Chaste  Release::2018.1
VtkMeshWriter.hpp
1 /*
2 
3 Copyright (c) 2005-2018, University of Oxford.
4 All rights reserved.
5 
6 University of Oxford means the Chancellor, Masters and Scholars of the
7 University of Oxford, having an administrative office at Wellington
8 Square, Oxford OX1 2JD, UK.
9 
10 This file is part of Chaste.
11 
12 Redistribution and use in source and binary forms, with or without
13 modification, are permitted provided that the following conditions are met:
14  * Redistributions of source code must retain the above copyright notice,
15  this list of conditions and the following disclaimer.
16  * Redistributions in binary form must reproduce the above copyright notice,
17  this list of conditions and the following disclaimer in the documentation
18  and/or other materials provided with the distribution.
19  * Neither the name of the University of Oxford nor the names of its
20  contributors may be used to endorse or promote products derived from this
21  software without specific prior written permission.
22 
23 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
24 AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
25 IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
26 ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE
27 LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
28 CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE
29 GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
30 HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
31 LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT
32 OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
33 
34 */
35 
36 #ifndef VTKMESHWRITER_HPP_
37 #define VTKMESHWRITER_HPP_
38 
39 #ifdef CHASTE_VTK
40 //Requires "sudo aptitude install libvtk5-dev" or similar
41 #define _BACKWARD_BACKWARD_WARNING_H 1 //Cut out the strstream deprecated warning for now (gcc4.3)
42 #include <vtkDoubleArray.h>
43 #include <vtkCellData.h>
44 #include <vtkPointData.h>
45 #include <vtkTetra.h>
46 #include <vtkTriangle.h>
47 #include <vtkLine.h>
48 #include <vtkUnstructuredGrid.h>
49 #include <vtkUnstructuredGridWriter.h>
50 #include <vtkXMLUnstructuredGridWriter.h>
51 #include <vtkXMLPUnstructuredGridWriter.h>
52 
53 #include <vtkDataCompressor.h>
54 #include "AbstractTetrahedralMeshWriter.hpp"
55 #include "Version.hpp"
56 
57 
58 #include <map>
59 
60 // Forward declaration prevents circular include chain
61 template<unsigned SPACE_DIM>
62 class NodesOnlyMesh;
63 
70 template <unsigned ELEMENT_DIM, unsigned SPACE_DIM>
71 class VtkMeshWriter : public AbstractTetrahedralMeshWriter<ELEMENT_DIM, SPACE_DIM>
72 {
73 
74 //Requires "sudo aptitude install libvtk5-dev" or similar
75 
76 private:
79  std::map<unsigned, unsigned> mGlobalToNodeIndexMap;
81  std::vector<std::vector<unsigned> > mNodesToSendPerProcess;
82  std::vector<std::vector<unsigned> > mNodesToReceivePerProcess;
86 
93  vtkUnstructuredGrid* mpVtkUnstructedMesh;
94 
99  void MakeVtkMesh();
100 
108  void AugmentCellData();
109 
110 public:
111 
119  VtkMeshWriter(const std::string& rDirectory, const std::string& rBaseName, const bool& rCleanDirectory=true);
120 
124  void WriteFiles();
125 
126 
134  void AddCellData(std::string name, std::vector<double> data);
135 
143  void AddCellData(std::string name, std::vector<c_vector<double, SPACE_DIM> > data);
144 
153  void AddTensorCellData(std::string name, std::vector<c_vector<double,SPACE_DIM*(SPACE_DIM+1)/2> > data);
154 
162  void AddTensorCellData(std::string name, std::vector<c_matrix<double,SPACE_DIM,SPACE_DIM> > data);
163 
164 
172  void AddPointData(std::string name, std::vector<double> data);
173 
181  void AddPointData(std::string name, std::vector<c_vector<double, SPACE_DIM> > data);
182 
190  void AddTensorPointData(std::string name, std::vector<c_matrix<double,SPACE_DIM,SPACE_DIM> > data);
191 
199 
213  bool keepOriginalElementIndexing=true);
214 
220  void AddProvenance(std::string fileName);
221 
225  virtual ~VtkMeshWriter();
226 };
227 
228 #endif //CHASTE_VTK
229 
230 #endif /*VTKMESHWRITER_HPP_*/
vtkUnstructuredGrid * mpVtkUnstructedMesh
void SetParallelFiles(AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > &rMesh)
void AddCellData(std::string name, std::vector< double > data)
void AddProvenance(std::string fileName)
void AugmentCellData()
bool mWriteParallelFiles
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 AddTensorPointData(std::string name, std::vector< c_matrix< double, SPACE_DIM, SPACE_DIM > > data)
virtual ~VtkMeshWriter()
std::vector< std::vector< unsigned > > mNodesToReceivePerProcess
NodesOnlyMesh< SPACE_DIM > * mpNodesOnlyMesh
std::vector< std::vector< unsigned > > mNodesToSendPerProcess
std::map< unsigned, unsigned > mGlobalToNodeIndexMap
VtkMeshWriter(const std::string &rDirectory, const std::string &rBaseName, const bool &rCleanDirectory=true)
void AddPointData(std::string name, std::vector< double > data)