> Thank you so very much for writing back.   Unfortunately, I don't get that 
> pop up.  I am certain that I am inthe F11 selection tool.  When I right 
> click, I only see arrows in the horizontal and vertical direction which allow 
> me to laterally move the entire molecule around on the background.   

Dave forgot that he's using the development version, v1.1.

> a) change the radius of individual atoms

No problem. Please try the pre-release for Windows:
http://avogadro.openmolecules.net/pettt/Avogadro-1.1.0-pettt.zip

This should have the menu that Dave mentioned.

> b) be able to export a "movie file" (like an avi file) of the molecule while 
> it is spinning using the "auto rotation tool"

So my best suggestion at the moment, is to use a screen capture software, like 
Jing (http://www.techsmith.com/jing-features.html)

Hope that helps,
-Geoff
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