARY_FALLBACK_PATH instead. When > googling for the DYLD_LIBRARY_PATH issue, I find quite a number of comments > that suggest to not use this variable. > > So here is my question: Is it possible to remove the necessity to have the > DYLD_LIBRARY_PATH set for rdkit in a future version? Or this there another > workaround to get RDKit and matplotlib installed via MacPorts running? > > Cheers from Innsbruck, > Christian > > > > > > > ------------------------------------------------------------------------------ > Own the Future-Intel® Level Up Game Demo Contest 2013 > Rise to greatness in Intel's independent game demo contest. > Compete for recognition, cash, and the chance to get your game > on Steam. $5K grand prize plus 10 genre and skill prizes. > Submit your demo by 6/6/13. > http://p.sf.net/sfu/intel_levelupd2d_______________________________________________ > Rdkit-discuss mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/rdkit-discuss ------------------------------------------------------------------------------ Own the Future-Intel® Level Up Game Demo Contest 2013 Rise to greatness in Intel's independent game demo contest. Compete for recognition, cash, and the chance to get your game on Steam. $5K grand prize plus 10 genre and skill prizes. Submit your demo by 6/6/13. http://p.sf.net/sfu/intel_levelupd2d _______________________________________________ Rdkit-discuss mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/rdkit-discuss
