[Chimera-users] IMOD mesh/surface colors

[Elaine Meng]

Hi Jeff,
Tom Goddard is/will be on vacation June 6-27; I will try to help, but  
you might have to wait until he gets back.

As you know, the IMOD reader is an experimental feature developed by  
Tom (not yet included in the Chimera download).   Experimental  
features page:
http://www.cgl.ucsf.edu/chimera/experimental/experimental.html

Normally I get a lot of experience with a tool after it is included  
with Chimera in order to write documentation.  These experimental  
separately downloaded features, however, have generally only been  
tested by the person who wrote them and the users who requested them.

I can only point you to the experimental feature documentation  
written by Tom; here's the page for the IMOD reader:
http://www.cgl.ucsf.edu/chimera/experimental/imod/imod.html

 From that, it sounds like one should be able to change the color of  
any IMOD object that is selected.  The only issue I see is that (if I  
understand correctly) the contour lines and the surface meshes are  
two different things.  Perhaps you are coloring the contour lines  
instead of the surface meshes.  Make sure you are really selecting  
what you want.  That is just a wild guess, however.  If you have any  
example file that is not too huge, you could mail it to me if you  
would like and I could attempt to use this feature myself.

As Tom mentioned before, nearly everything Chimera does can be done  
from Python.  For noncoders like me, however, that is a last resort!
Best,
Elaine
-----
Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco
                      http://www.cgl.ucsf.edu/home/meng/index.html

On Jun 6, 2007, at 7:53 PM, William Jeffrey Triffo wrote:

> hi,
>
> is there a way to control the color of surfaces generated from IMOD
> meshes in Chimera?
>
> when I select a surface, and pick a new color in the color editor, I
> notice that the color of the 'IMOD contours' in the Model Panel  
> changes,
> but that there is no change in the color of the actual rendered  
> surface.
>
> thanks,
>
> -- 
> -------------------------------------------------------------
> Jeff Triffo
> Auer Group, Donner Lab, Lawrence Berkeley National Laboratory
> Raphael Group, Bioengineering Department, Rice University
> Medical Scientist Training Program (MSTP), Baylor College of Medicine
> phone (Berkeley): 510-486-7940
> fax   (Berkeley): 510-486-6488
>
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