reorganizing pyhsmm into standard Python package format

[yarden]

• Reorganized pyhsmm into standard Python package format
• Declared dependencies in setup.py (including pybasicbayes)
• Converted implicit imports to explicit imports
• Included Eigen3 files in deps/ as data files
• Unit tests for the package can be run using python -m unittest discover pyhsmm

After you look it over, please register the package with pypi. That way others can include pyhsmm in the requirements of their own setup.py packages and have it be installed automatically for users, without going through github.

Thanks! Best, Yarden

[mattjj]

This is tremendous, thank you!

(Let me know if you notice any mistakes working with pypi and all that.)

[yarden]

There's a minor pypi distribution bug that I missed and just fixed in pyhsmm and pybasicbayes repositories - sent you two pull requests. The ideal solution to this stuff is to have a conditional setup.py that checks for Python, and then, as you noted in one of the other issues, include the Cython-generated *.c only in the source distribution (without requiring pyx compilation). Theoretically only developers need to have Cython and compile pyx files.