I see. This is an unfortunate known bug.
However, it doesn't really matter, because if you have ATK 12.2 you really should the try new Builder instead, and use that to build your nanoribbons. It's a lot more powerful.
See the tutorials (in particular
http://quantumwise.com/documents/tutorials/latest/BasicGrapheneTutorial/index.html/index.html) for more information.