Another question about fresh milled whole wheat bread: The rise, punch and shape
~ Any time the dough is in the risen state - if you touch it it will flop/shrink. That is why after the first rise, it is punched down (compacted again) and the two finger pounce test is done (when punched down, poke two fingers into the dough and it should bounce back)- reshaped into the loaf and - THEN it rises in the loaf pan the second time. No touching required (or even thought about) at that stage - or it flops/sinks. Just bake and enjoy.