From: Axel Kohlmeyer (
Date: Wed Dec 02 2015 - 15:46:43 CST

On Wed, Dec 2, 2015 at 12:12 AM, Karteek Kumar <> wrote:
> Hi Users,
> Is there any way of determining the connectivity information on the fly.
> Instead of assuming the connectivity of first frame.
> I tried with '" topo guessbonds and topo retypebonds". But how to execute
> for all the frames.

it depends what you want to used this for. for visualization purposes,
topo guessbonds should be sufficient.
check out the advanced trajectory scripting methodology in the VMD


> Thanks in advance
> Karteek

Dr. Axel Kohlmeyer
College of Science & Technology, Temple University, Philadelphia PA, USA
International Centre for Theoretical Physics, Trieste. Italy.