[Chimera-users] centroid measurements typo

Elaine Meng meng at cgl.ucsf.edu
Sat Feb 20 10:09:02 PST 2010

Hi David,
Definitely, the centroids are designed to be used in distance  
measurements to each other and to atoms, axes, and planes.  Distance  
measurements between any pair of objects (centroids, axes, planes) can  
be made using either the Axes/Planes/Centroids tool or the distance  
command.  The Distances tool, however, is only for distance monitors  
between atoms, not objects.

to use Axes/Planes/Centroids tool:
choose any two objects in the list (click the line for one and ctrl- 
click the line for the other, or you can just drag if they are  
adjacent), which will automatically give the distance in that dialog  
and in the Reply Log.  To measure atom-object distances, select the  
atoms and then in the Axes/Planes/Centroids dialog, choose the object  
and click the "Report distance" button.

to use the "distance" command:
include the IDs of the objects, which are shown in the Axes/Planes  
Centroids tool, in the command.  For example:
dist c1 c2

We plan to allow using the command "dist sel" if two centroids, or one  
atom and one centroid, etc. are selected in the graphics window, but  
that has not been implemented yet.
I hope this helps,
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 20, 2010, at 7:42 AM, David Chenoweth wrote:

> Hi,
> Sorry there was a typo in the last message!
> The centroid feature is great, but I would like to select two  
> centroids or a centroid and an atom and then measure the distance  
> between them. When I try this I get the Error Message: "Exactly two  
> atoms must be selected in the graphics window". Is there anyway to  
> add the ability to make these measurements.
> Thanks,
> Dave

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