AMBER Archive (2007)

Subject: RE: AMBER: amber md movie using Chimera. .

From: Wang, Xuelin (Xuelin.Wang_at_stjude.org)
Date: Wed Sep 05 2007 - 13:42:02 CDT

Thanks, dac:

It works when I added "nobox" option in ptraj input.

Xuelin

-----Original Message-----
From: owner-amber_at_scripps.edu [mailto:owner-amber_at_scripps.edu] On Behalf
Of David A. Case
Sent: Wednesday, September 05, 2007 1:12 PM
To: amber_at_scripps.edu
Subject: Re: AMBER: amber md movie using Chimera. .

On Wed, Sep 05, 2007, Wang, Xuelin wrote:
>
> I have a problem to make an Amber MD movie using Chimera. I am sure I
> used the right Amber top file and mdcrd file, since I can use VMD to
> display them. In my trajectory file, I already striped water and
> counter-ions. Only box information was left with trajectory.

Why did you leave the box information? Try giving a "nobox" option in
the
trajout line of ptraj, and see if that helps.

...good luck...dac

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