build: Place proto output in the same directory, also for EXTRAS

build: Place proto output in the same directory, also for EXTRAS

This patch changes the ProtoBuf builder such that the generated source
and header is placed in the build directory of the proto file. This
was previously not the case for the directories included as EXTRAS. To
make this work, we also ensure that the build directory for the EXTRAS
are added to the include path (which does not seem to automatically be
the case).