Closes#993.
We do not need to descend into the modules to know what to do on
`make clean BOARD=blub`. We can just invoke `rm -rf bin/blub`.
This PR only keeps the descending into the USEPKGs, since they might
want to delete cached/downloaded/extracted data.
native modules will never need the dynamic INCLUDES, so we define our
own NATIVEINCLUDES. Due to the current make structure, the only way to
not use INCLUDES is to redefine the build rules.
