Hi Dieter, I'm not sure if there is a command that does exactly the same thing as the Center button in Volume Viewer, but for a similar result you might try the "window" command: <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/window.html> The radius_of_gyration.py script is for atomic coordinates, not volume data, at least if you are talking about the script that was posted on the list a couple of months ago: <http://plato.cgl.ucsf.edu/pipermail/chimera-users/2012-February/007257.html> It reports center of mass and radius of gyration values in the Reply Log (under Favorites in the Chimera menu). It doesn't move anything. To calculate the center of mass of a density map (also not moving anything), you could use the command "measure center": <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/measure.html#center> That gives the center in grid indices of your map rather than in x,y,z coordinates. 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 May 17, 2012, at 1:34 AM, Dieter Blaas wrote:
Hi I am looking for a command line version of the CENTER command in VOLUME VIEWER. Can anybody please give me a hint! I'd like to use this command in a script to re-center a volume. I have also tried to the use the script radius_of_gyration.py but there is something I do not understand: I load the script with 'open file' but then nothing happens. Where is the output directed to? How could I use the output to re-center my volume? Thanks, Dieter