added example host-guest system--compound 19 from the paper in the README.md
fixed naming of residues
Merge pull request #137 from pgrinaway/compound19-example

Example host-guest system
Initial checkin of simplified travis
Dont test py33 on travis
Updated build.sh and travis.yml
Testing if we need pyyaml
Updates
Switched tests to use yank examples rather than openmmtools.
Slightly improved docstrings / comments
Ignore output on simulation.run()
Actually add ellipsis
Merge pull request #138 from kyleabeauchamp/travis2

[WIP] Initial checkin of simplified travis
Suppress weave deprecation warnings in repex.py file.
Attempting to use compiler arguments to suppress weave warnings.
Merge pull request #139 from jchodera/fix-weave-output

Suppress weave deprecation warnings in repex.py file.
added implicit solvent SAMPL systems. the host is already parameterized. One molecule was not named properly by openeye.
will look into manually later
corrected tleap mistake; omitted complex creation.
added explicit-solvent examples for SAMPL cationic guest molecules, using
Cl- as counterion
deleted intermediate, etc.