Comment 6 for bug 106583

looks like there are two problems hidden as one:
 a) alltray does not detect compiz being similar to metacity
 b) alltray cannot find a sub window and therefore rejects minimizing.

This fixs adds explicitly the compiz manager as a special case of the gnome window manager.
Additionally, it skips the window_id != window_id_xmu check in src/clickmode.c if compiz is used.
This works fine for me.

Please find a unified diff attached.