Looks like dc5adc5 broke ./autogen.pl --no-ompi (see http://www.open-mpi.org/community/lists/devel/2016/07/19243.php).
@ggouaillardet This was your commit -- can you have a look? I'm guessing that this will also affect the v2.0.1 PR open-mpi/ompi-release#1215.