Updated Installer to add Models and Tests folders to $UserBaseDirectory/Applications
Removed Protect/Unprotect statements from Types.m and Util.m
Fixed unexpected end of code error
Removed protect/unprotect statements from Core.m and added batch protect/unprotect to init.m
Removed protect/unprotect statements from all other .m files in Toolbox
Added Unprotect statements before overwritten functions
Fixed bug where all reaction code was accidentally commented out
Added grep function to find expressions in the codebase
Removed extraneous protect statements
Created batch message for all functions for incorrect inputs
Removed badarg message from all functions and partially fixed batch message
Removed names of Heads from incorrect input message code
Improved look of initialization picture
Added 'e' to the list of heads
Added new global variable  for cleaner badarg message code
Added MASSmodel to list of heads
Fixed missing comma
Added context to JLink calls
Merge branch 'CodeCleanup'
Removed models and tests folders from Installer code