Chaste Commit::ca8ccdedf819b6e02855bc0e8e6f50bdecbc5208
CellDeltaNotchWriter.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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9
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,
17 this list of conditions and the following disclaimer in the documentation
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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 "CellDeltaNotchWriter.hpp"
37#include "AbstractCellPopulation.hpp"
38
39template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
41 : AbstractCellWriter<ELEMENT_DIM, SPACE_DIM>("celldeltanotch.dat")
42{
43 this->mVtkCellDataName = "Cell delta";
44}
45
46template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
48{
49 double delta = pCell->GetCellData()->GetItem("delta");
50 return delta;
51}
52
53template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
55{
56 // Output the location index corresponding to this cell
57 unsigned location_index = pCellPopulation->GetLocationIndexUsingCell(pCell);
58 *this->mpOutStream << location_index << " ";
59
60 // Output this cell's ID
61 unsigned cell_id = pCell->GetCellId();
62 *this->mpOutStream << cell_id << " ";
63
64 // Output the position of this cell's centre
65 c_vector<double, SPACE_DIM> centre_location = pCellPopulation->GetLocationOfCellCentre(pCell);
66 for (unsigned i=0; i<SPACE_DIM; i++)
67 {
68 *this->mpOutStream << centre_location[i] << " ";
69 }
70
71 // Output this cell's level of delta
72 double delta = pCell->GetCellData()->GetItem("delta");
73 *this->mpOutStream << delta << " ";
74
75 // Output this cell's level of notch
76 double notch = pCell->GetCellData()->GetItem("notch");
77 *this->mpOutStream << notch << " ";
78
79 // Output the mean level of delta among this cell's neighbours
80 double mean_delta = pCell->GetCellData()->GetItem("mean delta");
81 *this->mpOutStream << mean_delta << " ";
82}
83
84// Explicit instantiation
85template class CellDeltaNotchWriter<1,1>;
86template class CellDeltaNotchWriter<1,2>;
87template class CellDeltaNotchWriter<2,2>;
88template class CellDeltaNotchWriter<1,3>;
89template class CellDeltaNotchWriter<2,3>;
90template class CellDeltaNotchWriter<3,3>;
91
93// 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)
virtual void VisitCell(CellPtr pCell, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)
double GetCellDataForVtkOutput(CellPtr pCell, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)