Two Different Ways
The little Bruno Checker-straightner that is becoming pretty popular simulates placing the loaded round between centers, and indication where the runout should be, where the bullet is inserted into the neck. The design allows for a rather convienient way to straighten the loaded round if needed.
Other fixtures support the case, allowing the bullet to hang out, with the indicator on the bullet tip.
In my opinion, either method will tell you what you need to know, whether the rounds are straight or not. What neither will tell you is where the runout eminates from.
We assume it is at the neck bullet junction. But, if you have ever chucked up a die that has been hardenned, you will find that they are usually not completely round. It is not uncommon to get .0005+ out of roundness after a die is hardened. The cases take this same shape.
If you are turning the case on the "v" block, or points, and it is out of round, then this will show up in the runnout as well. Not much different than rolling something that is not round on a steady rest in a lathe.
All of this probably goes under the heading of being a "non-issue". If your dies are making rounds that are within .001 to .002, by what ever method used, I doubt you will ever see any consequenses on the target.........jackie