I added new nativeList generator. It runs faster. Continue working on HP-simulation

I implemented folding and now going to work on catalysis
	new file:   hp-model-scripts/HPlibraryReader.py
	new file:   hp-model-scripts/coordinate.py
	new file:   hp-model-scripts/nativeChain.py
	new file:   hp-model/hp-folding00.png
	deleted:    hpConverter.py
	modified:   main.cpp
	modified:   model.cpp
	modified:   nativeList.txt
	modified:   nativeListLoader.cpp
	modified:   nativeListLoader.o
	modified:   parameters.ini
 Untracked files:
	localRt.py
	plotHPData.py
	routes.py
	runtime.txt
added some files which I forgot to add in last commit
	new file:   plotHPData.py
	new file:   routes.py