added dihedral calculation for all the chi angles (chis 1-4 )
Added read_chunks

I still need to test whether it works
Return trajectory object instead of named tuple
Added get_indices function for compatibility with msmbuilder
Merge branch 'master' of github.com:rmcgibbo/mdtraj

Conflicts:
	MDTraj/geometry/dihedral.py
Some reshuffling to make LH5 support standard.
Merge pull request #227 from kyleabeauchamp/lh5_no_import

Some reshuffling to make LH5 support standard.
modified chi calculations to the updated MDTraj codebase
modified chi calculations to the updated MDTraj codebase
fixed the function compute_chi_all
 added definitions to docstring
fixed return as type int for residue ids
Fixes issue #229
Oops forgot to add PDB file for tests.
Merge pull request #230 from kyleabeauchamp/fix_dataframe

Fixes issue #229
Merge branch 'master' of github.com:raviramanathan/mdtraj into raviramanathan-master
Merge pull request #224 from raviramanathan/master

added dihedral calculation for all the chi angles (chis 1-4 )
Add test to chi angle calculation and clean up logic slightly
Merge branch 'master' into chi
minor