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
Removed thermodynamics.py, fixed alchemy
fixes in restraints
Fixes in alchemy-tests.py
Minor fixes to get yank.py working again.
Merge pull request #23 from kyleabeauchamp/testsystems

[WIP] Starting migrating testsystems to new style