As far as I know, CoBeFra is a GUI-based tool that uses ProM in the back. If the GUI is hard-wired into the CoBeFra tool, it will be hard to run it from a CLI context in ProM. You might want to ask the developers of CoBeFra (see http://processmining.be/cobefra/) what their opinion is on this.
Answers
Super, thanks a lot for the very swift answer. I will ask them,
Wishing you a great rest of the day,
Best regards,
Celia