Re: [Jmol-users] isosurface mesh resolution question

[Frieda R. <fri...@ma...>]

In my case, downSample 2 makes most of the surfaces disappear, unfortunately. Because I am using a difference map, most of the surfaces are quite small to begin with— maybe their small size is causing disappearance. Any other options you can think of for smoothing small surfaces?



> On Jan 28, 2016, at 11:46 PM, Robert Hanson <ha...@st...> wrote:
> 
> Frieda,
> 
> You cannot set the resolution of an isosurface that comes from a volume data file such as that using the RESOLUTION option. What you can do is use the DOWNSAMPLE option. What this does is to skip points in the grid. The RESOLUTION option is only for isosurfaces that are generated de novo by Jmol -- vdw, sasurface, molecular, solvent.
> 
> Bob
> 
> 
> On Thu, Jan 28, 2016 at 8:39 PM, Frieda Reichsman <fri...@ma... <mailto:fri...@ma...>> wrote:
> Hi Bob,
> 
> Using the following command:
> 
> isosurface id ~m40 rmsd 2.0 sign red [x00dd00] within 1.5 {ret} "250u-2m-0.40.ccp4" resolution 5.0 mesh nofill;
> 
> and trying to the resolution of the mesh to a finer level, I find no change in resolution from the default. I’ve tried placing “resolution 5.0” in a variety of different locations within the command, to no effect.
> 
> Also - will red become the negative rmsd in the way I’ve set it up? Hard to tell from the documentation.
> 
> Thanks,
> Frieda
> 
> 
> 
> //////////////////////////////////////
> 
> Frieda Reichsman, PhD
> Molecules in Motion
> Interactive Molecular Structures
> http://www.moleculesinmotion.com <http://www.moleculesinmotion.com/>
> USA
> 00 +1 413-320-7449 <tel:413-320-7449>
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> //////////////////////////////////////
> 
> 
> 
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> -- 
> Robert M. Hanson
> Larson-Anderson Professor of Chemistry
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