Remove .so
Merge branch 'master' of github.com:SimTk/msmbuilder
transferred project.utils to use mdtraj
mdtraj changes to project.builder
started project.py
Updated metrics to use mdtraj.Trajectory

Still to do: positions.py (and lprmsd.py, which is tricky) as
well as all the geometry/ files
Removed angle.py
finished project.py I'm just using hacky calls to pytables when that provides a significant performance boost (e.g. when loading a single frame or requesting the shape of the trajectory
finished adding mdtraj to validators
Removed lots of geometry code that is now redundant with mdtraj

Not removed: contact.residue_distances (not in mdtraj)

Still to do: internal.py
Also delete dihedral
added mdtraj to .travis.yml
added simtk.unit to .travis.yml from rmcgibbo's repo
Merge branch 'msmb2.8' of github.com:schwancr/msmbuilder into msmb2.8
Get rid of these
Started to do lprmsd changes but haven't finished
Updated clustering for mdtraj
Getting ready to implement getchunkedtraj
read_chunks implemented for Cluster.py

Noticed a bug in dihedrals: mdtraj can't get indices
Fix project so that it can save generators