Fixed momo-commander for compiling on mac os x

- Library paths were incorrect on my macbook
- invalid string comparison, need to use strcmp in C/C++
- cleaned up some code
- needed extra include of stdlib on some platforms
Merge pull request #40 from timburke/feature-pic12-finaltouches

Final touches on mib12 platform: executive reflashing is now done
Merge pull request #38 from timburke/feature-cmdr-fix

Fixed momo-commander for compiling on mac os x
Merge branch 'dev' of github.com:WellDone/MoMo-Firmware into dev

Conflicts:
	tools/momo-commander/makefile
	tools/momo-commander/src/CommanderShell.cpp
	tools/momo-commander/src/FTDIConnection.cpp
	tools/momo-commander/src/FTDIManager.h
	tools/momo-commander/src/FTDIShell.cpp
	tools/momo-commander/src/Shell.cpp