Re: hole on the surface of the waterbox

From: Mert Gür (gurmert_at_gmail.com)
Date: Fri Aug 28 2009 - 17:14:00 CDT

Dear Dr.Glykos,
Thanks a lot I will try that.
Best,
Mert

On Fri, Aug 28, 2009 at 3:38 PM, Nicholas M Glykos <glykos_at_mbg.duth.gr>wrote:

>
>
> > Is there a fast way to check if there really is a hole without looking
> > at the video file
>
> Use VMD. While you are at it, tell VMD to generate all symmetry
> equivalents for at least a 2x2x2 unit cell volume, and look at it again.
> If your DCD is too big to be loaded directly via VMD, use catdcd to
> prepare a smaller (size-wise) DCD file.
>
>
> --
>
>
> Dr Nicholas M. Glykos, Department of Molecular Biology
> and Genetics, Democritus University of Thrace, University Campus,
> Dragana, 68100 Alexandroupolis, Greece, Tel/Fax (office) +302551030620,
> Ext.77620, Tel (lab) +302551030615, http://utopia.duth.gr/~glykos/>
>
>

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