rp/pio: don't use modify on shared registers

pio control registers are notionally shared between state machines as
well. state machine operations that change these registers must use
atomic accesses (or critical sections, which would be overkill).

notably PioPin::set_input_sync_bypass was even wrong, enabling the
bypass on a pin requires the corresponding bit to be set (not cleared).
the PioCommon function got it right.

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