From: Josh Vermaas (
Date: Thu Jan 28 2016 - 14:52:33 CST

Hi Nima,

Its a bit unclear as to what you will be doing, which might impact how
easy it is to get setup. If your real cylinders are atoms connected by
bonds that merely look cylindrical, the "bonds" representation is
probably what you want, and gets around using the graphics commands at
all. The reason the graphics commands sound like they might be alot of
work is that they don't vary if you add more frames. So in order to make
a movie using graphics objects alone, you'd need to draw a frame, render
the frame, clear the frame, draw the next frame, render the frame, clear
it, and so on and on until you've drawn everything. Luckily this can all
be scripted, but animate dup 0 won't do anything for you unfortunately.

-Josh Vermaas

On 01/28/2016 02:10 PM, Nima Emadi wrote:
> Dear all,
> I want to make a movie from a given MD trajectory of some cylindrical rigid
> particles.
> Using graphics command in tcl, I'm able to produce a single snapshot.
> However I am stuck when I want to add a new frame to my molecule.
> Simplified version of what I have in my tcl script (for just one particle
> which moves along z axis) is:
> color Display Background white
> mol new
> graphics 0 color 7
> graphics 0 cylinder {0 0 0} {0 0 1} radius 0.4 resolution 30 filled yes
> animate dup 0
> graphics 0 delete all
> graphics 0 cylinder {0 0 0.5} {0 0 1.5} radius 0.4 resolution 30 filled yes