Chaste Commit::baa90ac2819b962188b7562f2326be23c47859a7
VtkMeshWriter.hpp
1/*
2
3Copyright (c) 2005-2024, University of Oxford.
4All rights reserved.
5
6University of Oxford means the Chancellor, Masters and Scholars of the
7University of Oxford, having an administrative office at Wellington
8Square, Oxford OX1 2JD, UK.
9
10This file is part of Chaste.
11
12Redistribution and use in source and binary forms, with or without
13modification, 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
23THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
24AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
25IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
26ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE
27LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
28CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE
29GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
30HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
31LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT
32OF 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
61template<unsigned SPACE_DIM>
62class NodesOnlyMesh;
63
70template <unsigned ELEMENT_DIM, unsigned SPACE_DIM>
71class VtkMeshWriter : public AbstractTetrahedralMeshWriter<ELEMENT_DIM, SPACE_DIM>
72{
73
74//Requires "sudo aptitude install libvtk5-dev" or similar
75
76private:
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
110public:
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_*/
void AddPointData(std::string name, std::vector< double > data)
std::vector< std::vector< unsigned > > mNodesToSendPerProcess
void SetParallelFiles(AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > &rMesh)
void AddTensorPointData(std::string name, std::vector< c_matrix< double, SPACE_DIM, SPACE_DIM > > data)
std::map< unsigned, unsigned > mGlobalToNodeIndexMap
void AddProvenance(std::string fileName)
void AddTensorCellData(std::string name, std::vector< c_vector< double, SPACE_DIM *(SPACE_DIM+1)/2 > > data)
void AddCellData(std::string name, std::vector< double > data)
std::vector< std::vector< unsigned > > mNodesToReceivePerProcess
void WriteFilesUsingMesh(AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > &rMesh, bool keepOriginalElementIndexing=true)
vtkUnstructuredGrid * mpVtkUnstructedMesh
NodesOnlyMesh< SPACE_DIM > * mpNodesOnlyMesh
virtual ~VtkMeshWriter()