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/* |
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* GeometryBuilder.cpp |
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* nanorodBuilder |
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* |
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* Created by Charles Vardeman II on 4/4/05. |
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* Copyright 2005 University of Notre Dame. All rights reserved. |
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* |
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*/ |
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|
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/* |
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* Copyright (c) 2005 The University of Notre Dame. All Rights Reserved. |
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* |
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* The University of Notre Dame grants you ("Licensee") a |
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* non-exclusive, royalty free, license to use, modify and |
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* redistribute this software in source and binary code form, provided |
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* that the following conditions are met: |
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* |
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* 1. Acknowledgement of the program authors must be made in any |
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* publication of scientific results based in part on use of the |
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* program. An acceptable form of acknowledgement is citation of |
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* the article in which the program was described (Matthew |
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* A. Meineke, Charles F. Vardeman II, Teng Lin, Christopher |
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* J. Fennell and J. Daniel Gezelter, "OOPSE: An Object-Oriented |
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* Parallel Simulation Engine for Molecular Dynamics," |
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* J. Comput. Chem. 26, pp. 252-271 (2005)) |
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* |
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* 2. Redistributions of source code must retain the above copyright |
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* notice, this list of conditions and the following disclaimer. |
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* |
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* 3. Redistributions in binary form must reproduce the above copyright |
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* notice, this list of conditions and the following disclaimer in the |
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* documentation and/or other materials provided with the |
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* distribution. |
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* |
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* This software is provided "AS IS," without a warranty of any |
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* kind. All express or implied conditions, representations and |
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* warranties, including any implied warranty of merchantability, |
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* fitness for a particular purpose or non-infringement, are hereby |
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* excluded. The University of Notre Dame and its licensors shall not |
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* be liable for any damages suffered by licensee as a result of |
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* using, modifying or distributing the software or its |
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* derivatives. In no event will the University of Notre Dame or its |
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* licensors be liable for any lost revenue, profit or data, or for |
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* direct, indirect, special, consequential, incidental or punitive |
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* damages, however caused and regardless of the theory of liability, |
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* arising out of the use of or inability to use software, even if the |
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* University of Notre Dame has been advised of the possibility of |
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* such damages. |
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*/ |
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|
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#include "GeometryBuilder.hpp" |
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|
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#include <CGAL/Simple_cartesian.h> |
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#include <CGAL/Polyhedron_incremental_builder_3.h> |
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#include <CGAL/Polyhedron_3.h> |
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#include <CGAL/Homogeneous.h> |
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#include <CGAL/Polyhedron_traits_with_normals_3.h> |
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#include <CGAL/Polyhedron_3.h> |
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#include <CGAL/Aff_transformation_3.h> |
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#include <CGAL/aff_transformation_tags.h> |
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#include <iostream> |
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#include <algorithm> |
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#include <fstream> |
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#include <math.h> |
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|
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using namespace std; |
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using namespace oopse; |
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|
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//typedef CGAL::Homogeneous<int> Kernel; |
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typedef CGAL::Simple_cartesian<double> Kernel; |
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//typedef CGAL::Polyhedron_3<Kernel> Polyhedron; |
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|
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typedef Kernel::Point_3 Point_3; |
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typedef Kernel::Vector_3 Vector_3; |
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typedef CGAL::Polyhedron_traits_with_normals_3<Kernel> Traits; |
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//typedef CGAL::Polyhedron_3<Kernel> Polyhedron; |
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typedef CGAL::Polyhedron_3<Traits> Polyhedron; |
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typedef Polyhedron::HalfedgeDS HalfedgeDS; |
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typedef Polyhedron::Facet_iterator Facet_iterator; |
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typedef Polyhedron::Halfedge_around_facet_circulator Halfedge_facet_circulator; |
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typedef Polyhedron::Facet_iterator Facet_iterator; |
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typedef Polyhedron::Plane_iterator Plane_iterator; |
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typedef Polyhedron::Vertex_handle Vertex_handle; |
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|
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Polyhedron nanoRodPolyhedron; |
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Polyhedron nanoRodTwinnedPolyhedron1; |
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Polyhedron nanoRodTwinnedPolyhedron2; |
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Polyhedron nanoRodTwinnedPolyhedron3; |
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Polyhedron nanoRodTwinnedPolyhedron4; |
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Polyhedron nanoRodTwinnedPolyhedron5; |
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|
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|
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|
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|
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//typedef CGAL::Scaling Scaling; |
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//typedef Aff_transformation_3<Kernel> A;( const Scaling, |
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// Kernel::RT s=RT(20), |
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// Kernel::RT hw = RT(1)); |
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|
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|
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|
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|
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|
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// A modifier creating a triangle with the incremental builder. |
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template <class HDS> |
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class buildSingleCrystal : public CGAL::Modifier_base<HDS> { |
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public: |
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Vertex_handle end1; |
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Vertex_handle neight1; |
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Vertex_handle end2; |
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Vertex_handle neight2; |
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Vertex_handle neight3; |
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|
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buildSingleCrystal() {} |
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void operator()( HDS& hds) { |
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// Postcondition: `hds' is a valid polyhedral surface. |
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CGAL::Polyhedron_incremental_builder_3<HDS> B( hds, true); |
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B.begin_surface( 12, 15, 6); |
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typedef typename HDS::Vertex Vertex; |
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typedef typename Vertex::Point Point; |
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|
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|
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|
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|
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|
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B.add_vertex( Point(-0.7887222926324, 0.4874571845315, -0.2562714077342)); |
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B.add_vertex( Point(-0.4874571845316, 0.4874571845315, 0.6709272557930)); |
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B.add_vertex( Point(-0.7887222926324, -0.4874571845315, -0.2562714077342)); //End vertex |
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end1 = B.add_vertex( Point( 0.0000000000000, 1.0000000000000, 0.0000000000000)); |
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neight3 = B.add_vertex( Point(-0.4874571845315, -0.4874571845316, 0.6709272557930)); |
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neight1 = B.add_vertex( Point(-0.0000000000000, 0.4874571845316, -0.8293116961175)); |
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B.add_vertex( Point( 0.0000000000000, -0.4874571845316, -0.8293116961175)); |
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B.add_vertex( Point( 0.4874571845315, 0.4874571845316, 0.6709272557930)); |
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end2 = B.add_vertex( Point(-0.0000000000000, -1.0000000000000, 0.0000000000000)); //End Vertex |
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B.add_vertex( Point( 0.7887222926324, 0.4874571845315, -0.2562714077342)); |
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neight2 = B.add_vertex( Point( 0.4874571845316, -0.4874571845315, 0.6709272557930)); |
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B.add_vertex( Point( 0.7887222926324, -0.4874571845315, -0.2562714077342)); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 7); |
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B.add_vertex_to_facet( 9); |
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B.add_vertex_to_facet( 11); |
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B.add_vertex_to_facet( 10); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 8); |
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B.add_vertex_to_facet( 10); |
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B.add_vertex_to_facet( 11); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 3); |
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B.add_vertex_to_facet( 9); |
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B.add_vertex_to_facet( 7); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 9); |
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B.add_vertex_to_facet( 5); |
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B.add_vertex_to_facet( 6); |
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B.add_vertex_to_facet( 11); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 8); |
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B.add_vertex_to_facet( 11); |
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B.add_vertex_to_facet( 6); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 3); |
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B.add_vertex_to_facet( 5); |
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B.add_vertex_to_facet( 9); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 5); |
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B.add_vertex_to_facet( 0); |
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B.add_vertex_to_facet( 2); |
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B.add_vertex_to_facet( 6); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 8); |
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B.add_vertex_to_facet( 6); |
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B.add_vertex_to_facet( 2); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 3); |
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B.add_vertex_to_facet( 0); |
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B.add_vertex_to_facet( 5); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 0); |
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B.add_vertex_to_facet( 1); |
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B.add_vertex_to_facet( 4); |
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B.add_vertex_to_facet( 2); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 8); |
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B.add_vertex_to_facet( 2); |
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B.add_vertex_to_facet( 4); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 3); |
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B.add_vertex_to_facet( 1); |
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B.add_vertex_to_facet( 0); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 1); |
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B.add_vertex_to_facet( 7); |
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B.add_vertex_to_facet( 10); |
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B.add_vertex_to_facet( 4); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 8); |
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B.add_vertex_to_facet( 4); |
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B.add_vertex_to_facet( 10); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 3); |
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B.add_vertex_to_facet( 7); |
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B.add_vertex_to_facet( 1); |
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B.end_facet(); |
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|
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|
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B.end_surface(); |
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} |
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}; |
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|
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|
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|
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/* First Crystal*/ |
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|
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template <class HDS> |
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class buildtwinned1 : public CGAL::Modifier_base<HDS> { |
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public: |
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Vertex_handle end1; |
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Vertex_handle neight1; |
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Vertex_handle end2; |
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Vertex_handle neight2; |
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Vertex_handle neight3; |
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|
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buildtwinned1() {} |
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void operator()( HDS& hds) { |
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// Postcondition: `hds' is a valid polyhedral surface. |
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CGAL::Polyhedron_incremental_builder_3<HDS> B( hds, true); |
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B.begin_surface( 12, 5, 6); |
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typedef typename HDS::Vertex Vertex; |
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typedef typename Vertex::Point Point; |
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|
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|
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|
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|
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|
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B.add_vertex( Point(-0.7887222926324, 0.4874571845315, -0.2562714077342)); |
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B.add_vertex( Point(-0.4874571845316, 0.4874571845315, 0.6709272557930)); |
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B.add_vertex( Point(-0.7887222926324, -0.4874571845315, -0.2562714077342)); //End vertex |
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end1 = B.add_vertex( Point( 0.0000000000000, 1.0000000000000, 0.0000000000000)); |
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neight3 = B.add_vertex( Point(-0.4874571845315, -0.4874571845316, 0.6709272557930)); |
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neight1 = B.add_vertex( Point(-0.0000000000000, 0.4874571845316, -0.8293116961175)); |
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B.add_vertex( Point( 0.0000000000000, -0.4874571845316, -0.8293116961175)); |
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B.add_vertex( Point( 0.4874571845315, 0.4874571845316, 0.6709272557930)); |
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end2 = B.add_vertex( Point(-0.0000000000000, -1.0000000000000, 0.0000000000000)); //End Vertex |
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B.add_vertex( Point( 0.7887222926324, 0.4874571845315, -0.2562714077342)); |
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neight2 = B.add_vertex( Point( 0.4874571845316, -0.4874571845315, 0.6709272557930)); |
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B.add_vertex( Point( 0.7887222926324, -0.4874571845315, -0.2562714077342)); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 8); |
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B.add_vertex_to_facet( 4); |
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B.add_vertex_to_facet( 1); |
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B.add_vertex_to_facet( 3); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 3); |
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B.add_vertex_to_facet( 0); |
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B.add_vertex_to_facet( 2); |
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B.add_vertex_to_facet( 8); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 0); |
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B.add_vertex_to_facet( 1); |
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B.add_vertex_to_facet( 4); |
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B.add_vertex_to_facet( 2); |
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B.end_facet(); |
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|
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 3); |
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B.add_vertex_to_facet( 1); |
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B.add_vertex_to_facet( 0); |
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B.end_facet(); |
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|
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B.begin_facet(); |
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B.add_vertex_to_facet( 4); |
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B.add_vertex_to_facet( 8); |
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B.add_vertex_to_facet( 2); |
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B.end_facet(); |
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|
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B.end_surface(); |
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} |
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}; |
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|
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|
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|
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|
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/*second crystal*/ |
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template <class HDS> |
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class buildtwinned2 : public CGAL::Modifier_base<HDS> { |
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public: |
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Vertex_handle end1; |
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Vertex_handle neight1; |
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Vertex_handle end2; |
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Vertex_handle neight2; |
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Vertex_handle neight3; |
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|
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buildtwinned2() {} |
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void operator()( HDS& hds) { |
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// Postcondition: `hds' is a valid polyhedral surface. |
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CGAL::Polyhedron_incremental_builder_3<HDS> B( hds, true); |
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B.begin_surface( 12, 5, 6); |
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typedef typename HDS::Vertex Vertex; |
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typedef typename Vertex::Point Point; |
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|
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|
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|
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|
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|
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B.add_vertex( Point(-0.7887222926324, 0.4874571845315, -0.2562714077342)); |
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B.add_vertex( Point(-0.4874571845316, 0.4874571845315, 0.6709272557930)); |
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B.add_vertex( Point(-0.7887222926324, -0.4874571845315, -0.2562714077342)); //End vertex |
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end1 = B.add_vertex( Point( 0.0000000000000, 1.0000000000000, 0.0000000000000)); |
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neight3 = B.add_vertex( Point(-0.4874571845315, -0.4874571845316, 0.6709272557930)); |
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neight1 = B.add_vertex( Point(-0.0000000000000, 0.4874571845316, -0.8293116961175)); |
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B.add_vertex( Point( 0.0000000000000, -0.4874571845316, -0.8293116961175)); |
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B.add_vertex( Point( 0.4874571845315, 0.4874571845316, 0.6709272557930)); |
| 348 |
end2 = B.add_vertex( Point(-0.0000000000000, -1.0000000000000, 0.0000000000000)); //End Vertex |
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B.add_vertex( Point( 0.7887222926324, 0.4874571845315, -0.2562714077342)); |
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neight2 = B.add_vertex( Point( 0.4874571845316, -0.4874571845315, 0.6709272557930)); |
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B.add_vertex( Point( 0.7887222926324, -0.4874571845315, -0.2562714077342)); |
| 352 |
|
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B.begin_facet(); |
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B.add_vertex_to_facet( 8); |
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B.add_vertex_to_facet( 2); |
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B.add_vertex_to_facet( 0); |
| 357 |
B.add_vertex_to_facet( 3); |
| 358 |
B.end_facet(); |
| 359 |
|
| 360 |
B.begin_facet(); |
| 361 |
B.add_vertex_to_facet( 3); |
| 362 |
B.add_vertex_to_facet( 5); |
| 363 |
B.add_vertex_to_facet( 6); |
| 364 |
B.add_vertex_to_facet( 8); |
| 365 |
B.end_facet(); |
| 366 |
|
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B.begin_facet(); |
| 368 |
B.add_vertex_to_facet( 5); |
| 369 |
B.add_vertex_to_facet( 0); |
| 370 |
B.add_vertex_to_facet( 2); |
| 371 |
B.add_vertex_to_facet( 6); |
| 372 |
B.end_facet(); |
| 373 |
|
| 374 |
|
| 375 |
B.begin_facet(); |
| 376 |
B.add_vertex_to_facet( 3); |
| 377 |
B.add_vertex_to_facet( 0); |
| 378 |
B.add_vertex_to_facet( 5); |
| 379 |
B.end_facet(); |
| 380 |
|
| 381 |
B.begin_facet(); |
| 382 |
B.add_vertex_to_facet( 8); |
| 383 |
B.add_vertex_to_facet( 6); |
| 384 |
B.add_vertex_to_facet( 2); |
| 385 |
B.end_facet(); |
| 386 |
|
| 387 |
B.end_surface(); |
| 388 |
} |
| 389 |
}; |
| 390 |
|
| 391 |
/* Third Crystal*/ |
| 392 |
|
| 393 |
template <class HDS> |
| 394 |
class buildtwinned3 : public CGAL::Modifier_base<HDS> { |
| 395 |
public: |
| 396 |
Vertex_handle end1; |
| 397 |
Vertex_handle neight1; |
| 398 |
Vertex_handle end2; |
| 399 |
Vertex_handle neight2; |
| 400 |
Vertex_handle neight3; |
| 401 |
|
| 402 |
buildtwinned3() {} |
| 403 |
void operator()( HDS& hds) { |
| 404 |
// Postcondition: `hds' is a valid polyhedral surface. |
| 405 |
CGAL::Polyhedron_incremental_builder_3<HDS> B( hds, true); |
| 406 |
B.begin_surface( 12, 5, 6); |
| 407 |
typedef typename HDS::Vertex Vertex; |
| 408 |
typedef typename Vertex::Point Point; |
| 409 |
|
| 410 |
|
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|
| 412 |
|
| 413 |
|
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B.add_vertex( Point(-0.7887222926324, 0.4874571845315, -0.2562714077342)); |
| 415 |
B.add_vertex( Point(-0.4874571845316, 0.4874571845315, 0.6709272557930)); |
| 416 |
B.add_vertex( Point(-0.7887222926324, -0.4874571845315, -0.2562714077342)); //End vertex |
| 417 |
end1 = B.add_vertex( Point( 0.0000000000000, 1.0000000000000, 0.0000000000000)); |
| 418 |
neight3 = B.add_vertex( Point(-0.4874571845315, -0.4874571845316, 0.6709272557930)); |
| 419 |
neight1 = B.add_vertex( Point(-0.0000000000000, 0.4874571845316, -0.8293116961175)); |
| 420 |
B.add_vertex( Point( 0.0000000000000, -0.4874571845316, -0.8293116961175)); |
| 421 |
B.add_vertex( Point( 0.4874571845315, 0.4874571845316, 0.6709272557930)); |
| 422 |
end2 = B.add_vertex( Point(-0.0000000000000, -1.0000000000000, 0.0000000000000)); //End Vertex |
| 423 |
B.add_vertex( Point( 0.7887222926324, 0.4874571845315, -0.2562714077342)); |
| 424 |
neight2 = B.add_vertex( Point( 0.4874571845316, -0.4874571845315, 0.6709272557930)); |
| 425 |
B.add_vertex( Point( 0.7887222926324, -0.4874571845315, -0.2562714077342)); |
| 426 |
|
| 427 |
B.begin_facet(); |
| 428 |
B.add_vertex_to_facet( 8); |
| 429 |
B.add_vertex_to_facet( 6); |
| 430 |
B.add_vertex_to_facet( 5); |
| 431 |
B.add_vertex_to_facet( 3); |
| 432 |
B.end_facet(); |
| 433 |
|
| 434 |
B.begin_facet(); |
| 435 |
B.add_vertex_to_facet( 3); |
| 436 |
B.add_vertex_to_facet( 9); |
| 437 |
B.add_vertex_to_facet( 11); |
| 438 |
B.add_vertex_to_facet( 8); |
| 439 |
B.end_facet(); |
| 440 |
|
| 441 |
B.begin_facet(); |
| 442 |
B.add_vertex_to_facet( 9); |
| 443 |
B.add_vertex_to_facet( 5); |
| 444 |
B.add_vertex_to_facet( 6); |
| 445 |
B.add_vertex_to_facet( 11); |
| 446 |
B.end_facet(); |
| 447 |
|
| 448 |
|
| 449 |
B.begin_facet(); |
| 450 |
B.add_vertex_to_facet( 3); |
| 451 |
B.add_vertex_to_facet( 5); |
| 452 |
B.add_vertex_to_facet( 9); |
| 453 |
B.end_facet(); |
| 454 |
|
| 455 |
B.begin_facet(); |
| 456 |
B.add_vertex_to_facet( 8); |
| 457 |
B.add_vertex_to_facet( 11); |
| 458 |
B.add_vertex_to_facet( 6); |
| 459 |
B.end_facet(); |
| 460 |
|
| 461 |
B.end_surface(); |
| 462 |
} |
| 463 |
}; |
| 464 |
|
| 465 |
/*Fourth Segment*/ |
| 466 |
template <class HDS> |
| 467 |
class buildtwinned4 : public CGAL::Modifier_base<HDS> { |
| 468 |
public: |
| 469 |
Vertex_handle end1; |
| 470 |
Vertex_handle neight1; |
| 471 |
Vertex_handle end2; |
| 472 |
Vertex_handle neight2; |
| 473 |
Vertex_handle neight3; |
| 474 |
|
| 475 |
buildtwinned4() {} |
| 476 |
void operator()( HDS& hds) { |
| 477 |
// Postcondition: `hds' is a valid polyhedral surface. |
| 478 |
CGAL::Polyhedron_incremental_builder_3<HDS> B( hds, true); |
| 479 |
B.begin_surface( 12, 5, 6); |
| 480 |
typedef typename HDS::Vertex Vertex; |
| 481 |
typedef typename Vertex::Point Point; |
| 482 |
|
| 483 |
|
| 484 |
|
| 485 |
|
| 486 |
|
| 487 |
B.add_vertex( Point(-0.7887222926324, 0.4874571845315, -0.2562714077342)); |
| 488 |
B.add_vertex( Point(-0.4874571845316, 0.4874571845315, 0.6709272557930)); |
| 489 |
B.add_vertex( Point(-0.7887222926324, -0.4874571845315, -0.2562714077342)); //End vertex |
| 490 |
end1 = B.add_vertex( Point( 0.0000000000000, 1.0000000000000, 0.0000000000000)); |
| 491 |
neight3 = B.add_vertex( Point(-0.4874571845315, -0.4874571845316, 0.6709272557930)); |
| 492 |
neight1 = B.add_vertex( Point(-0.0000000000000, 0.4874571845316, -0.8293116961175)); |
| 493 |
B.add_vertex( Point( 0.0000000000000, -0.4874571845316, -0.8293116961175)); |
| 494 |
B.add_vertex( Point( 0.4874571845315, 0.4874571845316, 0.6709272557930)); |
| 495 |
end2 = B.add_vertex( Point(-0.0000000000000, -1.0000000000000, 0.0000000000000)); //End Vertex |
| 496 |
B.add_vertex( Point( 0.7887222926324, 0.4874571845315, -0.2562714077342)); |
| 497 |
neight2 = B.add_vertex( Point( 0.4874571845316, -0.4874571845315, 0.6709272557930)); |
| 498 |
B.add_vertex( Point( 0.7887222926324, -0.4874571845315, -0.2562714077342)); |
| 499 |
|
| 500 |
B.begin_facet(); |
| 501 |
B.add_vertex_to_facet( 8); |
| 502 |
B.add_vertex_to_facet( 11); |
| 503 |
B.add_vertex_to_facet( 9); |
| 504 |
B.add_vertex_to_facet( 3); |
| 505 |
B.end_facet(); |
| 506 |
|
| 507 |
B.begin_facet(); |
| 508 |
B.add_vertex_to_facet( 3); |
| 509 |
B.add_vertex_to_facet( 7); |
| 510 |
B.add_vertex_to_facet( 10); |
| 511 |
B.add_vertex_to_facet( 8); |
| 512 |
B.end_facet(); |
| 513 |
|
| 514 |
B.begin_facet(); |
| 515 |
B.add_vertex_to_facet( 7); |
| 516 |
B.add_vertex_to_facet( 9); |
| 517 |
B.add_vertex_to_facet( 11); |
| 518 |
B.add_vertex_to_facet( 10); |
| 519 |
B.end_facet(); |
| 520 |
|
| 521 |
|
| 522 |
B.begin_facet(); |
| 523 |
B.add_vertex_to_facet( 3); |
| 524 |
B.add_vertex_to_facet( 9); |
| 525 |
B.add_vertex_to_facet( 7); |
| 526 |
B.end_facet(); |
| 527 |
|
| 528 |
B.begin_facet(); |
| 529 |
B.add_vertex_to_facet( 8); |
| 530 |
B.add_vertex_to_facet( 10); |
| 531 |
B.add_vertex_to_facet( 11); |
| 532 |
B.end_facet(); |
| 533 |
|
| 534 |
B.end_surface(); |
| 535 |
} |
| 536 |
}; |
| 537 |
|
| 538 |
|
| 539 |
/*Fifth Segment*/ |
| 540 |
template <class HDS> |
| 541 |
class buildtwinned5 : public CGAL::Modifier_base<HDS> { |
| 542 |
public: |
| 543 |
Vertex_handle end1; |
| 544 |
Vertex_handle neight1; |
| 545 |
Vertex_handle end2; |
| 546 |
Vertex_handle neight2; |
| 547 |
Vertex_handle neight3; |
| 548 |
|
| 549 |
buildtwinned5() {} |
| 550 |
void operator()( HDS& hds) { |
| 551 |
// Postcondition: `hds' is a valid polyhedral surface. |
| 552 |
CGAL::Polyhedron_incremental_builder_3<HDS> B( hds, true); |
| 553 |
B.begin_surface( 12, 5, 6); |
| 554 |
typedef typename HDS::Vertex Vertex; |
| 555 |
typedef typename Vertex::Point Point; |
| 556 |
|
| 557 |
|
| 558 |
|
| 559 |
|
| 560 |
|
| 561 |
B.add_vertex( Point(-0.7887222926324, 0.4874571845315, -0.2562714077342)); |
| 562 |
B.add_vertex( Point(-0.4874571845316, 0.4874571845315, 0.6709272557930)); |
| 563 |
B.add_vertex( Point(-0.7887222926324, -0.4874571845315, -0.2562714077342)); //End vertex |
| 564 |
end1 = B.add_vertex( Point( 0.0000000000000, 1.0000000000000, 0.0000000000000)); |
| 565 |
neight3 = B.add_vertex( Point(-0.4874571845315, -0.4874571845316, 0.6709272557930)); |
| 566 |
neight1 = B.add_vertex( Point(-0.0000000000000, 0.4874571845316, -0.8293116961175)); |
| 567 |
B.add_vertex( Point( 0.0000000000000, -0.4874571845316, -0.8293116961175)); |
| 568 |
B.add_vertex( Point( 0.4874571845315, 0.4874571845316, 0.6709272557930)); |
| 569 |
end2 = B.add_vertex( Point(-0.0000000000000, -1.0000000000000, 0.0000000000000)); //End Vertex |
| 570 |
B.add_vertex( Point( 0.7887222926324, 0.4874571845315, -0.2562714077342)); |
| 571 |
neight2 = B.add_vertex( Point( 0.4874571845316, -0.4874571845315, 0.6709272557930)); |
| 572 |
B.add_vertex( Point( 0.7887222926324, -0.4874571845315, -0.2562714077342)); |
| 573 |
|
| 574 |
B.begin_facet(); |
| 575 |
B.add_vertex_to_facet( 8); |
| 576 |
B.add_vertex_to_facet( 4); |
| 577 |
B.add_vertex_to_facet( 1); |
| 578 |
B.add_vertex_to_facet( 3); |
| 579 |
B.end_facet(); |
| 580 |
|
| 581 |
B.begin_facet(); |
| 582 |
B.add_vertex_to_facet( 3); |
| 583 |
B.add_vertex_to_facet( 7); |
| 584 |
B.add_vertex_to_facet( 10); |
| 585 |
B.add_vertex_to_facet( 8); |
| 586 |
B.end_facet(); |
| 587 |
|
| 588 |
B.begin_facet(); |
| 589 |
B.add_vertex_to_facet( 7); |
| 590 |
B.add_vertex_to_facet( 1); |
| 591 |
B.add_vertex_to_facet( 4); |
| 592 |
B.add_vertex_to_facet( 10); |
| 593 |
B.end_facet(); |
| 594 |
|
| 595 |
|
| 596 |
B.begin_facet(); |
| 597 |
B.add_vertex_to_facet( 1); |
| 598 |
B.add_vertex_to_facet( 7); |
| 599 |
B.add_vertex_to_facet( 3); |
| 600 |
B.end_facet(); |
| 601 |
|
| 602 |
B.begin_facet(); |
| 603 |
B.add_vertex_to_facet( 10); |
| 604 |
B.add_vertex_to_facet( 4); |
| 605 |
B.add_vertex_to_facet( 8); |
| 606 |
B.end_facet(); |
| 607 |
|
| 608 |
B.end_surface(); |
| 609 |
} |
| 610 |
}; |
| 611 |
|
| 612 |
|
| 613 |
|
| 614 |
|
| 615 |
|
| 616 |
|
| 617 |
struct Normal_vector { |
| 618 |
template <class Facet> |
| 619 |
typename Facet::Plane_3 operator()( Facet& f) { |
| 620 |
typename Facet::Halfedge_handle h = f.halfedge(); |
| 621 |
// Facet::Plane_3 is the normal vector type. We assume the |
| 622 |
// CGAL Kernel here and use its global functions. |
| 623 |
return CGAL::cross_product( |
| 624 |
h->next()->vertex()->point() - h->vertex()->point(), |
| 625 |
h->next()->next()->vertex()->point() - h->next()->vertex()->point()); |
| 626 |
} |
| 627 |
}; |
| 628 |
|
| 629 |
|
| 630 |
bool GeometryBuilder::isInsidePolyhedron(double x, double y, double z) { |
| 631 |
|
| 632 |
Point_3 point(x,y,z); |
| 633 |
Plane_iterator i; |
| 634 |
Facet_iterator j; |
| 635 |
for ( i =nanoRodPolyhedron.planes_begin(), j = nanoRodPolyhedron.facets_begin(); i != nanoRodPolyhedron.planes_end() && j !=nanoRodPolyhedron.facets_end(); ++i, ++j) { |
| 636 |
Halfedge_facet_circulator k = j->facet_begin(); |
| 637 |
|
| 638 |
Vector_3 newVector = point - k->vertex()->point(); |
| 639 |
Vector_3 normal = *i; |
| 640 |
double dot_product = newVector.x() * normal.x() + newVector.y() * normal.y() + newVector.z() * normal.z(); |
| 641 |
|
| 642 |
if (dot_product < 0) { |
| 643 |
return false; |
| 644 |
} |
| 645 |
} |
| 646 |
|
| 647 |
return true; |
| 648 |
} |
| 649 |
|
| 650 |
|
| 651 |
GeometryBuilder::GeometryBuilder(double length,double width) { |
| 652 |
// Create the geometry for nanorod |
| 653 |
buildSingleCrystal<HalfedgeDS> singleCrystalNanorod; |
| 654 |
|
| 655 |
nanoRodPolyhedron.delegate( singleCrystalNanorod); |
| 656 |
|
| 657 |
double y1 = singleCrystalNanorod.end1->point().y() - singleCrystalNanorod.neight1->point().y(); |
| 658 |
double y2 = singleCrystalNanorod.end2->point().y() - singleCrystalNanorod.neight2->point().y(); |
| 659 |
|
| 660 |
double endDist = sqrt(pow(singleCrystalNanorod.neight2->point().x() - singleCrystalNanorod.neight3->point().x(),2)+ |
| 661 |
pow(singleCrystalNanorod.neight2->point().y() - singleCrystalNanorod.neight3->point().y(),2)+ |
| 662 |
pow(singleCrystalNanorod.neight2->point().z() - singleCrystalNanorod.neight3->point().z(),2)); |
| 663 |
|
| 664 |
double endRatio1 = y1/endDist; |
| 665 |
double endRatio2 = y2/endDist; |
| 666 |
|
| 667 |
std::cout << "End dist is " << endDist <<" ratio " << endRatio1 << std::endl; |
| 668 |
|
| 669 |
CGAL::Aff_transformation_3<Kernel> aff_tranformation( width, |
| 670 |
0.0, |
| 671 |
0.0, |
| 672 |
0.0, |
| 673 |
0.0, |
| 674 |
length, |
| 675 |
0.0, |
| 676 |
0.0, |
| 677 |
0.0, |
| 678 |
0.0, |
| 679 |
width, |
| 680 |
0.0); |
| 681 |
std::transform( nanoRodPolyhedron.points_begin(), nanoRodPolyhedron.points_end(), nanoRodPolyhedron.points_begin(), aff_tranformation); |
| 682 |
|
| 683 |
|
| 684 |
double endDist2 = sqrt(pow(singleCrystalNanorod.neight2->point().x() -singleCrystalNanorod.neight3->point().x(),2)+ |
| 685 |
pow(singleCrystalNanorod.neight2->point().y() - singleCrystalNanorod.neight3->point().y(),2)+ |
| 686 |
pow(singleCrystalNanorod.neight2->point().z() - singleCrystalNanorod.neight3->point().z(),2)); |
| 687 |
|
| 688 |
Point_3 point1(singleCrystalNanorod.end1->point().x(), endDist2*endRatio1 + singleCrystalNanorod.neight1->point().y(), singleCrystalNanorod.end1->point().z()); |
| 689 |
Point_3 point2(singleCrystalNanorod.end2->point().x(), endDist2*endRatio2 + singleCrystalNanorod.neight2->point().y(), singleCrystalNanorod.end2->point().z()); |
| 690 |
singleCrystalNanorod.end1->point() = point1; |
| 691 |
singleCrystalNanorod.end2->point() = point2; |
| 692 |
|
| 693 |
// Construct normal vector for each face. |
| 694 |
std::transform( nanoRodPolyhedron.facets_begin(), nanoRodPolyhedron.facets_end(), nanoRodPolyhedron.planes_begin(), |
| 695 |
Normal_vector()); |
| 696 |
} |
| 697 |
|
| 698 |
|
| 699 |
|
| 700 |
GeometryBuilder::GeometryBuilder(double length,double width, bool twinned) { |
| 701 |
// Create the geometry for nanorod |
| 702 |
|
| 703 |
buildtwinned1<HalfedgeDS> crystal1; |
| 704 |
buildtwinned2<HalfedgeDS> crystal2; |
| 705 |
buildtwinned3<HalfedgeDS> crystal3; |
| 706 |
buildtwinned4<HalfedgeDS> crystal4; |
| 707 |
buildtwinned5<HalfedgeDS> crystal5; |
| 708 |
|
| 709 |
|
| 710 |
nanoRodTwinnedPolyhedron1.delegate( crystal1); |
| 711 |
nanoRodTwinnedPolyhedron2.delegate( crystal2); |
| 712 |
nanoRodTwinnedPolyhedron3.delegate( crystal3); |
| 713 |
nanoRodTwinnedPolyhedron4.delegate( crystal4); |
| 714 |
nanoRodTwinnedPolyhedron5.delegate( crystal5); |
| 715 |
|
| 716 |
|
| 717 |
|
| 718 |
|
| 719 |
|
| 720 |
|
| 721 |
double y1 = crystal1.end1->point().y() - crystal1.neight1->point().y(); |
| 722 |
double y2 = crystal1.end2->point().y() - crystal1.neight2->point().y(); |
| 723 |
|
| 724 |
double endDist = sqrt(pow(crystal1.neight2->point().x() - crystal1.neight3->point().x(),2)+ |
| 725 |
pow(crystal1.neight2->point().y() - crystal1.neight3->point().y(),2)+ |
| 726 |
pow(crystal1.neight2->point().z() - crystal1.neight3->point().z(),2)); |
| 727 |
|
| 728 |
double endRatio1 = y1/endDist; |
| 729 |
double endRatio2 = y2/endDist; |
| 730 |
|
| 731 |
std::cout << "End dist is " << endDist <<" ratio " << endRatio1 << std::endl; |
| 732 |
|
| 733 |
CGAL::Aff_transformation_3<Kernel> aff_tranformation( width, |
| 734 |
0.0, |
| 735 |
0.0, |
| 736 |
0.0, |
| 737 |
0.0, |
| 738 |
length, |
| 739 |
0.0, |
| 740 |
0.0, |
| 741 |
0.0, |
| 742 |
0.0, |
| 743 |
width, |
| 744 |
0.0); |
| 745 |
std::transform(nanoRodTwinnedPolyhedron1.points_begin(), nanoRodTwinnedPolyhedron1.points_end(), nanoRodTwinnedPolyhedron1.points_begin(), aff_tranformation); |
| 746 |
|
| 747 |
|
| 748 |
double endDist2 = sqrt(pow(crystal1.neight2->point().x() - crystal1.neight3->point().x(),2)+ |
| 749 |
pow(crystal1.neight2->point().y() - crystal1.neight3->point().y(),2)+ |
| 750 |
pow(crystal1.neight2->point().z() - crystal1.neight3->point().z(),2)); |
| 751 |
|
| 752 |
Point_3 point1(crystal1.end1->point().x(), endDist2*endRatio1 + crystal1.neight1->point().y(), crystal1.end1->point().z()); |
| 753 |
Point_3 point2(crystal1.end2->point().x(), endDist2*endRatio2 + crystal1.neight2->point().y(), crystal1.end2->point().z()); |
| 754 |
crystal1.end1->point() = point1; |
| 755 |
crystal1.end2->point() = point2; |
| 756 |
|
| 757 |
// Construct normal vector for each face. |
| 758 |
std::transform( nanoRodTwinnedPolyhedron1.facets_begin(), nanoRodTwinnedPolyhedron1.facets_end(), nanoRodTwinnedPolyhedron1.planes_begin(), |
| 759 |
Normal_vector()); |
| 760 |
} |
| 761 |
|
| 762 |
|
| 763 |
|
| 764 |
|
| 765 |
|
| 766 |
|
| 767 |
|
| 768 |
|
| 769 |
|
| 770 |
void GeometryBuilder::dumpGeometry(const std::string& geomFileName){ |
| 771 |
|
| 772 |
std::ofstream newGeomFile; |
| 773 |
|
| 774 |
//create new .md file based on old .md file |
| 775 |
newGeomFile.open(geomFileName.c_str()); |
| 776 |
|
| 777 |
// Write polyhedron in Object File Format (OFF). |
| 778 |
CGAL::set_ascii_mode( std::cout); |
| 779 |
newGeomFile << "OFF" << std::endl << nanoRodPolyhedron.size_of_vertices() << ' ' |
| 780 |
<< nanoRodPolyhedron.size_of_facets() << " 0" << std::endl; |
| 781 |
std::copy( nanoRodPolyhedron.points_begin(), nanoRodPolyhedron.points_end(), |
| 782 |
std::ostream_iterator<Point_3>( newGeomFile, "\n")); |
| 783 |
for ( Facet_iterator i = nanoRodPolyhedron.facets_begin(); i != nanoRodPolyhedron.facets_end(); ++i) { |
| 784 |
Halfedge_facet_circulator j = i->facet_begin(); |
| 785 |
// Facets in polyhedral surfaces are at least triangles. |
| 786 |
CGAL_assertion( CGAL::circulator_size(j) >= 3); |
| 787 |
newGeomFile << CGAL::circulator_size(j) << ' '; |
| 788 |
do { |
| 789 |
newGeomFile << ' ' << std::distance(nanoRodPolyhedron.vertices_begin(), j->vertex()); |
| 790 |
} while ( ++j != i->facet_begin()); |
| 791 |
newGeomFile << std::endl; |
| 792 |
} |
| 793 |
|
| 794 |
newGeomFile.close(); |
| 795 |
|
| 796 |
|
| 797 |
|
| 798 |
|
| 799 |
} |
| 800 |
|
| 801 |
|
