Chaste Commit::ca8ccdedf819b6e02855bc0e8e6f50bdecbc5208
SloughingCellKiller.cpp
1/*
2
3Copyright (c) 2005-2024, University of Oxford.
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10This file is part of Chaste.
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34*/
35#include "SloughingCellKiller.hpp"
36#include "AbstractCentreBasedCellPopulation.hpp"
37#include "Exception.hpp"
38
39template<unsigned DIM>
40SloughingCellKiller<DIM>::SloughingCellKiller(AbstractCellPopulation<DIM>* pCrypt, double sloughHeight, bool sloughSides, double sloughWidth)
41 : AbstractCellKiller<DIM>(pCrypt),
42 mSloughSides(sloughSides)
43{
44 assert(sloughHeight > 0.0);
45 mSloughHeight = sloughHeight;
46
47 assert(sloughWidth > 0.0);
48 mSloughWidth = sloughWidth;
49}
50
51template<unsigned DIM>
53{
54 return mSloughSides;
55}
56
57template<unsigned DIM>
59{
60 return mSloughHeight;
61}
62
63template<unsigned DIM>
65{
66 return mSloughWidth;
67}
68
69template<unsigned DIM>
71{
72 switch (DIM)
73 {
74 case 1:
75 {
76 for (typename AbstractCellPopulation<DIM>::Iterator cell_iter = this->mpCellPopulation->Begin();
77 cell_iter != this->mpCellPopulation->End();
78 ++cell_iter)
79 {
80 double x = this->mpCellPopulation->GetLocationOfCellCentre(*cell_iter)[0];
81
82 if (x > mSloughHeight)
83 {
84 // Mark the cell as killed and store removal information if required.
85 this->mpCellPopulation->KillCell(*cell_iter, "SloughingCellKiller");
86 }
87 }
88 break;
89 }
90 case 2:
91 {
92 for (typename AbstractCellPopulation<DIM>::Iterator cell_iter = this->mpCellPopulation->Begin();
93 cell_iter != this->mpCellPopulation->End();
94 ++cell_iter)
95 {
96 c_vector<double, 2> location;
97 location = this->mpCellPopulation->GetLocationOfCellCentre(*cell_iter);
98 double x = location[0];
99 double y = location[1];
100
101 if ((y>mSloughHeight) || (mSloughSides && ((x<0.0) || (x>mSloughWidth))))
102 {
103 // Mark the cell as killed and store removal information if required.
104 this->mpCellPopulation->KillCell(*cell_iter, "SloughingCellKiller");
105 }
106 }
107 break;
108 }
109 case 3:
110 {
111 EXCEPTION("SloughingCellKiller is not yet implemented in 3D");
112 break;
113 }
114 default:
115 // This can't happen
117 }
118}
119
120template<unsigned DIM>
122{
123 *rParamsFile << "\t\t\t<SloughLength>" << mSloughHeight << "</SloughLength>\n";
124 *rParamsFile << "\t\t\t<SloughSides>" << mSloughSides << "</SloughSides>\n";
125 *rParamsFile << "\t\t\t<SloughWidth>" << mSloughWidth << "</SloughWidth>\n";
126
127 // Call method on direct parent class
129}
130
131// Explicit instantiation
132template class SloughingCellKiller<1>;
133template class SloughingCellKiller<2>;
134template class SloughingCellKiller<3>;
135
136// Serialization for Boost >= 1.36
#define EXCEPTION(message)
#define NEVER_REACHED
#define EXPORT_TEMPLATE_CLASS_SAME_DIMS(CLASS)
virtual void OutputCellKillerParameters(out_stream &rParamsFile)=0
virtual void CheckAndLabelCellsForApoptosisOrDeath()
SloughingCellKiller(AbstractCellPopulation< DIM > *pCrypt, double sloughHeight, bool sloughSides=false, double sloughWidth=10.0)
void OutputCellKillerParameters(out_stream &rParamsFile)