Hi Steve, I'm bothered by the same thing, sometimes. There is a Preference (category: Window) to set a specific *overall* window size, but this size is including the docked tools like the Log and Command Line, not just the graphics window. However, in the Startup category of preferences, you can specify commands to run at startup, and there you could add a "windowsize" command to exactly control the dimensions of the graphics window. ChimeraX Preferences (Settings) dialog: <rbvi.ucsf.edu/chimerax/docs/user/preferences.html> Running the Startup commands seems to be applied after the Window preference and thus will win out. Maybe the other developers can say as to whether this is always guaranteed? Also in the Preferences, category: Window is a choice of whether to restore the graphics window size of a session when restoring the session. I personally prefer this to be turned on. I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco

On Mar 11, 2020, at 4:12 PM, Steve Chou <stevezchou@gmail.com> wrote:

Dear ChimeraX team,

It seems that if the startup window size settings ( display window size, log window width) are different, I get different views after I run the same script, which has a lot of operations, like “move”, “turn”.

How to save the startup settings and load them back or is there a startup settings file saved somewhere?

Many thanks, Steve Chou