from SimMedTK to iMSTK.

Modify the license notice in each file.
Add LICENSE file.

from SimMedTK to iMSTK.

Modify the license notice in each file.
Add LICENSE file.

by examples and unit tests.

Implement missing methods and logic.

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

Add an alias for a matrix map.
Create a templated method in the MeshModel and IOMesh to automatically
cast the underlying mesh.

Create an interpolate() method in the VegaVolumetricMesh class to
interpolate surface of the underlying volumetric mesh with an external
surface mesh and clean up the interface.

Create a computeGravity() method in the VegaVolumetricMesh class
to compute gravity forces.

Refactor getVelocity() method in DeformableSceneObject and add a
variable to hold the gravity vector.

Refactor SceneObject. Add SceneModelRenderDelegate render delegate to
take care of renderign operations for this model. Create visual,
physics and collision model variables.

Remove render delegates from the StaticSceneObject, this is now handled
by it base class.

Add storage for the gravity force in VegaFEMDeformableSceneObject and
initialized properly. Compute internal force by multiplying K*positions
instead of calling the vega function.

Refactor DefaultSimulator, VegaFEMModelSimulator. This class will be
marked obsolete soon.

initialized from Vega matrices. The ode rhs
now considers damping only if the coefficients are
positive, non zero. It also accumulates contact forces
if any. The updateAttachedMesh in the VegaVolumetricMesh
class now takes an Eigen vector to do the update.

- Also replace GL/glew by vtk_glew in Core/RenderDetail
- Remove empty first line in those

- Remove RenderDetail::setTextureFilename() and co.
- Remove MeshModel::addTexture()
- Remove SurfaceMesh::assignTexture() and co.
- Use RenderDetail::addTexture()

Still need to assign texture in model?

The 3ds file loading and attachment  of VAO for the tangents
for 3DS file are working fine now.

The tangents transfer to the shaders need to be checked.

-Has some general fixes(wrong types and stuff).
-Fixes the in-house openGL renderer.
-Fixes Oculus support.
-Moved around some stuff in the renderers.
-Generalized RenderCube to be an example scene so
all the other cube based examples can use common code.

for surface meshes. This was causing crashes when trying to
render. Clean the attachSurfaceMesh routines and add two more
routines: readWeigths() and generateWeigths().

delegates.
The way render delegates need a bit of work.

Automating the way renderers are loaded.

Fix broken tests.
The renderCube example is broken now. Submitting patch soon.

Revert to build command in the Superbuild so that parallel
build work again.

Clean up and add static scene delegate.

Documenting IO. Change name for IO delegates to match file name.

Capture by value in the IO delegator so that it remembers about the
delegate file name and IO pointer.

Fixing examples so they use the new IOs and renderer.

Add tests to IO. Move variables, types and implementation
of utility methods to IOMeshDelagates base class.

Commented out the VegaVoumetricMesh test until after I debug the meshIO.

Add reset function to base mash

in order to reset vertices to their original position.
Strip const from read function in the IOMeshDelegate and childs.
Move some utility functions to IOMeshDelegate.