VMD-L Mailing List

From: Axel Kohlmeyer (akohlmey_at_gmail.com)
Date: Fri Jun 24 2011 - 16:09:33 CDT

On Fri, Jun 24, 2011 at 4:29 PM, pouyan farzinpor <p.farzin_at_gmail.com> wrote:
> Great.
> In this way VMD shows the atoms that have this coordinate constraint in that
> "specific frame". But These atoms move during time and VMD keeps applying
> the constraint to "those atoms" not the specific region. I like to look at
> the interface of atoms and their substrate which is stationary. So Is it
> possible to apply a constraint to a region rather than the atoms? So when I
> play the render I can just see the interface.

go to the trajectory tab in the graphical representations dialog
and activate the "Update Selection Every Frame" button.

that will recompute the selection during the animation.
for more details check out the VMD user's guide and tutorial

axel.

> tnks alot
> pouyan
>
> On Fri, Jun 24, 2011 at 4:01 PM, John Stone <johns_at_ks.uiuc.edu> wrote:
>>
>> Hi,
>>  Change your atom selection so it is something like
>> "(some selection text) and ((z <= -3) or (z >= 4))"
>>
>> Cheers,
>>  John Stone
>>  vmd_at_ks.uiuc.edu
>>
>> On Fri, Jun 24, 2011 at 03:53:03PM -0400, pouyan farzinpor wrote:
>> >    Hi,
>> >    Is there a way to tell VMD to hide atoms that are in specific region
>> > of
>> >    simulation box. For example I like to hide atoms that have
>> > z-coordinates
>> >    between -3 to 4.
>> >    tnks,
>> >    ~pouyan
>>
>> --
>> NIH Resource for Macromolecular Modeling and Bioinformatics
>> Beckman Institute for Advanced Science and Technology
>> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
>> http://www.ks.uiuc.edu/~johns/           Phone: 217-244-3349
>> http://www.ks.uiuc.edu/Research/vmd/       Fax: 217-244-6078
>
> 

-- 
Dr. Axel Kohlmeyer
akohlmey_at_gmail.com  http://goo.gl/1wk0
Institute for Computational Molecular Science
Temple University, Philadelphia PA, USA.