I've had the same issues with apps I am writing. Each view, or screen, in Android is a separate activity, and actually a separate process. If you implement the IOIO connection inside the activity it will disconnect when the activity goes to sleep or you transition to a different view. I've been working with the IOIOService example, but services are a much more complicated architecture and no easy task for a beginner to grasp. You have to bind to the service, implement callbacks and send and receive Intents. Its an order of magnitude more complicated than just running IOIO from a single activity.
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