Yup!
The pre AI system when you mount the lens you have to do the indexing which is to line up the internal aperture scale to the aperture scale on the lens. The camera doesn't really use this information for anything except to display the aperture for you to see. The AI system (they called it auto indexing) actually is no indexing at all. The user will look at the aperture directly via the ADR (aperture direct readout).
When Nikon introduced the new Matrix metering system for the F5 and newer cameras the camera needs to know the actual aperture and thus the F5 can't support matrix metering with AI lenses and you view the aperture via the ADR. Newer DSLR's and the F6, you would have to enter the lens data and in effect manual indexing again so that the camera can display the aperture set but also making use of the matrix metering system.