From: Josh Vermaas (
Date: Tue Nov 10 2015 - 20:21:34 CST

Hi Sanjib,

1.) Yes, you are.
2.) There isn't a built-in measure command that does this. You can
certainly script something that would work, based on a gridmesh that you
refine based on if the point on the grid is inside or outside the
radius. Other folks on the list might have something that you could
adapt to your needs.

-Josh Vermaas

On 11/10/2015 07:10 PM, Chowdhury, Sanjib Chandra wrote:
> Hi John,
> I have two queries on VMD -
> 1.Radius of sphere of atom with scale=1.0 in the “VDW drawing method”
> corresponds to the vdW radius of atom. Am I right?
> 2.There are interstitial empty spaces (voids) in the crystalline or
> amorphous structures. I am wondering whether VMD can measure this
> spaces based on the vdW radius of atoms.
> I would appreciate your comments.
> Best regards,
> Sanjib