I planned out where I wanted the lift to go, dug out squares an additional 2" deep, then did the vapor barrier and insuation, taped seams and installed the tube. I chose to avoid the cutouts completely when placing the tube. To reference where the open spots for the posts are, I pulled string between the building post centers (post & frame steel building), and took careful measurements to each corner of the cutout squares. Also, I was very careful to make sure I was getting measurements that were parallel to the string, so I had accurate placement. After the pour, I just pulled the strings again, measured according to the layout drawing I made previously, and marked a dot on the floor at each corner of the cut outs underneath. A buddy suggested after I already did all this that it may have been easier to pull a string over each cutout corner, make sure it's parallel to the wall, then run some screws into the girts closest to the floor to mark it. Then after the pour, pull the strings again, and the cutouts would be located without measuring everything again.
That's how I did it, maybe there are easier ways, but I knew where the posts were before the pour, and I knew they would be in the same place after, so it made sense to use those for my measurements.
Good Luck with your floor!
Here's a photo prior to the pour.