Check the partition in the trunk and make sure it is in the proper position. You can take your hands off of the controls at anytime (at least in my Roadster Limited) with out any harm to the controls and also the car should be stationary when raising or lowering the top. The partition might have fallen out of place (due to the movement/vibration of the car) while the top/tonneau was in the process of opening. The partition is designed to close it self after 15 - 30 minutes of being open and the top not being raised or retracted. At cars shows I sometimes will leave the tonneau cover open, and after 15 - 30 minutes it will close itself.