* Refactors Makefiles and add configure script.
* Give MKL higher priority in configure script.
* Clean up Linux example makefile.inc.
* Cleanup makefile.inc examples.
* Fix python clean Makefile target.
* Regen swig wrappers.
* Remove useless CUDAFLAGS variable.
* Fix python linking flags.
* Separate compile and link phase in python makefile.
* Add macro to look for swig.
* Add CUDA check in configure script.
* Cleanup make depend targets.
* Cleanup CUDA flags.
* Fix linking flags.
* Fix python GPU linking.
* Remove useless flags from python gpu module linking.
* Add check for cuda libs.
* Cleanup GPU targets.
* Clean up test target.
* Add cpu/gpu targets to python makefile.
* Clean up tutorial Makefile.
* Remove stale OS var from example makefiles.
* Clean up cuda example flags.
Lucas Hosseini
matthijs
Eduardo Pinho