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Copy pathUK_VBD_model2LoopOverParams.cpp
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UK_VBD_model2LoopOverParams.cpp
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//Farm model for UK
//Making it simpler by considering every vector as a random walker
//Putting in optimization techniques --- vector object of past days exposed vectors with a reserved size
//Each farm has explicit demography
#include <vector>
#include <map>
#include <list>
#include <time.h>
#include <iostream>
#include <string>
#include <sstream>
#include <stdlib.h>
#include <math.h>
#include <fstream>
#include <random>
#include <chrono>
#include <gsl/gsl_rng.h>
#include <gsl/gsl_randist.h>
#include <gsl/gsl_cdf.h>
#include "grids.h"
#include "Declarations.h"
#include "const_parameters.h"
#include "RandomFuncs.h"
#include "farm_defn.h"
#include "SetupFuncs.h"
#include "variable_parameters.h"
#include "SimulationFuncs.h"
#include "MidgeLifeAndDiffusion.h"
#include "TransportRisk.h"
#include "controls.h"
using namespace std;
int main(int argc, char **argv){
//GSL Random variable set up
gsl_rng_env_setup();
T = gsl_rng_default;
r = gsl_rng_alloc (T);
#ifdef NOFARMBAN //Placeholder values
BanRadius = -1;
#endif
#ifdef NOCONTROL //Placeholder values
BanRadius = -1;
PZRadius = 0;
SZRadius = 0;
#endif
DiffusionWarning();
for(int SuperRep = 1;SuperRep <=23;SuperRep++){
if(SuperRep <= 10){PZRadius = double(SuperRep*1000.0); SZRadius = 2*PZRadius;}
else{PZRadius = double(10000.0 + (SuperRep-10)*5000.0); SZRadius = 2*PZRadius;}
DefineOutputFileName(argv);
#ifdef PRINTOUTRESULTS
ofstream OutputOfSimulations(OutputFilename);
#endif
ReadInAllData();
for(int reps = 0; reps<NumOfReps ; reps++){
ResetEpidemic(r,reps);
cout<<"This is simulation number "<<reps + 1<<", PZ = "<<PZRadius<<endl;
while(SimulationDay < NumDays){
NumberOfCattleInfectedToday = 0;
NumberOfSheepInfectedToday = 0;
NumOfFarmsDetectedToday = 0;
SimulateEpidemicForOneDay(r);
if(NumOfFarmsDetectedToday == 0){DaysSinceLastDetection++;}
if(DaysSinceLastDetection == 90){CancelRestrictions();}
TotalFarmDaysMovementBanned += TotalNumberOfMovementBannedFarms();
TotalFarmDaysAffectedByControl += TotalNumberOfMovementBannedFarms() + TotalNumberOfPZFarms() + TotalNumberOfSZFarms();
#ifdef DAILYREADOUT
cout<<"On day "<<SimulationDay<<endl;
cout<<"Cattle incidence = "<<NumberOfCattleInfectedToday<<", Sheep incidence = "<<NumberOfSheepInfectedToday<<", detected farm incidence = "<<NumOfFarmsDetectedToday<<endl;
cout<<"S_C = "<<TotalNumberOfSusCattle()<<", I_C = "<<TotalNumberOfInfCattle()<<", R_C = "<<TotalNumberOfRecCattle()<<endl;
cout<<"S_S = "<<TotalNumberOfSusSheep()<<", I_S = "<<TotalNumberOfInfSheep()<<", R_S = "<<TotalNumberOfRecSheep()<<endl;
cout<<"Number of infected farms = "<<TotalNumberOfInfectedFarms()<<", number of affected farms = "<<TotalNumberOfAffectedFarms()<<endl;
cout<<"Total number of movement ban farm days = "<<TotalFarmDaysMovementBanned<<", total number of interupted movements = "<<InterruptedMovements<<", total number of sheep deaths = "<<NumOfSheepDeaths<< endl;
cout<<"BTV detected? "<<BTVObserved<<". Active surveillence performed? "<<ActiveSurveillancePerformed<<". Control zones set up ? "<<RestrictionZonesImplemented<<endl;
cout<<"Total number of PZ farms = "<<TotalNumberOfPZFarms()<<", total number of SZ farms = "<<TotalNumberOfSZFarms()<<endl;
cout<<"Number of farms actively checked = "<<NumberOfFarmsChecked<<", Number of ELISA tests sent in = "<<NumberOfTests<<", Number of pos. ELISA sent for PCR confirmation = "<<NumberOfPosTests<<endl;
#endif
//~ if(SimulationDay == StartDayOfYear + 1 && reps == 0){PrintSpatialEpidemicOutToFile();PrintInfMidgeGridOutToFile();}
//~ if(SimulationDay == 190&& reps == 0){PrintSpatialEpidemicOutToFile();PrintInfMidgeGridOutToFile();}
//~ if(SimulationDay == 240&& reps == 0){PrintSpatialEpidemicOutToFile();PrintInfMidgeGridOutToFile();}
//~ if(SimulationDay == 270&& reps == 0){PrintSpatialEpidemicOutToFile();PrintInfMidgeGridOutToFile();}
//~ if(SimulationDay == 300&& reps == 0){PrintSpatialEpidemicOutToFile();PrintInfMidgeGridOutToFile();}
//~ if(SimulationDay == 430&& reps == 0){PrintSpatialEpidemicOutToFile();PrintInfMidgeGridOutToFile();}
//~ if(SimulationDay == 500&& reps == 0){PrintSpatialEpidemicOutToFile();PrintInfMidgeGridOutToFile();}
//~ if(SimulationDay == 600&& reps == 0){PrintSpatialEpidemicOutToFile();PrintInfMidgeGridOutToFile();}
//~ if(SimulationDay == 700&& reps == 0){PrintSpatialEpidemicOutToFile();PrintInfMidgeGridOutToFile();}
}
//Read out Sim results
#ifdef PRINTOUTRESULTS
OutputOfSimulations<<StartDayOfYear<<", "<<OutbreakCounty<<", "<<BanRadius<<", "<<PZRadius<<", "<<SZRadius;
OutputOfSimulations<<", "<<TotalFarmDaysAffectedByControl<<", "<<TotalFarmDaysMovementBanned<<", "<<InterruptedMovements<<", "<<NumOfSheepDeaths<<", "<<TotalNumberOfInfCattle() + TotalNumberOfRecCattle()<<", "<<TotalNumberOfInfSheep() + TotalNumberOfRecSheep()<<", "<<TotalNumberOfAffectedFarms()<<", "<<NumberOfMovementTransmission;
OutputOfSimulations<<", "<<NumberOfFarmsChecked<<", "<<NumberOfTests<<", "<<NumberOfPosTests;
OutputOfSimulations<<", "<<DiffusionLengthScale<<", "<<PreferenceForSheep<<", "<<TransmissionScalar<<", "<<AttractPowScaler<<", "<<DiffMultScaler<<endl;
#endif
}
#ifdef PRINTOUTRESULTS
OutputOfSimulations.close();
#endif
}
DestroyFarmPopulation();
}