[Chimera-users] POV-ray ignoring surface clipping

[Monica Tello]

Dear all,

I am trying to save a Figure that shows my ligand with its surface  
around partly clipped, and use POV Ray. The problem is that POV Ray  
modifies the output of the figure: the final picture shows the full  
surface around the ligand, although on the screen I designed it so  
that you can see the surface partially clipped. If I use transparency  
on the surface, POV Ray also ignores this and shows still the full  
surface around the ligand, and opaque.
If I don´t use POV Ray, then I get the figure as seen on the screen!

Why is POV Ray ignoring the surface as I want it? It ignores any kind  
of alteration of the surface! I was using the default POX Ray  
settings, although by now I have tried to change some of the ones I  
thought may be related to this, based on the Chimera Manual, but I  
haven´t had any success.

Can anyone help me with this? It will be very much appreciated!

I include an example of the same figure saved with and without using  
POV Ray. The one without using POV ray is the one that looks like what  
I designed on the screen.

Thank you very much!!

Monica

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Monica Tello Soto, PhD
The Salk Institute for Biological Studies
Chemical Biology and Proteomics
10010 North Torrey Pines Road
San Diego CA92037
858 453 4100 x1946
tello at salk.edu
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