[Chimera-users] Animate a Reacton Mechanism?

Eric Pettersen pett at cgl.ucsf.edu
Tue Feb 21 11:39:12 PST 2012

On Feb 21, 2012, at 11:25 AM, Elaine Meng wrote:

> setattr p color 1,0,0,.5
> setattr p display 0
> ... where you could put the atomspec of the two endpoint atoms at  
> the end of each command to control only that pseudobond, instead of  
> all pseudobonds.

If you don't like the way the change in transparency looks, another  
alternative is to have the breaking bond become gradually thinner  
(attribute "radius") while the forming bond becomes thicker.

It's just as awkward to script because you would need a setattr  
command each frame the motion is happening (luckily it's easy to have  
motions go on as other commands are executed, just don't use a "wait"  
command after the motion command).


                         Eric Pettersen
                         UCSF Computer Graphics Lab

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