VMD-L Mailing List

From: Axel Kohlmeyer (akohlmey_at_gmail.com)
Date: Wed Oct 14 2015 - 20:52:20 CDT

On Wed, Oct 14, 2015 at 9:44 PM, M K <mahyar.karimi20_at_gmail.com> wrote:

> Thank you so much. I tried it:
> It works when I load a normal trajectory file and add the box. However, it
> does not work when the trajectory has been loaded by "Load Visualization
> State" ...
>

​yes, because pbctools can only delete (specific) graphics elements, when
it had written them itself (and thus kept track of them).
when you load the visualization state, it is some low-level code in VMD
that restores the graphics elements, so you also have to use a low-level
graphics script command to delete those graphics elements. there is a
"graphics <molid> delete ​all option that allows to do this for
"everything".

for details, please see the VMD users guide:
http://www.ks.uiuc.edu/Research/vmd/vmd-1.9.2/ug/node129.html

axel.

>
> On Fri, Sep 18, 2015 at 1:46 PM, Axel Kohlmeyer <akohlmey_at_gmail.com>
> wrote:
>
>>
>>
>> On Thu, Sep 17, 2015 at 11:22 PM, M K <mahyar.karimi20_at_gmail.com> wrote:
>>
>>> Hi,
>>>
>>> I have drawn the box using pbc tool:
>>>
>>> pbc box -color white
>>>
>>> But I need to remove it now. Is there any command to delete it? Or I
>>> should load the whole trajectories from the beginning?
>>>
>>
>> http://www.ks.uiuc.edu/Research/vmd/plugins/pbctools/
>>
>> ​how about: pbc box -off​
>>
>> ​axel.​
>>
>>>
>>> Thank you.
>>>
>>
>>
>>
>> --
>> Dr. Axel Kohlmeyer akohlmey_at_gmail.com http://goo.gl/1wk0
>> College of Science & Technology, Temple University, Philadelphia PA, USA
>> International Centre for Theoretical Physics, Trieste. Italy.
>>
>
> 

-- 
Dr. Axel Kohlmeyer  akohlmey_at_gmail.com  http://goo.gl/1wk0
College of Science & Technology, Temple University, Philadelphia PA, USA
International Centre for Theoretical Physics, Trieste. Italy.