You should be able to copy chimera's dl module from CHIMERA/lib/python2.5/lib-dynload/dl.so to somewhere on your python path, or create a dummy dl module that has the value of RTLD_GLOBAL for your platform (should be the same on all Linux systems). - Greg On Fri, 15 Aug 2008, Ondrej Marsalek wrote:
hello again,
On Wed, Aug 13, 2008 at 23:17, Eric Pettersen <pett@cgl.ucsf.edu> wrote:
Here's what works for me: env CHIMERA=/usr/local/chimera.dev LD_LIBRARY_PATH=/usr/local/chimera.dev/lib PYTHONPATH=/usr/local/chimera.dev/share:/usr/local/chimera.dev/lib:/usr/local/chimera.dev/lib/python2.5/site-packages python2.5 You will have to adjust the above to your local installation, and may want to include the original values of LD_LIBRARY_PATH and PYTHONPATH if they are normally non-empty for you (i.e. in a similar fashion to your original export statements). At the resulting python prompt: from chimeraInit import init init([], nogui=True, script="py:/dev/null") The "script=" keyword arg prevents Chimera from giving you it's own command prompt since you are tricking it into believing that you've provided a script to execute (/dev/null is always an empty file). Alternatively, you could have just typed "stop" at the prompt that Chimera gave you and gotten back to the python prompt.
thanks, that is what i wanted to achieve and it works on 32bit linux. on a 64bit system (amd64, that is), however, i end up with the traceback included below and without a working chimera. i think this is a bug. i don't know much in that specific area, but it seems that the dl module has been removed, see for example http://bugs.python.org/issue2470 is this really a bug or is there a problem with my setup? i run ubuntu 8.04 on both machines, python is version 2.5.2 on the 64bit one. i can provide more information if needed.
anyway, i have (at least in principle) a way to achieve the original goal and i believe the above mentioned problem will eventually get resolved.
thanks, ondrej marsalek
In [3]: init([], nogui=True, script="py:/dev/null") --------------------------------------------------------------------------- <type 'exceptions.ImportError'> Traceback (most recent call last)
/home/andy/<ipython console> in <module>()
/home/andy/CHIMERA/share/chimeraInit.py in init(argv, nogui, nomultisample, stereo, bgopacity, visual, screen, root, debug, geometry, title, eventloop, exitonquit, nostatus, preferencesFile, fullscreen, script, silent) 305 if sys.platform in ['linux2', 'irix646', 'irix6-n32']: 306 # make C++ shared libraries work when dlopen'd --> 307 import dl 308 sys.setdlopenflags(sys.getdlopenflags() | dl.RTLD_GLOBAL) 309
<type 'exceptions.ImportError'>: No module named dl _______________________________________________ Chimera-dev mailing list Chimera-dev@cgl.ucsf.edu http://www.cgl.ucsf.edu/mailman/listinfo/chimera-dev