more cleaning up. signiicant changes to tetranucleotideAnalysis.py to increase usability. Trying to remove all references to BioPython because we shouldn't require people to use it.
further changes to make pipeline automated. Notes on desired functions in src/pipleine_structure.txt started coding compareTUD.py as a homolog to compareTDI.py
Merge branch 'master' of https://github.com/bsiranosian/tango