AndroidAnnotations and IntelliJ not working well together

I've spent a lot of time trying to figure this out, but I'm just stuck right now and wondered if you could help. Let me know if this is the wrong place to ask. I recently switched to IntelliJ from Eclipse for Android development. I'm trying to get AndroidAnnotations (a framework for compile-time code generation using annotations) working with IntelliJ. I followed this guide, but no matter what I do it I can't get AA to generate code. From digging through the stack trace, it looks like the problem is the fact that the R.java file IntelliJ generates is a stub. Is that how IntelliJ is supposed to work? Has anyone found a work around for this?

The full details of my problem can be found here on StackOverflow. Let me know if you have any questions or if anything is unclear. Thanks!

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