Chaste Commit::ca8ccdedf819b6e02855bc0e8e6f50bdecbc5208
AbstractTargetAreaModifier.cpp
1/*
2
3Copyright (c) 2005-2024, University of Oxford.
4All rights reserved.
5
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7University of Oxford, having an administrative office at Wellington
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10This file is part of Chaste.
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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,
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19 * Neither the name of the University of Oxford nor the names of its
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21 software without specific prior written permission.
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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
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33
34*/
35
36#include "AbstractTargetAreaModifier.hpp"
37
38template<unsigned DIM>
44
45template<unsigned DIM>
49
50template<unsigned DIM>
52{
53 UpdateTargetAreas(rCellPopulation);
54}
55
56template<unsigned DIM>
57void AbstractTargetAreaModifier<DIM>::SetupSolve(AbstractCellPopulation<DIM,DIM>& rCellPopulation, std::string outputDirectory)
58{
59 /*
60 * We must update CellData in SetupSolve(), otherwise it will not have been
61 * fully initialised by the time we enter the main time loop.
62 */
63 UpdateTargetAreas(rCellPopulation);
64}
65
66template<unsigned DIM>
68{
69 // Loop over the list of cells, rather than using the population iterator, so as to include dead cells
70 for (std::list<CellPtr>::iterator cell_iter = rCellPopulation.rGetCells().begin();
71 cell_iter != rCellPopulation.rGetCells().end();
72 ++cell_iter)
73 {
74 UpdateTargetAreaOfCell(*cell_iter);
75 }
76}
77
78template<unsigned DIM>
80{
81 return mReferenceTargetArea;
82}
83
84template<unsigned DIM>
86{
87 assert(referenceTargetArea >= 0.0);
88 mReferenceTargetArea = referenceTargetArea;
89}
90
91template<unsigned DIM>
93{
94 *rParamsFile << "\t\t\t<ReferenceTargetArea>" << mReferenceTargetArea << "</ReferenceTargetArea>\n";
95
96 // Next, call method on direct parent class
98}
99
100// Explicit instantiation
101template class AbstractTargetAreaModifier<1>;
102template class AbstractTargetAreaModifier<2>;
103template class AbstractTargetAreaModifier<3>;
virtual void OutputSimulationModifierParameters(out_stream &rParamsFile)=0
std::list< CellPtr > & rGetCells()
void SetReferenceTargetArea(double referenceTargetArea)
virtual void OutputSimulationModifierParameters(out_stream &rParamsFile)
void UpdateTargetAreas(AbstractCellPopulation< DIM, DIM > &rCellPopulation)
virtual void UpdateAtEndOfTimeStep(AbstractCellPopulation< DIM, DIM > &rCellPopulation)
virtual void SetupSolve(AbstractCellPopulation< DIM, DIM > &rCellPopulation, std::string outputDirectory)