moved stan/gm/command.hpp to stan/ui/command.hpp; changed namespaces; moved tests
refactor: splitting write_iteration_csv() out of command.hpp
refactor: splitting write_csv() out of command.hpp
refactor: splitting write_stan() out of command.hpp; added unit tests
refactor: splitting write_model() out of command.hpp; added unit tests
refactor: splitting write_error_msg() out of command.hpp; added unit tests
refactor: splitting do_print() out of command.hpp
refactor: splitting print_progress() out of command.hpp
refactor: splitting run_markov_chain(); needs tests
refactor: splitting warmup() out of command.hpp; needs tests
refactor: splitting sample() out of command.hpp; needs tests
refactor: splitting init_* functions out of command.hpp; needs tests
Changed a bunch of chains methods to be either static or const, as appropriate.
updated formatting to reduce lines to 80 chars and put open curlies on same line as signature
moving namespace ui to common
adding a typedef to the stan model for use in CmdStan
moving src/test/CmdStan/command_test.cpp to cmdstan repository
refactor: moving src/test/CmdStan/fixed_param_test.cpp to cmdstan repository
refactor: moving src/test/CmdStan/optimization_output_test.cpp to cmdstan repository
refactor: moving src/test/CmdStan/print_test.cpp to cmdstan repository