Re: [AMBER] A problem about periodic box dimensions happens to Tutorial 1.7

From: David A Case <>
Date: Thu, 9 Sep 2021 08:53:25 -0400

On Thu, Sep 09, 2021, wangwei1669 wrote:

>>Did you image the trajectory before visualizing it?

>Sorry, I think I do not fully get your idea.
>I just load the .prmtop and the output .nc file into VMD and see the system
>expanding without boundary limit. I suppose the system should likely
>maintain in a periodic box and form a cube like structure as shown in the
>tutorial website.

Please read about the "autoimage" command in Section 34.11.7 of the 2021
Reference Manual. Maybe readers on the list will know if this topic is
covered in one of the tutorials.

....good luck....dac

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Received on Thu Sep 09 2021 - 06:00:02 PDT
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