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Hi Greg,

Takanori Nakane's suggestion should work for you, which is our workaround for non-compliant video cards/drivers. If it doesn't or you see performance or stability problems, please try these two settings:

unset use_shaders
unset sphere_mode

These two settings are usually only necessary for Intel-based mobile chipsets. Furthermore, PyMOL v1.5.0.5 and later should automatically fallback to the most stable settings.

Cheers,

-- Jason


On Sat, Mar 2, 2013 at 6:12 PM, Greg Costakes <[log in to unmask]> wrote:
Hello Everyone,

I am having some difficulties with PyMOL on my windows machine and was wondering if anyone has come across this problem.... When I load a pdb, nothing shows up except for the waters. Selecting cartoon representation will show the protein, however if I try to show residues as sticks or lines they appear disconnected. I have attached a figure for reference. When I ray-trace the protein, the residues in stick representation appear normal. I tried re-installing PyMOL, but that did not fix the problem. My graphics card drivers are up to date. Any suggestions would be greatly appreciated. Thank you!

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Greg Costakes
PhD Candidate
Department of Structural Biology
Purdue University
Hockmeyer Hall, Room 320
240 S. Martin Jischke Drive, West Lafayette, IN 47907

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--
Jason Vertrees, PhD
Director of Core Modeling Products
Schrödinger, Inc.

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