Vote for tabbed interface
If I had the combination of the tabbed separate trees such as in TreeDBNotes with the rest of the features that Ultra Recall has I would probably quit re-evaluating PIMS every 6 months.
It's not only the number of nodes. It actually adds another level of organization. I find that my mind performs better when focusing on subject related chunks. The tabbed interface allows me to concentrate on the subject at hand without distraction. TreeDBnotes has this one feature down pat. It is kinda like having several separate databases except for the speed of switching and the fact there is only one file to manage.
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