Re: [AMBER] bond connections

From: Jason Swails <>
Date: Sat, 5 Dec 2015 15:05:47 -0500

On Sat, Dec 5, 2015 at 1:19 AM, mohammad r <> wrote:

> Thank you Jason,
> Unfortunately I cannot open the image you've sent to me(I tried paint and
> windows photo viewer). Can you please send it in another format?
> By the way when I open the amber topology file I saw a long bond between
> the system and a point far away from it, I think this is a problem.

​I did not see that, which probably means that you selected the wrong file
format type in VMD for the coordinates. Pick Amber 7 restart. Not Amber

I will try to convert the image to something else.


Jason M. Swails
Rutgers University
Postdoctoral Researcher
AMBER mailing list
Received on Sat Dec 05 2015 - 12:30:04 PST
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