[PyMOL] Using a seperate python installation
Hello All, Can someone tell me wether it is possible to use a stand-alone python installation alongside the latest PyMol releases? I have a few things set up in my main python installation which an older (python free) version of Pymol was happy to use, having installed the newer version it uses it's own version of python. Is this possible to specify in the .pymolrc? If so what do I write? I've tried the obvious PYTHON_PATH = 'C:\\Python24\\' Many thanks, Jules
Re: [PyMOL] Using a seperate python installation
Can someone tell me wether it is possible to use a stand-alone python installation alongside the latest PyMol releases? I have a few things set up in my main python installation which an older (python free) version of Pymol was happy to use, having installed the newer version it uses it's own version of python. Is this possible to specify in the .pymolrc? If so what do I write? I've tried the obvious PYTHON_PATH = 'C:\\Python24\\' If I'm understanding you correctly, you'd like to use a currently installed python with a newer version of pymol. It sounds like you may need to re-install the new pymol (possibly rebuild, with the new python paths (include/lib) set to your system version of python). There's always the standard sys.path workaround (start new version of pymol, add system python lib directory to sys.path, import your other modules and check them to make sure they still give the same results)...but that may cause version conflicts between pymol/system python module imports (it might not too, I've never tried it). Hopefully somebody more farmiliar (sp?) with python/pymol on windows (I'm assuming you're using that from the c:\python24 reference) has a better solution than this. Pete Pete Meyer Fu Lab BMCB grad student Cornell University
RE: [PyMOL] Using a seperate python installation
There is always this trade off between (A) shipping PyMOL with its own Python, to guarantee reliable installation, or (B) using a system PyMOL install, for enabling integration and extensibility. One of PyMOL's advantages is that you aren't locked in to either approach, embedding or extension -- the program supports both. The challenge with (B) is that installed Python versions vary from system to system, so recompilation of PyMOL is the only sure way to guarantee binary compatibility between PyMOL's compiled code and the system Python install. Setting PYTHONPATH (note no underscore) only works if the modules you import are native Python (with no binary C-language dependencies). 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 Jules Jacobsen Sent: Friday, October 07, 2005 5:07 AM To: 'pymol' Subject: [PyMOL] Using a seperate python installation Hello All, Can someone tell me wether it is possible to use a stand-alone python installation alongside the latest PyMol releases? I have a few things set up in my main python installation which an older (python free) version of Pymol was happy to use, having installed the newer version it uses it's own version of python. Is this possible to specify in the .pymolrc? If so what do I write? I've tried the obvious PYTHON_PATH = 'C:\\Python24\\' Many thanks, Jules --- 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
[PyMOL] PyMol training
Hello, I am new to PyMol and was wondering if there is any training session planned in the next few months. I live in Bay Area. Thanks, -- Emmanuel Mayssat Lyncean Technologies, Inc. Palo Alto, CA94306 Cell: 650/793-0626 See the invisible
[PyMOL] cube/grid representation
This may sound like a strange question and I am guessing the answer is just a simple no but is there any way to represent the structure of a protein in cubes with pymol? So say for example take the surface representation and change that into a whole lot of cube stuck together to fill in the surface? Basically a 3D grid representation... thanks, Sebastien