From: David Schall (schall_at_usna.edu)
Date: Tue Nov 13 2007 - 11:17:30 CST

Hello VMD users,

I have a set of simulations containing some H2 molecules and a carbon film
which I am trying to visualize using VMD and the dynamic bonds graphic
representation. The dynamic bonds representation draws C-C bonds and C-H
bonds when the bond length is within the cut off distance, but it does not
draw the H-H bonds. Is this a limitation of the dynamic bonds
representation? Can anyone suggest a fix? I'm using a reactive empirical
potential so using a distance-based switch like the dynamic bonds rep is
really the only way to go.

Thanks in advance.

J. David Schall
Assistant Research Professor
Department of Chemistry
United States Naval Academy