analyze permissions

Edit: See updates for more features and screen shots. This add-on adds a couple of new features and conveniences for administrators, such as: clone user groups, collapsed permission sets (if 'all' is not selected) when analyzing global permissions for a user, added three new options when...

I analyze a user's permission to view a node, and the answer is yes. Then I test that user's permission and cannot see the node. Why is that?

I just got in a real confusion with category permissions. How about if we could have resource categories available under the list in Analyse Node Permissions, or a separate tab there for Analyse Resource Category Permissions