[chimerax-users] Volume Rendering Issue

[Elaine Meng]

Hi Brandon,
There are at least a couple of parameters to try changing, 3D projection mode and dimTransparentVoxels.  E.g. try either/both of the following:

volume all projectionMode 3d 
vol all dimTransparentVoxels false

See the “solid” volume rendering options and specifically these two settings for explanations.
<http://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#dispsolid>
<http://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#pmode>
<http://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#dimvox>

This page about ChimeraX features for working with medical imaging data might also be of interest for anybody who is using the “solid” rendering style (on any type of data):
<http://rbvi.ucsf.edu/chimerax/docs/user/dicom-quickref.html>

I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco




> On Mar 15, 2019, at 9:18 AM, Scott, Brandon L. <Brandon.Scott at sdsmt.edu> wrote:
> 
> I am trying to set the thresholds to properly display volumetric fluorescence data, and for some reason, when viewed from the side, i.e. xz or yz projection, the volume goes black. I've attached two images (top view and side view) with not changes to anything else by positioning, and this can be seen clearly in the rotation video I attached. I guess my question is, is this a bug, or is it acting as it was intended?
> 
> Thanks for the help,
> -Brandon
> 
> <image3.png>  <image2.png>
> 
> ____________________
> Brandon Scott, PhD
> SDSMT, Nanoscience
> <VolumeRotate.mp4>_______________________________________________
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