https://github.com/PublicHealthDynamicsLab/FRED
Revision a45e04ad99c865724a3c2b1a2d3fd979b3c6be88 authored by John Grefenstette on 07 January 2016, 16:32:02 UTC, committed by John Grefenstette on 07 January 2016, 16:32:02 UTC
1 parent 9bc2dce
Tip revision: a45e04ad99c865724a3c2b1a2d3fd979b3c6be88 authored by John Grefenstette on 07 January 2016, 16:32:02 UTC
working markov epidemic model
working markov epidemic model
Tip revision: a45e04a
Evolution.cc
/*
This file is part of the FRED system.
Copyright (c) 2010-2015, University of Pittsburgh, John Grefenstette,
Shawn Brown, Roni Rosenfield, Alona Fyshe, David Galloway, Nathan
Stone, Jay DePasse, Anuroop Sriram, and Donald Burke.
Licensed under the BSD 3-Clause license. See the file "LICENSE" for
more information.
*/
#include "Evolution.h"
#include "Global.h"
#include "Infection.h"
#include "Person.h"
#include <map>
using namespace std;
void Evolution :: setup(Disease *disease) {
this->disease = disease;
}
inline double Evolution::residual_immunity(Person *person, int challenge_strain, int day) {
return double( !( person->get_health()->is_susceptible( disease->get_id() ) ) );
}
void Evolution::print() {}
/*
Transmission::Loads * Evolution::get_primary_loads(int day) {
Transmission::Loads *loads = new Transmission::Loads;
loads->insert( pair<int, double> (1, 1) );
return loads;
}
Transmission::Loads * Evolution::get_primary_loads(int day, int strain) {
Transmission::Loads *loads = new Transmission::Loads;
loads->insert( pair<int, double> (strain, 1) );
return loads;
}
*/
double Evolution::antigenic_diversity(Person *p1, Person *p2) {
/*
Infection *inf1 = p1->get_health()->get_infection(disease->get_id());
Infection *inf2 = p2->get_health()->get_infection(disease->get_id());
if(!inf1 || !inf2) return 0;
vector<int> str1; inf1->get_strains(str1);
vector<int> str2; inf1->get_strains(str2);
// TODO how to handle multiple strains???
return antigenic_distance(str1.at(0), str2.at(0));
*/
return 0.0;
}
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