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Documents do not appear in my query in the navigation tree, but they do appear when executing the query through the query search screen. What's wrong?
Navigation trees can be associated with one or more collections. Queries appearing in the navigation tree are then automatically limited to these collections. This feature avoids that you have to add the 'InCollection' condition to every query in the navigation tree.
There is no way to disable it, but you can of course remove the collection-associations. In the GUI navigation tree editor, this is done by clicking on the 'Root' node, which will show the editor to modify the collection associations.
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