Rich text in OmniGraffle shapes can contain links,
and these export well to PDF
but I haven’t yet found any way of testing / following / opening inline links from the OmniGraffle editing or presentation modes – I can see that being able to do this might compete with URL-opening actions, but it would be very helpful to be able to have some way of clicking on a link to test it at edit time …
(The nearest thing I have found is opening an Edit Link dialog from a contextual menu in Text-edit mode)
Open Link
is shown in that menu, but doesn’t seem to work …