On Wed, 23 Jun 2010 09:07:36 -0400 "Schubert, Carsten [PRDUS]" <cschu...@its.jnj.com> wrote:
> Tim, > > I'm shooting from the hip here, but I think the problem is that cctbx > comes with its own python, which you would need to run both pymol and > numpy under. According to Ralf it is at least not trivial to utilize the > system python to run cctbx. So I think you need to compile/install pymol > against cctbx.python and install it as a module under cctbx.python. > Similar deal for numpy, which may already be available in cctbx, if not > installation should be straightforward. > > These broad steps may work (again shooting from the hip...) > -Install cctbx > -link cctbx.python to python and make sure its first in your path (may > be optional) > -install numpy under cctbx.python (if not already present) > -compile and install open.pymol against the cctbx.python, either via the > renaming trick > above or calling cctbx.python setup.py (build/install) > > Good luck, let us know how it works... I have no trouble running cctbx with pymol using the system python for both. I also use Debian testing and various Ubuntu versions. To do so I install cctbx from the sources. I have a web page with instructions for using pymol and cctbx together at: http://pldserver1.biochem.queensu.ca/~rlc/work/pymol/cctbx/ In short, I install cctbx using the self-extracting *source* not a precompiled version. Go to http://cci.lbl.gov/cctbx_build/ and scroll down to "Self-extracting cctbx sources for Unix". Once that installation is done, I go to where the cctbx.python script is (in the <install>/cctbx_build/bin directory). I then make a link to that called python: (i.e. ln -s cctbx.python python). Then to make sure that pymol "sees" the cctbx modules, I make sure that the command in the startup script for pymol has just "python", not "/usr/bin/python" in it so then it ends up running cctbx.python. (The setup scripts for cctbx will place its directory and the *beginning* of the PATH environment variable). I hope this helps, Rob -- Robert L. Campbell, Ph.D. Senior Research Associate/Adjunct Assistant Professor Botterell Hall Rm 644 Department of Biochemistry, Queen's University, Kingston, ON K7L 3N6 Canada Tel: 613-533-6821 Fax: 613-533-2497 <robert.campb...@queensu.ca> http://pldserver1.biochem.queensu.ca/~rlc
