Chaste Commit::baa90ac2819b962188b7562f2326be23c47859a7
VoronoiDataWriter.cpp
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#include "VoronoiDataWriter.hpp"
37#include "AbstractCellPopulation.hpp"
38#include "MeshBasedCellPopulation.hpp"
39#include "CaBasedCellPopulation.hpp"
40#include "NodeBasedCellPopulation.hpp"
41#include "PottsBasedCellPopulation.hpp"
42#include "VertexBasedCellPopulation.hpp"
43#include "ImmersedBoundaryCellPopulation.hpp"
44
45template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
50
51template <unsigned ELEMENT_DIM, unsigned SPACE_DIM>
53 [[maybe_unused]] MeshBasedCellPopulation<ELEMENT_DIM, SPACE_DIM>* pCellPopulation) // [[maybe_unused]] due to unused-but-set-parameter warning in GCC 7,8,9
54{
55 if constexpr ((SPACE_DIM == 2) || (SPACE_DIM == 3))
56 {
57 VertexMesh<ELEMENT_DIM,SPACE_DIM>* voronoi_tesselation = pCellPopulation->GetVoronoiTessellation();
58
59 // Loop over elements of voronoi_tesselation
60 for (typename VertexMesh<ELEMENT_DIM,SPACE_DIM>::VertexElementIterator elem_iter = voronoi_tesselation->GetElementIteratorBegin();
61 elem_iter != voronoi_tesselation->GetElementIteratorEnd();
62 ++elem_iter)
63 {
64 // Get index of this element in voronoi_tesselation
65 unsigned elem_index = elem_iter->GetIndex();
66
67 // Get the index of the corresponding node in mrMesh
68 unsigned node_index = voronoi_tesselation->GetDelaunayNodeIndexCorrespondingToVoronoiElementIndex(elem_index);
69
70 // Write node index and location to file
71 *this->mpOutStream << node_index << " ";
72 c_vector<double, SPACE_DIM> node_location = pCellPopulation->GetNode(node_index)->rGetLocation();
73 for (unsigned i=0; i<SPACE_DIM; i++)
74 {
75 *this->mpOutStream << node_location[i] << " ";
76 }
77
78 double cell_volume = voronoi_tesselation->GetVolumeOfElement(elem_index);
79 double cell_surface_area = voronoi_tesselation->GetSurfaceAreaOfElement(elem_index);
80 *this->mpOutStream << cell_volume << " " << cell_surface_area << " ";
81 }
82 }
83 else
84 {
86 }
87}
88
89template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
91{
92 EXCEPTION("VoronoiDataWriter cannot be used with a CaBasedCellPopulation");
93}
94
95template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
97{
98 EXCEPTION("VoronoiDataWriter cannot be used with a NodeBasedCellPopulation");
99}
100
101template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
103{
104 EXCEPTION("VoronoiDataWriter cannot be used with a PottsBasedCellPopulation");
105}
106
107template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
109{
110 EXCEPTION("VoronoiDataWriter cannot be used with a VertexBasedCellPopulation");
111}
112
113template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
115{
116 EXCEPTION("VoronoiDataWriter cannot be used with a ImmersedBoundaryCellPopulation");
117}
118
119// Explicit instantiation
120template class VoronoiDataWriter<1,1>;
121template class VoronoiDataWriter<1,2>;
122template class VoronoiDataWriter<2,2>;
123template class VoronoiDataWriter<1,3>;
124template class VoronoiDataWriter<2,3>;
125template class VoronoiDataWriter<3,3>;
126
128// Declare identifier for the serializer
#define EXCEPTION(message)
#define NEVER_REACHED
#define EXPORT_TEMPLATE_CLASS_ALL_DIMS(CLASS)
VertexElementIterator GetElementIteratorEnd()
virtual double GetSurfaceAreaOfElement(unsigned index)
VertexElementIterator GetElementIteratorBegin(bool skipDeletedElements=true)
unsigned GetDelaunayNodeIndexCorrespondingToVoronoiElementIndex(unsigned elementIndex)
virtual double GetVolumeOfElement(unsigned index)
virtual void Visit(MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)