John's fixes to documentation
Jason's fixes to documentation
Added discussion of loading CHARMM files
Edits to documentation based on Jason's comments
AMBER example script uses periodic box vectors from inpcrd
Prevent sphinx from adding an index to PDF file
Marked GBVIForce as deprecated and removed it from the manual
Deleted obsolete documentation files
Updated Context::getParameter() and Context::setParameter() error messages to also print name of incorrect parameter to aid debugging.
Merge pull request #585 from jchodera/informative-error-message

More informative error messages for Context::getParameter() and setParameter()
Fix Python3 compatibility with the CHARMM parsers.
Merge pull request #586 from swails/charmm_py3

Fix Python3 compatibility with the CHARMM parsers
Fixed bug in getInducedDipoles()
avoid syntax error if tabulated function min is negative
Merge pull request #588 from peastman/master

Fixed bug in getInducedDipoles()
Merge pull request #589 from mgarraha/master

avoid syntax error if tabulated function min is negative
Docs start chapter on any page
Merge pull request #590 from rmcgibbo/openany

Docs start chapter on any page
Very minor fix in developer guide
Merge pull request #580 from peastman/docs

Updates to documentation for 6.1