Chaste  Release::2018.1
AbstractCryptStatistics.cpp
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34 */
35 #include "AbstractCryptStatistics.hpp"
36 #include "CellPropertyRegistry.hpp"
37 #include "AbstractPhaseBasedCellCycleModel.hpp"
38 #include "CellLabel.hpp"
39 #include "WildTypeCellMutationState.hpp"
40 
42  : mrCrypt(rCrypt)
43 {
44 }
45 
47 {
48 }
49 
51 {
53  cell_iter != mrCrypt.End();
54  ++cell_iter)
55  {
56  if (static_cast <AbstractPhaseBasedCellCycleModel*>(cell_iter->GetCellCycleModel())->GetCurrentCellCyclePhase()== S_PHASE)
57  {
58  // This should only be done for wild type cells (at the moment anyway)
59  assert(cell_iter->GetMutationState()->IsType<WildTypeCellMutationState>());
60 
61  // Label this cell
62  if (!cell_iter->HasCellProperty<CellLabel>())
63  {
64  /*
65  * This method is usually called after mrCrypt has called CellPropertyRegistry::TakeOwnership().
66  * This means that were we to call CellPropertyRegistry::Instance() here when adding the CellLabel,
67  * we would be creating a new CellPropertyRegistry. In this case the CellLabel's cell count would
68  * be incorrect. We therefore access the CellLabel via mrCrypt.GetCellPropertyRegistry().
69  */
70  cell_iter->AddCellProperty(mrCrypt.GetCellPropertyRegistry()->Get<CellLabel>());
71  }
72  }
73  }
74 }
75 
77 {
79  cell_iter != mrCrypt.End();
80  ++cell_iter)
81  {
82  cell_iter->SetMutationState(mrCrypt.GetCellPropertyRegistry()->Get<WildTypeCellMutationState>());
83  cell_iter->RemoveCellProperty<CellLabel>();
84  }
85 }
86 
87 std::vector<bool> AbstractCryptStatistics::AreCryptSectionCellsLabelled(std::vector<CellPtr>& rCryptSection)
88 {
89  std::vector<bool> crypt_section_labelled(rCryptSection.size());
90 
91  for (unsigned vector_index=0; vector_index<rCryptSection.size(); vector_index++)
92  {
93  if (rCryptSection[vector_index]->HasCellProperty<CellLabel>())
94  {
95  crypt_section_labelled[vector_index] = true;
96  }
97  else
98  {
99  crypt_section_labelled[vector_index] = false;
100  }
101  }
102 
103  return crypt_section_labelled;
104 }
AbstractCryptStatistics(MeshBasedCellPopulation< 2 > &rCrypt)
boost::shared_ptr< CellPropertyRegistry > GetCellPropertyRegistry()
MeshBasedCellPopulation< 2 > & mrCrypt
std::vector< bool > AreCryptSectionCellsLabelled(std::vector< CellPtr > &rCryptSection)