More changes to comments

More beautification of comment lines.
More prettifying of code
Fixed a bug where thread tried to kill already dead thread
Begin work on switching to word addressing
Switch to WORD addressing. Still buggy.
Fix LDR, STR, and JSR. Bunny adventure now runs :D
Decode instructions when showing the machine state
Merge branch 'word_addressing'. Bunny adventure still seems to work.

Conflicts:
	lci-sim/Conversion.cpp
	lci-sim/Interpreter.cpp
	lci-sim/Interpreter.h
	lci-sim/MachineInstance.cpp
	lci-sim/MachineInstance.h