As you haven`t said what control or Post Processor you are using or if you are doing the same operation on the second side this is all I have for you for now.
When you come to Post out your G code depending on the PP your are using there is often an "Optional Stop" option that you can toggle on or off, if selected it will output an M1 command which will stop the machine after each operation and will require the "Cycle Start" to be pressed on the machine control to set it going again.
That is the simplest method, give it a try and see if it is what you need.
Regards
Rob