Mark all programmatically added menus, menu items, toolbars and toolbar items with IWorkbench.PERSIST_STATE such that they are not persisted in the auto-saved workbench.xmi. These items get removed/cleaned from the model on normal shutdown.
When these items are persisted, they duplicate when the auto-saved workbench.xmi is restored.

Change-Id: I26e765d2edc6de4e95ad6da7a75af09f2f3de088
Signed-off-by: Rolf Theunissen <rolf.theunissen@gmail.com>