Re: [AMBER] Topology issue with

From: Jason Swails <>
Date: Mon, 16 Jun 2014 10:03:43 -0400

On Mon, 2014-06-16 at 15:37 +0200, JPB wrote:
> Hi Jason,
> Thanks for quick answer and insight.
> To clarify the warning message itself:
> C: 11 1;
> means the C atom number 11 has only 1 bond, doesn't-it?
> I was not clear where the 1 was coming from.

Yes, the 1 means that only 1 bond was detected.

> I had already checked my topology with xleap and vmd
> and this is one of the reasons this message was so disturbing.

I'm not sure where this warning would be coming from, but if you are
confident that your structure is sane, you can ignore this warning.


Jason M. Swails
Rutgers University
Postdoctoral Researcher
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Received on Mon Jun 16 2014 - 07:30:02 PDT
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