Chaste Commit::ca8ccdedf819b6e02855bc0e8e6f50bdecbc5208
CellDataItemWriter.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
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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 "CellDataItemWriter.hpp"
37#include "AbstractCellPopulation.hpp"
38
39template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
41 : AbstractCellWriter<ELEMENT_DIM, SPACE_DIM>("celldata_"+cellDataVariableName+".dat"),
42 mCellDataVariableName(cellDataVariableName)
43{
44 this->mVtkCellDataName = "CellData " + mCellDataVariableName;
45}
46
47template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
49{
50 double value = pCell->GetCellData()->GetItem(mCellDataVariableName);
51 return value;
52}
53
54template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
56{
57 // Output the location index corresponding to this cell
58 unsigned location_index = pCellPopulation->GetLocationIndexUsingCell(pCell);
59 *this->mpOutStream << location_index << " ";
60
61 // Output this cell's ID
62 unsigned cell_id = pCell->GetCellId();
63 *this->mpOutStream << cell_id << " ";
64
65 // Output the position of this cell's centre
66 c_vector<double, SPACE_DIM> centre_location = pCellPopulation->GetLocationOfCellCentre(pCell);
67 for (unsigned i=0; i<SPACE_DIM; i++)
68 {
69 *this->mpOutStream << centre_location[i] << " ";
70 }
71
72 // Output this cell's level of mCellDataVariableName
73 double value = pCell->GetCellData()->GetItem(mCellDataVariableName);
74 *this->mpOutStream << value << " ";
75}
76
77template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
79{
80 return mCellDataVariableName;
81}
82
83// Explicit instantiation
84template class CellDataItemWriter<1,1>;
85template class CellDataItemWriter<1,2>;
86template class CellDataItemWriter<2,2>;
87template class CellDataItemWriter<1,3>;
88template class CellDataItemWriter<2,3>;
89template class CellDataItemWriter<3,3>;
90
92// Declare identifier for the serializer
#define EXPORT_TEMPLATE_CLASS_ALL_DIMS(CLASS)
virtual c_vector< double, SPACE_DIM > GetLocationOfCellCentre(CellPtr pCell)=0
unsigned GetLocationIndexUsingCell(CellPtr pCell)
std::string GetCellDataVariableName() const
double GetCellDataForVtkOutput(CellPtr pCell, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)
CellDataItemWriter(std::string cellDataVariableName="")
virtual void VisitCell(CellPtr pCell, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)
std::string mCellDataVariableName