porting to py completed

It has been a long, but productive day. After a compulsory 40-hour week at school, I have finally completed porting all the code from *.ipynb to *.py and collecting all code from Windows and Fedora to one place. However, I still prefer to use the notebook format, and would recommend everyone to use the notebooks if possible.
Tomorrow, I will improve format of the final matrix, and publish it. So Long.