Chaste  Build::
GreensFunctionSolver.hpp
1 /*
2 
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34  */
35 
36 #ifndef GREENSFUNCTIONSOLVER_HPP_
37 #define GREENSFUNCTIONSOLVER_HPP_
38 
39 #include <vector>
40 #include <string>
41 #include <map>
42 #include <boost/multi_array.hpp>
43 #include "ChastePoint.hpp"
44 #include "SmartPointers.hpp"
45 #include "VesselSegment.hpp"
46 #include "Part.hpp"
47 #include "AbstractRegularGridDiscreteContinuumSolver.hpp"
48 #include "UnitCollection.hpp"
49 
61 template<unsigned DIM>
63 {
67  boost::shared_ptr<Part<DIM> > mpDomain;
68 
72  std::vector<DimensionalChastePoint<DIM> > mSinkCoordinates;
73 
77  std::vector<unsigned> mSinkPointMap;
78 
82  std::vector<DimensionalChastePoint<DIM> > mSubSegmentCoordinates;
83 
87  std::vector<units::quantity<unit::length> > mSubSegmentLengths;
88 
92  std::vector<units::quantity<unit::molar_flow_rate> > mSinkRates;
93 
97  std::vector<units::quantity<unit::molar_flow_rate> > mSourceRates;
98 
102  std::vector<units::quantity<unit::concentration> > mSegmentConcentration;
103 
107  std::map<unsigned, boost::shared_ptr<VesselSegment<DIM> > > mSegmentPointMap;
108 
112  boost::shared_ptr<boost::multi_array<units::quantity<unit::per_length> , 2> > mGtt;
113 
117  boost::shared_ptr<boost::multi_array<units::quantity<unit::per_length> , 2> > mGvv;
118 
122  boost::shared_ptr<boost::multi_array<units::quantity<unit::per_length> , 2> > mGvt;
123 
127  boost::shared_ptr<boost::multi_array<units::quantity<unit::per_length> , 2> > mGtv;
128 
132  units::quantity<unit::length> mSubsegmentCutoff;
133 
134 public:
135 
140 
145 
150  void SetSubSegmentCutoff(units::quantity<unit::length> value);
151 
155  void Solve();
156 
157 private:
158 
162  void GenerateSubSegments();
163 
167  void GenerateTissuePoints();
168 
176  void UpdateGreensFunctionMatrices(bool updateGtt = 0, bool updateGvv = 0, bool updateGtv = 0, bool updateGvt = 0);
177 
182  boost::shared_ptr<boost::multi_array<units::quantity<unit::per_length>, 2> > GetVesselVesselInteractionMatrix();
183 
188  boost::shared_ptr<boost::multi_array<units::quantity<unit::per_length>, 2> > GetTissueTissueInteractionMatrix();
189 
194  boost::shared_ptr<boost::multi_array<units::quantity<unit::per_length>, 2> > GetTissueVesselInteractionMatrix();
195 
200  boost::shared_ptr<boost::multi_array<units::quantity<unit::per_length>, 2> > GetVesselTissueInteractionMatrix();
201 
206  void WriteSolution(std::map<std::string, std::vector<units::quantity<unit::concentration> > >& segmentPointData);
207 };
208 
209 #endif /* GREENSFUNCTIONSOLVER_HPP_ */
boost::shared_ptr< boost::multi_array< units::quantity< unit::per_length >, 2 > > mGtt
std::vector< units::quantity< unit::length > > mSubSegmentLengths
std::vector< units::quantity< unit::molar_flow_rate > > mSourceRates
units::quantity< unit::length > mSubsegmentCutoff
void SetSubSegmentCutoff(units::quantity< unit::length > value)
std::vector< DimensionalChastePoint< DIM > > mSubSegmentCoordinates
boost::shared_ptr< boost::multi_array< units::quantity< unit::per_length >, 2 > > GetTissueVesselInteractionMatrix()
boost::shared_ptr< boost::multi_array< units::quantity< unit::per_length >, 2 > > mGvt
std::vector< units::quantity< unit::concentration > > mSegmentConcentration
std::vector< units::quantity< unit::molar_flow_rate > > mSinkRates
std::map< unsigned, boost::shared_ptr< VesselSegment< DIM > > > mSegmentPointMap
std::vector< DimensionalChastePoint< DIM > > mSinkCoordinates
boost::shared_ptr< boost::multi_array< units::quantity< unit::per_length >, 2 > > mGtv
boost::shared_ptr< boost::multi_array< units::quantity< unit::per_length >, 2 > > mGvv
boost::shared_ptr< Part< DIM > > mpDomain
void UpdateGreensFunctionMatrices(bool updateGtt=0, bool updateGvv=0, bool updateGtv=0, bool updateGvt=0)
boost::shared_ptr< boost::multi_array< units::quantity< unit::per_length >, 2 > > GetVesselVesselInteractionMatrix()
boost::shared_ptr< boost::multi_array< units::quantity< unit::per_length >, 2 > > GetVesselTissueInteractionMatrix()
boost::shared_ptr< boost::multi_array< units::quantity< unit::per_length >, 2 > > GetTissueTissueInteractionMatrix()
void WriteSolution(std::map< std::string, std::vector< units::quantity< unit::concentration > > > &segmentPointData)
std::vector< unsigned > mSinkPointMap