From: Axel Kohlmeyer (
Date: Mon Jan 10 2011 - 17:29:39 CST

On Mon, Jan 10, 2011 at 4:29 PM, Fahimeh Baftizadeh
<> wrote:


> thanks John for your reply.
> Let me make my question more clear.
> I have a grid of point which they have intensity as a function of time, they
> are fixed in the space, What I would like to see is
> 1- their intensity change with time (like changing the colors).
> 2- then I would like to apply also the volume slice to have more visual
> information.

what you describe is a visualization problem, that is usually
handled by tools like ParaView (
or OpenDX (, and others most of which
are commercial applications. they allow you much more flexible
reading and processing of data compared to VMD.

> I was thinking of generating a file.dx ... but maybe i need a little bit of
> tcl scripting in order to generate a movie, not a single frame.

yes. you can load multiple volumetric data sets and then show
only one of them. here is an old script of mine that does this

with "cube" files (which are grids that also include atoms) you
can use this with .dx files just as well. the multi-molanim GUI
that john mentioned more-or-less does the same thing, but with
whole "molecules" (which in VMD-speak can also refer to a
single graphics visualization without any atoms).


> Thanks in advance
> Fahimeh

Dr. Axel Kohlmeyer
Institute for Computational Molecular Science
Temple University, Philadelphia PA, USA.