Chaste  Release::3.4
SimpleBathProblemSetup.hpp
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35 #ifndef SIMPLEBATHPROBLEMSETUP_HPP_
36 #define SIMPLEBATHPROBLEMSETUP_HPP_
37 
44 #include "AbstractCardiacCellFactory.hpp"
45 #include "SimpleStimulus.hpp"
46 #include "LuoRudy1991.hpp"
47 #include "HeartRegionCodes.hpp"
48 
53 template<unsigned DIM, class CELLTYPE=CellLuoRudy1991FromCellML>
55 {
56 private:
58  boost::shared_ptr<SimpleStimulus> mpStimulus;
60  c_vector<double,DIM> mStimulatedPoint;
61 
62 public:
69  BathCellFactory(double stimulusMagnitude, c_vector<double,DIM> stimulatedPoint)
71  mpStimulus(new SimpleStimulus(stimulusMagnitude, 0.5)),
72  mStimulatedPoint(stimulatedPoint)
73  {
74  }
75 
81  {
82  // paranoia - check this is really a tissue node
83  assert(HeartRegionCode::IsRegionTissue( pNode->GetRegion() ));
84 
85  // stimulate centre node normally..
86  bool is_centre;
87 
88  if (DIM==1)
89  {
90  is_centre = (fabs(pNode->GetPoint()[0]-mStimulatedPoint(0)) < 1e-6);
91  }
92  else if (DIM==2)
93  {
94  is_centre = ( (fabs(pNode->GetPoint()[0]-mStimulatedPoint(0)) < 1e-6)
95  && (fabs(pNode->GetPoint()[1]-mStimulatedPoint(1)) < 1e-6) );
96  }
97  else
98  {
99  is_centre = ( (fabs(pNode->GetPoint()[0]-mStimulatedPoint(0)) < 1e-6)
100  && (fabs(pNode->GetPoint()[1]-mStimulatedPoint(1)) < 1e-6)
101  && (fabs(pNode->GetPoint()[2]-mStimulatedPoint(2)) < 1e-6) );
102  }
103 
104  if (is_centre)
105  {
106  return new CELLTYPE(this->mpSolver, mpStimulus);
107  }
108  else
109  {
110  return new CELLTYPE(this->mpSolver, this->mpZeroStimulus);
111  }
112  }
113 };
114 
123 template<class MeshType>
124 void SetCircularTissueIn2dMesh(MeshType* pMesh,
125  double centreX, double centreY, double radius)
126 {
127  for (typename MeshType::ElementIterator it = pMesh->GetElementIteratorBegin();
128  it != pMesh->GetElementIteratorEnd();
129  ++it)
130  {
131  double x = it->CalculateCentroid()[0];
132  double y = it->CalculateCentroid()[1];
133  if ( (x-centreX)*(x-centreX) + (y-centreY)*(y-centreY) > radius*radius )
134  {
135  it->SetAttribute(HeartRegionCode::GetValidBathId());
136  }
137  }
138  pMesh->SetMeshHasChangedSinceLoading();
139 }
140 
150 template<class MeshType>
151 MeshType* Load2dMeshAndSetCircularTissue(const std::string& rMeshPath,
152  double centreX, double centreY, double radius)
153 {
154  TrianglesMeshReader<2,2> reader(rMeshPath);
155  MeshType* p_mesh = new MeshType;
156  p_mesh->ConstructFromMeshReader(reader);
157 
158  SetCircularTissueIn2dMesh(p_mesh, centreX, centreY, radius);
159 
160  return p_mesh;
161 }
162 
172 template<>
174  double centreX, double centreY, double radius)
175 {
176  TrianglesMeshReader<2,2> reader(rMeshPath);
177  // Force dumb partitioning so migration tests pass!
178  DistributedTetrahedralMesh<2,2>* p_mesh = new DistributedTetrahedralMesh<2,2>(DistributedTetrahedralMeshPartitionType::DUMB);
179  p_mesh->ConstructFromMeshReader(reader);
180 
181  SetCircularTissueIn2dMesh(p_mesh, centreX, centreY, radius);
182 
183  return p_mesh;
184 }
185 
186 #endif /*SIMPLEBATHPROBLEMSETUP_HPP_*/
AbstractCardiacCellInterface * CreateCardiacCellForTissueNode(Node< DIM > *pNode)
Definition: Node.hpp:58
MeshType * Load2dMeshAndSetCircularTissue(const std::string &rMeshPath, double centreX, double centreY, double radius)
boost::shared_ptr< ZeroStimulus > mpZeroStimulus
void SetCircularTissueIn2dMesh(MeshType *pMesh, double centreX, double centreY, double radius)
BathCellFactory(double stimulusMagnitude, c_vector< double, DIM > stimulatedPoint)
boost::shared_ptr< AbstractIvpOdeSolver > mpSolver
static HeartRegionType GetValidBathId()
virtual void ConstructFromMeshReader(AbstractMeshReader< ELEMENT_DIM, SPACE_DIM > &rMeshReader)
unsigned GetRegion() const
Definition: Node.cpp:378
c_vector< double, DIM > mStimulatedPoint
boost::shared_ptr< SimpleStimulus > mpStimulus
ChastePoint< SPACE_DIM > GetPoint() const
Definition: Node.cpp:134
static bool IsRegionTissue(HeartRegionType regionId)