rmsd bug fix
rmsd test reduced precision requirement
Merge pull request #70 from kyleabeauchamp/rmsd_fix

rmsd bug fix
add the cython generated file for RMSD
Fix numAtoms issue #74
Merge pull request #75 from kyleabeauchamp/fix_topology

Fix numAtoms issue #74
trigger travis build with inconsequential change
make hdf5 reporter compatible with pytables3
reduce precision in rmsd test
Merge pull request #80 from rmcgibbo/fix-for-pytables-3

make hdf5 reporter compatible with pytables3
passed tests
fixed a units bug with netcdf reporter
added new topology subsetting code
added atomSubset'
added a comment
fix the changed names in performance testing
Cleaned up the dcd interface
sketched the methods
added atom_indices subset reading to the DCD file at the cython level
fix the performance code to use the new dcd reader