New features on geometry, contact and particle generation

In this release, the new features are:

1. New geometric shape which is much faster than triangular mesh is introduced.
2. General coordinate transformation is introduced to all shapes.
3. Contact between volumetric and surface structures is introduced.
4. Particle generation is generalized for volumetric and surface particles.
5. Construction of adaptation, particles and materials now are based on factory methods.

Installation note:
Eigen 3 library is required for this release. You can download it from https://eigen.tuxfamily.org/index.php?title=Main_Page.
The eigen library source should be put in the folder 3rd_party/eigen.