From: Vikas Varshney (vv0210_at_gmail.com)
Date: Tue Aug 06 2013 - 06:41:35 CDT

Use topotools to load your lammps datafile first!
Then load yoir traj file on top of that.

Sent from my IPod

On Aug 5, 2013, at 8:00 PM, Sumit Kumar <sumit.iocl.chennai_at_gmail.com> wrote:

> Hello Experts,
>
> I have my own coarse-grained code and I want to visualize polymer chains (coarse-grained FENE model) using VMD. I actually want to create movies using VMD. Currently, my code generates LAMMPS trajectory files which I use for creating videos using videomach software. The bonds are connected randomly and I have to remove all of them. Now what my video is left with is the beads moving all around - I am using LEES-Edward BC in my code. The beads representations don't seem good so I thought line representation will look better than beads representation. Can I create animations using PBD file alone. What else is required if I want to create animation using PDB file? In PDB, there is a command 'CONECT' in which you can specify the beads to be connected by bond but can I create animations using this PDB file, how do I introduce frame?
>
> If you have any better suggestions, and if any particular file format is recommended, would you mind attaching those simple file formats so that I could modify my code accordingly?
>
>
> Thanks and Kind Regards
> Sumit Latiyan
>
>
>