I don't think there is a tool to do what you want. As far as I know, you can only snap one thing at a time to one other thing. If I were doing it, I would make the pattern that I want with the 4 'hole' cylinders, then add a 5th one centered on the others. Then you can snap the disk to the center 'hole'. Then, it's just a matter of dropping the disk through the cylinders, deleting the centering one and subtracting the remaining holes from the disk.