ENH: Cherry-picked from Ricardo's commit

Cherry-picked from Ricardo's edits to MeshMap related
classes in addCollisionContext branch

BUG: Fix compilation errors all over the place

ENH: Adds code to find islands

Adds code to find and list members of islands

WIP: Adds code to do stage-2 assembly

ENH: Change the mesh representation of scene objects

Adds three mesh representations for discrete geometry
for each scene object. Also adds mesh maps

Conflicts:
	Assembler/Assembler.h
	Collision/MeshToMeshCollision.h
	CollisionContext/CollisionContext.cpp
	CollisionContext/CollisionContext.h
	Core/AnalyticalGeometry.h
	Core/SceneObject.cpp
	Core/SceneObject.h
	Mesh/MeshMap.cpp
	Mesh/MeshMap.h
	Mesh/MeshMapAffine.cpp
	Mesh/MeshMapAffine.h
	Mesh/MeshMapTetToSurface.h
	SceneModels/UnitTests/VegaFEMDeformableSceneObjectSpec.cpp