Chaste Commit::ca8ccdedf819b6e02855bc0e8e6f50bdecbc5208
MutableMesh.hpp
1/*
2
3Copyright (c) 2005-2024, University of Oxford.
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34*/
35
36#ifndef MUTABLEMESH_HPP_
37#define MUTABLEMESH_HPP_
38
40#include <boost/serialization/base_object.hpp>
41#include <boost/serialization/split_member.hpp>
42
43#include "TetrahedralMesh.hpp"
44#include "NodeMap.hpp"
45
49template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
50class MutableMesh : public TetrahedralMesh<ELEMENT_DIM, SPACE_DIM>
51{
54
61 template<class Archive>
62 void save(Archive & archive, const unsigned int version) const
63 {
64 archive & boost::serialization::base_object<TetrahedralMesh<ELEMENT_DIM, SPACE_DIM> >(*this);
65
66 // Assume that the first node is indicative of the rest.
67 bool does_have_attributes = this->mNodes[0]->HasNodeAttributes();
68
69 archive & does_have_attributes;
70
71 if (does_have_attributes)
72 {
73 for (unsigned i=0; i<this->mNodes.size(); i++)
74 {
75 double radius;
76 radius = this->mNodes[i]->GetRadius();
77 archive & radius;
78
79 bool is_particle;
80 is_particle = this->mNodes[i]->IsParticle();
81 archive & is_particle;
82 }
83 }
84 }
85
92 template<class Archive>
93 void load(Archive & archive, const unsigned int version)
94 {
95 archive & boost::serialization::base_object<TetrahedralMesh<ELEMENT_DIM, SPACE_DIM> >(*this);
96
97 bool does_have_attributes;
98
99 archive & does_have_attributes;
100
101 if (does_have_attributes)
102 {
103 for (unsigned i=0; i<this->mNodes.size(); i++)
104 {
105 double radius;
106 archive & radius;
107 this->mNodes[i]->SetRadius(radius);
108
109 bool is_particle;
110 archive & is_particle;
111
112 if (is_particle)
113 {
114 this->mNodes[i]->SetIsParticle(true);
115 }
116 }
117 }
118
119 // If ELEMENT_DIM==SPACE_DIM do a remesh after archiving has finished to get right number of boundary nodes etc.
120 // NOTE - Subclasses must archive their member variables BEFORE calling this method.
121 if (ELEMENT_DIM == SPACE_DIM)
122 {
123 NodeMap map(this->GetNumNodes());
124 this->ReMesh(map);
125 assert(map.IsIdentityMap()); // Otherwise the mesh will get VERY confused.
126 }
127 }
128 BOOST_SERIALIZATION_SPLIT_MEMBER()
129
130protected:
131
136 std::vector<unsigned> mDeletedElementIndices;
137
142 std::vector<unsigned> mDeletedBoundaryElementIndices;
143
148 std::vector<unsigned> mDeletedNodeIndices;
149
152
153private:
154
163 bool CheckIsVoronoi(Element<ELEMENT_DIM, SPACE_DIM>* pElement, double maxPenetration);
164
165
166public:
167
171 MutableMesh();
172
181 MutableMesh(std::vector<Node<SPACE_DIM> *> nodes);
182
186 virtual ~MutableMesh();
187
191 void Clear();
192
196 unsigned GetNumNodes() const;
197
201 unsigned GetNumElements() const;
202
206 unsigned GetNumBoundaryElements() const;
207
209
216 void RescaleMeshFromBoundaryNode(ChastePoint<1> updatedPoint, unsigned boundaryNodeIndex);
217
226 virtual unsigned AddNode(Node<SPACE_DIM>* pNewNode);
227
234 unsigned AddElement(Element<ELEMENT_DIM,SPACE_DIM>* pNewElement);
235
244 virtual void SetNode(unsigned index, ChastePoint<SPACE_DIM> point, bool concreteMove=true);
245
255 void MoveMergeNode(unsigned index, unsigned targetIndex, bool concreteMove=true);
256
263 virtual void DeleteNode(unsigned index);
264
270 virtual void DeleteElement(unsigned index);
271
280 void DeleteNodePriorToReMesh(unsigned index);
281
289 unsigned RefineElement(Element<ELEMENT_DIM,SPACE_DIM>* pElement, ChastePoint<SPACE_DIM> point);
290
303 void DeleteBoundaryNodeAt(unsigned index);
304
311 void ReIndex(NodeMap& map);
312
313
319 virtual void ReMesh(NodeMap& map);
320
326 void ReMesh();
327
328
334 std::vector<c_vector<unsigned, 5> > SplitLongEdges(double cutoffLength);
335
343 c_vector<unsigned, 3> SplitEdge(Node<SPACE_DIM>* pNodeA, Node<SPACE_DIM>* pNodeB);
344
353 bool CheckIsVoronoi(double maxPenetration=0.0);
354};
355
356#include "SerializationExportWrapper.hpp"
358
359#endif /*MUTABLEMESH_HPP_*/
#define EXPORT_TEMPLATE_CLASS_ALL_DIMS(CLASS)
std::vector< Node< SPACE_DIM > * > mNodes
void save(Archive &archive, const unsigned int version) const
unsigned GetNumElements() const
bool CheckIsVoronoi(Element< ELEMENT_DIM, SPACE_DIM > *pElement, double maxPenetration)
c_vector< unsigned, 3 > SplitEdge(Node< SPACE_DIM > *pNodeA, Node< SPACE_DIM > *pNodeB)
void ReIndex(NodeMap &map)
unsigned AddElement(Element< ELEMENT_DIM, SPACE_DIM > *pNewElement)
unsigned GetNumNodes() const
void DeleteNodePriorToReMesh(unsigned index)
virtual void SetNode(unsigned index, ChastePoint< SPACE_DIM > point, bool concreteMove=true)
std::vector< unsigned > mDeletedBoundaryElementIndices
virtual void DeleteNode(unsigned index)
void RescaleMeshFromBoundaryNode(ChastePoint< 1 > updatedPoint, unsigned boundaryNodeIndex)
void DeleteBoundaryNodeAt(unsigned index)
std::vector< c_vector< unsigned, 5 > > SplitLongEdges(double cutoffLength)
unsigned RefineElement(Element< ELEMENT_DIM, SPACE_DIM > *pElement, ChastePoint< SPACE_DIM > point)
friend class boost::serialization::access
std::vector< unsigned > mDeletedElementIndices
unsigned GetNumBoundaryElements() const
void load(Archive &archive, const unsigned int version)
std::vector< unsigned > mDeletedNodeIndices
virtual unsigned AddNode(Node< SPACE_DIM > *pNewNode)
void MoveMergeNode(unsigned index, unsigned targetIndex, bool concreteMove=true)
virtual void DeleteElement(unsigned index)
bool IsIdentityMap()
Definition NodeMap.cpp:100
Definition Node.hpp:59