[Chimera-users] visualization of periodic images ?

Eric Pettersen pett at cgl.ucsf.edu
Mon Feb 13 15:51:01 PST 2012

On Feb 12, 2012, at 12:16 PM, Marek Maly wrote:

> Hello all,
> I am just wondering if it is possible in Chimera to visualize not  
> just the "central cell" but
> also some periodic images (let say the first shell of per. images)  
> if one
> use Amber input files (*.prmtop and *.inpcrd/*.rst/*.mdcrd) where  
> the information about the box
> dimensions is available.
> Thanks in advance for any relevant suggestion !

Hi Marek,
	Well, if you were a masochist you could open additional copies of the  
trajectory, translate them the appropriate distance with the "move"  
command and then play them in synchrony with the "coordset" command,  
but that would be crazy.  For now I would recommend something like VMD  
for this.  We are working on a re-architected version of Chimera that  
will allow you to do this much more easily, but the availability of  
the new version is quite a ways off at this point -- particularly MD  
playback in the new version.
	Nonetheless, I will add your name to the enhancement-request ticket  
we already have open for this so that you will be notified when it  
eventually becomes available.


                         Eric Pettersen
                         UCSF Computer Graphics Lab

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