Hard-deprecate ParserOutput stateful transform methods

Hard-deprecate ParserOutput stateful transform methods

This also removes all the in-core calls that had been kept for the
benefit of extensions, and causes them to not have any effect since
anything that had been calling them was already either a no-op or will
probably be broken now that nothing in core is setting or checking the
flags.

Change-Id: Id22c1a5a6d6a249debb14063ae3f8838d105b634