[Chimera-users] Centering Origin Index on Command Line

Elaine Meng meng at cgl.ucsf.edu
Fri Jul 7 08:35:07 PDT 2017

Hi Yong Zi Tan,
Sorry, I don’t think there is a command that automatically does the same thing as that center button. However, here is an “originIndex” option of the “volume” command to set the values directly. 

Since the center button just specifies the middle of the grid,
… you only have to know the grid size.  For example, if I have a grid size 45 X 41 X 42, the center button sets the origin index to 22 20 20.5   … so I guess you would subtract 1 from each number and then divide by two to get the values to use with the “originIndex” option of the “volume” command.  

Just make sure to test this in a few cases, to confirm that the center button does give you the same values you calculated from the grid size.

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

> On Jul 6, 2017, at 5:39 PM, Yong Zi Tan <ytan at nysbc.org> wrote:
> Hi, 
> Could I check if there is a command line version of the “center” button under Origin Index in the Volume Viewer? Thank you!
> <image001.png>
> Warmest Regards,
> Yong Zi Tan

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