Ron,
This appears to be a Windows specific problem. I can view spheres with
1bgy.pdb just fine under Linux (albeit 168 MB of RAM...), but it blows out on
Windows.
However, if you lower the sphere_quality (which only affects OpenGL quality),
it holds together:
load 1bgy.pdb
set sphere_quality=0
show sph
ray
My suspicion is that PyMOL is trying to allocate a larger block of RAM than
Windows can give it in order to hold the sphere graphics primitives.
Cheers,
Warren
-----Original Message-----
From: Ronald L Koder [mailto:ko...@mail.med.upenn.edu]
Sent: Wednesday, October 02, 2002 12:23 PM
To: pymol-users@lists.sourceforge.net
Subject: [PyMOL] spheres in very large ppdb files
I'm relatively new to PyMOL, and I've been repeatedly running into
a problem with the pdb files I use, namely that whenever I try to use the
show spheres command the program crashes. The same scripts work for
smaller proteins, so I'm guessing I need to find some way to increase the
memory allocation for the image, or something of the sort.
Anyone have any ideas?
BTW, I'm using the win32 build and one of the files I'm having problems
with is 1BGY, (the cytochrome BC1 complex)
Thanks,
_____________________________________________
Ronald L. Koder, Ph.D.
Postdoctoral Fellow
The Johnson Foundation
Dept. of Biochemistry and Biophysics
University of Pennsylvania School of Medicine
Room 1004 Stellar-Chance Bldg.
Philadelphia, PA 19104-6059
ko...@mail.med.upenn.edu
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