Added argument parsers
Argument parsers
Test argument parsers
Recursive arguments
Added many new arguments
New arguments, started refilling command.hpp
Implemented optimization algorithms and various samplers, added appropriate arguments
Merge branch 'develop' into feature/arg_refactor

Conflicts:
	src/stan/gm/command.hpp
Lots of bug fixes and behavior tweaks to accompany merge of develop
More flexible help display options
Deleted deprecated help argument
MUse boost::lexical cast for more robust reading of numbers in scientic notation
Removed debug output line
added to_vector with tests
added missing compiled model tests
added -Wno-c++11-long-long flag for clang++ in linux. Fixes issue #62
added -Wno-c++11-long-long flag for clang++ in mac
Change ordering of Wno-c++11-long-long to ensure it is respected.
fixes issue #63.

updated code to populate chains so the modes are identified
manual update for bug in sample program + acknowledgment for same