[Chimera-users] zone tool and volume rendering

Thomas Goddard goddard at cgl.ucsf.edu
Mon Jan 29 16:25:05 PST 2007

Hi Jeff,

   The volume dialog "zone" feature does not work with solid 
(volumetric) rendering.  The current implementation just hides surface 
triangles having vertices outside the given range so it only works on 
surfaces.  When you use volume dialog File / Save map as... it makes a 
copy of the data with grid values set to zero outside the radius. 
Creating a copy of the map in memory or masking the map for use with 
solid rendering are not currently supported.  We wish to add this in the 
future and it should not be hard to achieve although performance when 
changing the radius will be significantly worse than with the current 
surface zoning.

   The documentation does not mention this limitation and I will update 
the volume dialog description to describe it.


Jeff wrote:
> hi Tom,
> is there a way to get the zone tool to operate when doing a solid/volume 
> rendering - in surface mode, if you set a zone radius, let's say 40 A, 
> you'll get a region that extends 40 A around the selected marker(s); 
> however, in 'solid' mode, it appears I get the entire orthogonal region 
> in the volume that encloses the markers plus that radius. thiis is 
> problematic if the markers span the hypotenuse of the volume; in that 
> case, zone with volume/'solid' appears to more or less display the 
> entire volume rather than just the surrounding region as in 'surface mode'
> do I have a buggy version? this is a recent release, but I've had this 
> happen with previous releases
> -jeff

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