Dmitriy, Due to problem with multithreading (especially with the Tcl/Tk external GUI), we haven't been able to get the "import pymol" approach to work in a stable robust manner across different OSes and environments.
So sight now, as per comments in "modules/pymol/__init__.py", the only supported way to launch PyMOL is to run the __init__.py script on startup. %python modules/pymol/__init__.py Hoever, if you disable the external GUI, then you might be able to get "import pymol" to work... pymol_argv = ['pymol', '-qx'] import pymol pymol.finish_launching() from pymol import cmd cmd.load(...etc. Cheers, Warren -- Warren L. DeLano, Ph.D. Principal Scientist . DeLano Scientific LLC . 400 Oyster Point Blvd., Suite 213 . South San Francisco, CA 94080 USA . Biz:(650)-872-0942 Tech:(650)-872-0834 . Fax:(650)-872-0273 Cell:(650)-346-1154 . mailto:war...@delsci.com > -----Original Message----- > From: pymol-users-ad...@lists.sourceforge.net > [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of > Dmitriy Igor Bryndin > Sent: Monday, October 10, 2005 2:33 PM > To: pymol-users@lists.sourceforge.net > Subject: [PyMOL] PyMol segmentation fault while starting from > external python program > > Launching PyMol form external python script will produce > segmaentation fault. > For example starting "launch.py" from "/pymol/examples/launching" > ---------------------------------------------- > $ python launch.py > zsh: segmentation fault python launch.py > ---------------------------------------------- > Crashes without even showing PyMol windows. > > Tried it on Fedora Core 1, Fedora Core 4, Mandriva 2005. The > same story. > Different pythons and compiling different versions of PyMol > does not change anything. > > It will launch PyMol windows if there is only > import pymol > line. > > Adding > pymol.finish_launching() > or > from pymol import cmd > cmd.load("$PYMOL_PATH/test/dat/pept.pdb") > will produce segmentation fault. With no windows shown. > > The same time if I'll try to debug step by step, let's say, > "launch_demo.py" > (from "/pymol/examples/launching") > ------------------------------- > pymol.finish_launching() > from pymol import cmd > cmd.load("$PYMOL_PATH/test/dat/pept.pdb") > cmd.show("sticks") > ------------------------------- > using IDLE. Everything will work. It starts windows, loads a > file, changes to sticks... > Running it "python launch_demo.py" will wait for a second and > return segmentation fault. > > If someone knows what's going on, please help me. > > Thanks > Dmitriy Bryndin > > > > > > ------------------------------------------------------- > This SF.Net email is sponsored by: > Power Architecture Resource Center: Free content, downloads, > discussions, and more. http://solutions.newsforge.com/ibmarch.tmpl > _______________________________________________ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users > > > >
