Merge pull request #171 from stevenweaver/master

GCC does not search include paths recursively, explicitly adding t...
Added support for a regularizing LF_SMOOTHING_SCALER
Added support for a regularizing LF_SMOOTHING_SCALER
Merge branch 'master' of github.com:veg/hyphy
Merge branch 'master' of github.com:veg/hyphy