I used to use a suite of applications called gphoto2 which had excellent Canon DSLR camera control, it was shell based but I think there were GUIs around for it. It would allow you to do all the capture stuff that BYE does but without the handy liveview based stuff that BYE does (like focusing and planetary video). Maybe you could find a GUI tailored to DSLR AP(?) or you would have to make some scripts yourself.
- Just checked now and it looks like it's still going strong:
http://www.gphoto.org/