Cyrano,
A well trained sharpener should be fluent with several methods. In addition to the two being discussed, he should be proficient with the Anglemaster, black marker, substitute target, Herman's platform, and hand held.
For very precise, individually measured work, Wootz' applet has no equal. The sharpener who must sharpen numerous different knives to a standard bevel angle is in the domain of the kenjig group.
I suggest you print out my knife setting article. If you click of the Sharpeneing Handbook with Rich Colvin's forum signature you will find it. Pay particular attention to photo five. It shows a kenjig sitting squarely on both the grinding wheel and the usb. Its thickness gives it stability. There is no paralex error. Your digital caliper may work fine, however, it looks error prone to me.
I think of the kenjig as a single gage block. A one inch gage block may be accurate to millionths on an inch, depending on its grade. By itself, it measures only one distance. By itself, my most used kenjig is designed to set up a 15° bevel with a 250mm grinding wheel and a 139mm projection. It does this very accurately. Different kenjigs can be set up for different variables.
The kenjig is designed for standardization. Wootz' applet is designed for individual set up. I believe there is a place for both.
Ken