[Chimera-users] Rendering a vector/axis

[Elaine Meng]

Hi Rich,
That is the whole purpose of the tool, to view axes and other derived  
objects and perform measurements between them.  The axis or axes  
should be displayed as cylinders and listed in the Structure  
Measurements dialog as soon as you define them.  Perhaps you are doing  
something wrong?

Here is the documentation for Axes/Planes in Chimera 1.4:
<http://www.cgl.ucsf.edu/chimera/1.4/docs/ContributedSoftware/structuremeas/structuremeas.html#axes 
 >

and in Chimera 1.5 (daily builds), it has been expanded to Axes/Planes/ 
Centroids:
<http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/structuremeas/structuremeas.html#axes 
 >

The dialog listing the axes includes color wells for changing their  
colors and allows choosing two axes and getting distances/angles.  If  
you get Chimera version 1.5, you can also make the measurements  
involving axes with the "distance" and "angle" commands.

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


On Feb 23, 2010, at 9:51 AM, Richard Stanton wrote:

>  Hi,
> Is there a way to render a vector after defining it as an axis in  
> the "Axes/Planes" tab under "Structure Measurements"?  I am able to  
> define an axis using the selected atoms in my structure but I am not  
> sure how to visually render and alter its appearance, as there is no  
> visual representation on the graphics screen.  I was hoping that  
> after using my selected atoms to define the axis I would then have  
> an arrow or line showing me the axis/vector and I could then create  
> different vectors/axis and view them simultaneously to show the  
> difference between their angles.  Is there a way to do this?
> Thanks in advance for the help!
> Thanks,
> Rich