I want to upload/activate a custom Web UI Theme from the command line

I have a custom Web UI theme that I have been able to upload, preview and activate per https://jazz.net/wiki/bin/view/Main/WebUITheming.  I would now like to do this from the command line prior to JTS setup.  Basically, put it in place from the beginning.  I am working on a project where the JTS/CCM are in a cloud image and all the environment/configuration must be performed either prior to JTS setup or during JTS setup but all as part of a script called during provisioning.  Is there a way to install the theme by copying it to some folder and setting some flag to activate it the next time JTS starts?  Can I get that done prior to running JTS setup (which I do via repotools)?