Moved driver code to yank-driver.py, and changed PDB file reading to use openmm.app.
Initial checkin for logging.
Resolved conflict in analyze.py
Added utils.py to hold print_mixing stats
Added logging stuff to analyze-dataset.py
More logger
More logger
Removed verbose
Added setup.py etc.
removed verbose one place in yank.py to make test run.
Updated gitignore to ignore version.py, swapped the timeseries module to use pymbar in analyze-dataset.
Merge pull request #17 from kyleabeauchamp/logging

[WIP] Convert prints to loggers
Starting migrating testsystems to new style
Moved submission scripts to /scripts/
moved tests to tests.
moved tests to tests.
Removed data
Moved more stuff to scripts
Migrated alchemy and restraints
Migrated alchemy-tests