moving test to CmdStan
Merge branch 'develop' into feature/lbfgs

Conflicts:
	stan
Merge doc changes from Stan reference manual after the CmdStan split.
updating stan
Merge branch 'develop' into feature/lbfgs

Conflicts:
	stan
Merge pull request #17 from stan-dev/feature/lbfgs

CmdStan changes for L-BFGS