Once the stud bosses are cut down the hole for the stud is chamfered with a tool in the drill press. This makes it easier to line up the tap which will cut the threads.
Then a tap with the correct threads to match the screw in studs is used in the drill press to cut most of the threads. After checking the depth of the stud hole we decided to cut the last few threads by hand with a bottoming tap so as not to risk injury to the heads. Both tools are shown in the pic below.
A screw in stud like the ones that will be installed during final assembly is used to check all the holes and make sure everything is good. Then take this head off the table, get the other one, and start all over!! LOL