Chaste  Release::2018.1
VtkNonlinearElasticitySolutionWriter.cpp
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35 
36 #include "VtkNonlinearElasticitySolutionWriter.hpp"
37 #include "VtkMeshWriter.hpp"
38 
39 template<unsigned DIM>
41 {
42  if (mpSolver->mOutputDirectory=="")
43  {
44  EXCEPTION("No output directory was given to the mechanics solver");
45  }
46 
47 #ifdef CHASTE_VTK
48  VtkMeshWriter<DIM, DIM> mesh_writer(mpSolver->mOutputDirectory + "/vtk", "solution", true);
49 
50  // write the displacement
51  std::vector<c_vector<double,DIM> > displacement(mpSolver->mrQuadMesh.GetNumNodes());
52  std::vector<c_vector<double,DIM> >& r_spatial_solution = mpSolver->rGetSpatialSolution();
53  for (unsigned i=0; i<mpSolver->mrQuadMesh.GetNumNodes(); i++)
54  {
55  for (unsigned j=0; j<DIM; j++)
56  {
57  displacement[i](j) = r_spatial_solution[i](j)- mpSolver->mrQuadMesh.GetNode(i)->rGetLocation()[j];
58  }
59  }
60  mesh_writer.AddPointData("Displacement", displacement);
61 
62  // write pressures
63  if (mpSolver->mCompressibilityType==INCOMPRESSIBLE)
64  {
65  mesh_writer.AddPointData("Pressure", mpSolver->rGetPressures());
66  }
67 
68  // write the element attribute as cell data.
69  std::vector<double> element_attribute;
70  for (typename QuadraticMesh<DIM>::ElementIterator iter = mpSolver->mrQuadMesh.GetElementIteratorBegin();
71  iter != mpSolver->mrQuadMesh.GetElementIteratorEnd();
72  ++iter)
73  {
74  element_attribute.push_back(iter->GetAttribute());
75  }
76  mesh_writer.AddCellData("Attribute", element_attribute);
77 
78  // write strains if requested
79  if (mWriteElementWiseStrains)
80  {
81  mTensorData.clear();
82  mTensorData.resize(mpSolver->mrQuadMesh.GetNumElements());
83 
84  std::string name;
85  switch(mElementWiseStrainType)
86  {
87  case DEFORMATION_GRADIENT_F:
88  {
89  name = "deformation_gradient_F";
90  break;
91  }
92  case DEFORMATION_TENSOR_C:
93  {
94  name = "deformation_tensor_C";
95  break;
96  }
97  case LAGRANGE_STRAIN_E:
98  {
99  name = "Lagrange_strain_E";
100  break;
101  }
102  default:
103  {
105  }
106  }
107 
108  for (typename AbstractTetrahedralMesh<DIM,DIM>::ElementIterator iter = mpSolver->mrQuadMesh.GetElementIteratorBegin();
109  iter != mpSolver->mrQuadMesh.GetElementIteratorEnd();
110  ++iter)
111  {
112  mpSolver->GetElementCentroidStrain(mElementWiseStrainType, *iter, mTensorData[iter->GetIndex()]);
113  }
114 
115  mesh_writer.AddTensorCellData(name, mTensorData);
116  }
118 // if (mWriteNodeWiseStresses)
119 // {
120 // std::vector<c_matrix<double,DIM,DIM> > tensor_data;
121 // // use recoverer
122 // mesh_writer.AddTensorCellData("Stress_NAME_ME", tensor_data);
123 // }
124 
125  // final write
126  mesh_writer.WriteFilesUsingMesh(mpSolver->mrQuadMesh);
127 #endif // CHASTE_VTK
128 }
129 
130 // Explicit instantiation
ElementIterator GetElementIteratorBegin(bool skipDeletedElements=true)
#define EXCEPTION(message)
Definition: Exception.hpp:143
void AddCellData(std::string name, std::vector< double > data)
#define NEVER_REACHED
Definition: Exception.hpp:206
void WriteFilesUsingMesh(AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > &rMesh, bool keepOriginalElementIndexing=true)
void AddTensorCellData(std::string name, std::vector< c_vector< double, SPACE_DIM *(SPACE_DIM+1)/2 > > data)
void AddPointData(std::string name, std::vector< double > data)