Chaste Commit::ca8ccdedf819b6e02855bc0e8e6f50bdecbc5208
CombinedOdeSystem.cpp
1/*
2
3Copyright (c) 2005-2024, University of Oxford.
4All rights reserved.
5
6University of Oxford means the Chancellor, Masters and Scholars of the
7University of Oxford, having an administrative office at Wellington
8Square, Oxford OX1 2JD, UK.
9
10This file is part of Chaste.
11
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
18 and/or other materials provided with the distribution.
19 * Neither the name of the University of Oxford nor the names of its
20 contributors may be used to endorse or promote products derived from this
21 software without specific prior written permission.
22
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
26ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE
27LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
28CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE
29GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
30HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
31LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT
32OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
33
34*/
35
36
37#include "CombinedOdeSystem.hpp"
38#include "CombinedOdeSystemInformation.hpp"
39
40CombinedOdeSystem::CombinedOdeSystem(std::vector<AbstractOdeSystem*> odeSystems)
41 : AbstractOdeSystem(0) // will be set properly below
42{
43 mOdeSystems = odeSystems;
44 for (unsigned i=0; i<odeSystems.size(); i++)
45 {
46 mNumberOfStateVariables += odeSystems[i]->GetNumberOfStateVariables();
47 }
50
51 // Set up working memory
52 unsigned num_systems = odeSystems.size();
53 mWorkingStateVars.resize(num_systems);
54 mWorkingDerivs.resize(num_systems);
55 unsigned offset = 0;
56 for (unsigned i=0; i<num_systems; i++)
57 {
58 unsigned num_vars = odeSystems[i]->GetNumberOfStateVariables();
59 mWorkingStateVars[i].resize(num_vars);
60 mWorkingDerivs[i].resize(num_vars);
61 mOffsets.push_back(offset);
62 offset += num_vars;
63 }
64}
65
66
68 const std::map<unsigned, unsigned>& rVariableParameterMap,
69 AbstractOdeSystem* pVariableOdeSystem,
70 AbstractOdeSystem* pParameterOdeSystem)
71{
72 struct VariableParameterMap new_map;
73 new_map.theMap = rVariableParameterMap;
74 unsigned var_system_index = 0;
75 while (var_system_index < mOdeSystems.size() && mOdeSystems[var_system_index] != pVariableOdeSystem)
76 {
77 ++var_system_index;
78 }
79 new_map.pVariableOdeSystemIndex = var_system_index;
80 new_map.pParameterOdeSystem = pParameterOdeSystem;
81 mVariableParameterMaps.push_back(new_map);
82}
83
84
86 double time,
87 const std::vector<double>& rY,
88 std::vector<double>& rDY)
89{
90 // Copy rY to subsystems
91 for (unsigned i=0; i<mOdeSystems.size(); i++)
92 {
93 unsigned offset = mOffsets[i];
94 for (unsigned j=0; j<mOdeSystems[i]->GetNumberOfStateVariables(); j++)
95 {
96 mWorkingStateVars[i][j] = rY[offset + j];
97 }
98 }
99
100 // Set parameter values
101 for (unsigned i=0; i<mVariableParameterMaps.size(); i++)
102 {
103 std::map<unsigned, unsigned>& r_var_param_map = mVariableParameterMaps[i].theMap;
104 // Iterate through map
105 for (std::map<unsigned, unsigned>::iterator iter = r_var_param_map.begin();
106 iter != r_var_param_map.end();
107 ++iter)
108 {
109 double value = mWorkingStateVars[mVariableParameterMaps[i].pVariableOdeSystemIndex][iter->first];
110 mVariableParameterMaps[i].pParameterOdeSystem->SetParameter(iter->second, value);
111 }
112 }
113
114 // Call EvaluateYDerivatives on subsystems
115 for (unsigned i=0; i<mOdeSystems.size(); i++)
116 {
117 mOdeSystems[i]->EvaluateYDerivatives(time, mWorkingStateVars[i], mWorkingDerivs[i]);
118 }
119
120 // Copy derivatives to rDY
121 for (unsigned i=0; i<mOdeSystems.size(); i++)
122 {
123 unsigned offset = mOffsets[i];
124 for (unsigned j=0; j<mOdeSystems[i]->GetNumberOfStateVariables(); j++)
125 {
126 rDY[offset + j] = mWorkingDerivs[i][j];
127 }
128 }
129}
void SetParameter(const std::string &rName, double value)
boost::shared_ptr< AbstractOdeSystemInformation > mpSystemInfo
static boost::shared_ptr< CombinedOdeSystemInformation > Instance(const std::vector< AbstractOdeSystem * > &rSubsystems)
std::vector< struct VariableParameterMap > mVariableParameterMaps
void EvaluateYDerivatives(double time, const std::vector< double > &rY, std::vector< double > &rDY)
std::vector< std::vector< double > > mWorkingDerivs
std::vector< AbstractOdeSystem * > mOdeSystems
std::vector< unsigned > mOffsets
CombinedOdeSystem(std::vector< AbstractOdeSystem * > odeSystems)
void Configure(const std::map< unsigned, unsigned > &rVariableParameterMap, AbstractOdeSystem *pVariableOdeSystem, AbstractOdeSystem *pParameterOdeSystem)
std::vector< std::vector< double > > mWorkingStateVars
std::map< unsigned, unsigned > theMap