make sure NPT_CONFIG_ENABLE_LOGGING is defined

@notspiff has pointed out that we probably need to define NPT_CONFIG_ENABLE_LOGGING also in filesystem/Makefile.in and network/upnp/Makefile.in where we compile some files that include files from the Platinum and Neptune SDK which in turn depend on header files which use this define.

I haven't done a thorough investigation as the dependencies are rather convoluted but I figured I'd rather play it safe. I don't really like that the define is now spread over three different files (in the linux build system) though.