[Chimera-users] Scripting image writing in Mac OSX

Mike Sivley mike.sivley354 at gmail.com
Fri Jan 16 12:53:30 PST 2015


I have a Chimera script that takes a set of attribute files and generates a collection of scenes images. This script is usually run on Scientific Linux using the Headless Linux 64-bit distribution of Chimera. I'm now trying to run this script on Mac OSX Mavericks and hitting issues with the GUI. If I pass the --nogui flag to Chimera, then the script fails, stating that the GUI is necessary to save images. If I remove the flag, the GUI starts up correctly, but scripted control stops once the new attributes are defined. The user is prompted by the Render by Attribute window, and the script will not progress until the user confirms the changes and closes the GUI.

How can I get the script to run start-to-finish without stalling for user-interaction, the way it does in linux?

Thanks!

Mike Sivley
PhD Student in Biomedical Informatics
Center for Human Genetics Research
Vanderbilt University


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