Re: hole on the surface of the waterbox

From: Nicholas M Glykos (glykos_at_mbg.duth.gr)
Date: Fri Aug 28 2009 - 07:38:00 CDT

> 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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