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There was an issue with the AutoTest preferences dialog ("Test Creation Setting"): When no project was open, the dialog could not be closed. Because no clusters are available and displayed in the location tree, the close button was always disabled.
I fixed this by disabling the "Preferences..." drop down menu entry in the AutoTest toolbar if the system is not valid. Then I decided to disable other menu entries as well if they can not be selected (e.g. "Generate tests for open classes..." if no class is open).
Finally there was an issue in the location tree where the cluster for a new test class can be selected. If a folder below a recursive cluster was selected, its path was not stored. I fixed this, but if you think such folders should not be selectable at all, they shouldn't appear in the tree at all, in my opinion.
All fixes are listed in the commit descriptions.