Chaste Commit::ca8ccdedf819b6e02855bc0e8e6f50bdecbc5208
BuskeAdhesiveForce.cpp
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35
36#include "BuskeAdhesiveForce.hpp"
37
38template<unsigned DIM>
41 mAdhesionEnergyParameter(0.2) // Denoted by epsilon in Buske et al (2011) (doi:10.1371/journal.pcbi.1001045).
42{
43}
44
45template<unsigned DIM>
47{
48 return mAdhesionEnergyParameter;
49}
50
51template<unsigned DIM>
52void BuskeAdhesiveForce<DIM>::SetAdhesionEnergyParameter(double adhesionEnergyParameter)
53{
54 mAdhesionEnergyParameter = adhesionEnergyParameter;
55}
56
57template<unsigned DIM>
58c_vector<double, DIM> BuskeAdhesiveForce<DIM>::CalculateForceBetweenNodes(unsigned nodeAGlobalIndex,
59 unsigned nodeBGlobalIndex,
60 AbstractCellPopulation<DIM>& rCellPopulation)
61{
62 // This force class is defined for NodeBasedCellPopulations only
63 assert(dynamic_cast<NodeBasedCellPopulation<DIM>*>(&rCellPopulation) != nullptr);
64
65 // We should only ever calculate the force between two distinct nodes
66 assert(nodeAGlobalIndex != nodeBGlobalIndex);
67
68 Node<DIM>* p_node_a = rCellPopulation.GetNode(nodeAGlobalIndex);
69 Node<DIM>* p_node_b = rCellPopulation.GetNode(nodeBGlobalIndex);
70
71 // Get the node locations
72 const c_vector<double, DIM>& r_node_a_location = p_node_a->rGetLocation();
73 const c_vector<double, DIM>& r_node_b_location = p_node_b->rGetLocation();
74
75 // Get the unit vector parallel to the line joining the two nodes (assuming no periodicities etc.)
76 c_vector<double, DIM> unit_vector = r_node_b_location - r_node_a_location;
77
78 // Calculate the distance between the two nodes
79 double distance_between_nodes = norm_2(unit_vector);
80
81 // Account for any cutoff in the force law
82 if (this->mUseCutOffLength)
83 {
84 if (distance_between_nodes >= this->GetCutOffLength())
85 {
86 return zero_vector<double>(DIM);
87 }
88 }
89
90 // Assert that the nodes are a finite, non-zero distance apart
91 assert(distance_between_nodes > 0);
92 assert(!std::isnan(distance_between_nodes));
93
94 // Normalize the unit vector
95 unit_vector /= distance_between_nodes;
96
97 double radius_of_cell_one = p_node_a->GetRadius();
98 double radius_of_cell_two = p_node_b->GetRadius();
99
100 // Compute the force vector
101 c_vector<double, DIM> force_between_nodes = GetMagnitudeOfForce(distance_between_nodes,radius_of_cell_one,radius_of_cell_two) * unit_vector;
102
103 return force_between_nodes;
104}
105
106template<unsigned DIM>
107double BuskeAdhesiveForce<DIM>::GetMagnitudeOfForce(double distanceBetweenNodes, double radiusOfCellOne, double radiusOfCellTwo)
108{
109 double dWAdd = 0.0;
110
111 // If the cells are close enough...
112 if (distanceBetweenNodes < radiusOfCellOne + radiusOfCellTwo)
113 {
114 // ...calculate the force contribution from their adhesive interaction energy
115 double xij = 0.5*(radiusOfCellOne*radiusOfCellOne - radiusOfCellTwo*radiusOfCellTwo + distanceBetweenNodes*distanceBetweenNodes)/distanceBetweenNodes;
116 double dxijdd = 1.0 - xij/distanceBetweenNodes;
117 dWAdd = 2.0*mAdhesionEnergyParameter*M_PI*xij*dxijdd;
118 }
119
120 return dWAdd;
121}
122
123template<unsigned DIM>
125{
126 *rParamsFile << "\t\t\t<AdhesionEnergyParameter>" << mAdhesionEnergyParameter << "</AdhesionEnergyParameter>\n";
127
128 // Call method on direct parent class
130}
131
132// Explicit instantiation
133template class BuskeAdhesiveForce<1>;
134template class BuskeAdhesiveForce<2>;
135template class BuskeAdhesiveForce<3>;
136
137// Serialization for Boost >= 1.36
#define EXPORT_TEMPLATE_CLASS_SAME_DIMS(CLASS)
virtual Node< SPACE_DIM > * GetNode(unsigned index)=0
virtual void OutputForceParameters(out_stream &rParamsFile)
c_vector< double, DIM > CalculateForceBetweenNodes(unsigned nodeAGlobalIndex, unsigned nodeBGlobalIndex, AbstractCellPopulation< DIM > &rCellPopulation)
virtual void OutputForceParameters(out_stream &rParamsFile)
double GetMagnitudeOfForce(double distanceBetweenNodes, double radiusOfCellOne, double radiusOfCellTwo)
void SetAdhesionEnergyParameter(double adhesionEnergyParameter)
Definition Node.hpp:59
const c_vector< double, SPACE_DIM > & rGetLocation() const
Definition Node.cpp:139
double GetRadius()
Definition Node.cpp:248