[Chimera-users] IMOD mesh/surface colors

Thomas Goddard goddard at cgl.ucsf.edu
Thu Jun 28 16:33:27 PDT 2007

Hi Jeff,

   When you try to color the IMOD contours (volume path tracer model) in 
Chimera by pressing the color button in the Model Panel dialog it does 
not change the contour colors as you expect.  This is because that color 
button controls the default color -- the contours are just implemented 
as a fake "molecule" model.  The individual vertices of the contours are 
atoms of the molecule model which have their own colors that over-ride 
the default molecule color.  This business of atom colors over-riding 
the default molecule color is confusing.  I'd suggest selecting the 
contours (ctrl click one with mouse and press up arrow key) and then use 
main menu Actions / Color to color all the "atoms" as desired.

   To change the colors of the IMOD mesh surface you select them and 
then use the "co" accelerator as Elaine described in a previous email. 
Unfortunately the menu entry Actions / Color doesn't work for these mesh 
surface objects.  This is appallingly bad user interface -- I've added 
fixing it to my to-do list (#95 http://www.cgl.ucsf.edu/chimera/plans.html).


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