/*
 * @file malaria/Si.cpp
 *
 * This file is part of VLE, a framework for multi-modeling, simulation
 * and analysis of complex dynamical systems
 * http://www.vle-project.org
 *
 * Copyright (c) 2011 INRA http://www.inra.fr
 *
 * See the AUTHORS or Authors.txt file for copyright owners and contributors
 *
 * This program is free software: you can redistribute it and/or modify
 * it under the terms of the GNU General Public License as published by
 * the Free Software Foundation, either version 3 of the License, or
 * (at your option) any later version.
 *
 * This program is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 * GNU General Public License for more details.
 *
 * You should have received a copy of the GNU General Public License
 * along with this program.  If not, see <http://www.gnu.org/licenses/>.
 */

/* @@tagdepends: vle.extension.differential-equation @@endtagdepends
   @@tagdynamic@@ */

#include <vle/extension/DifferentialEquation.hpp>

#include <iostream>
#include <sstream>


namespace malariaspread  {

    namespace ved = vle::extension::differential_equation;

    class E1v :
        public ved::DifferentialEquation
    {
    public:
        E1v(const vle::devs::DynamicsInit& model,
           const vle::devs::InitEventList& events) :
            ved::DifferentialEquation(model,events)
        {
            
            f_1  = events.getDouble("f_1");; // = ???
            
	    omega_1  = events.getDouble("omega_1"); // = ???
            
            delta_V1  = events.getDouble("delta_V1");// = ???
            
            d1_V1  = events.getDouble("d1_V1"); // = ???

            V_1  = events.getDouble("V_1"); // = ???

            H_1  = events.getDouble("H_1"); // = ???
            
            _E1v = createVar("E1v");
            _S1v = createExt("S1v");
            _I1h = createExt("I1h");
           
             _T1 = createExt("Tmin");
            _Rh1 = createExt("Hmax");

           
            
        }

        virtual ~E1v()
        { }

        void compute(const vle::devs::Time& /* time */)
        {
            
            beta0 = 0.00113*_Rh1()*_Rh1()-0.158*_Rh1()-6.61; 
            beta1 = -2.32*pow(10,-4)*_Rh1()*_Rh1()+0.0515*_Rh1()+1.06;
            beta2 = 4*pow(10,-6)*_Rh1()*_Rh1()-1.09*pow(10,-3)*_Rh1()-0.0255;          
           
            ptrh1 = -log(exp(-1/(beta0+beta1*_T1()+beta2*_T1()*_T1())));    // mortality rate of the vector at temperature t1 and relative humidity rh1
                     
            //grad(_E1v) = f_1*omega_1*_S1v()*_I1h()/H_1 - delta_V1*_E1v() - ptrh1*_E1v() - d1_V1*_E1v();

             grad(_E1v) = f_1*omega_1*_S1v()*_I1h()/V_1 - delta_V1*_E1v() - ptrh1*_E1v();
        }

    private:
               
        //contact proportion between Susceptibles mosquitoes of the patch 1 and Infectious humans of the patch 1
        double omega_1;
        //average number of that contact per unit time for that patch 1
        double f_1;
        // transition rate from E -> I for the patch 1 of the vector population
        double delta_V1;
        // natural death rate of E in the vector population for the patch 1
        double d1_V1;        

        // size of vector population for the patch 1
        double V_1;

        double H_1;

          //coefficients for mortality rate
        double beta0;
        double beta1;
        double beta2;
        double ptrh1;
        
        
        Var _E1v;
        Ext _S1v;
        Ext _I1h;
        Ext _T1;
        Ext _Rh1;


      //  Ext _I21h;

 
        
        
    };

} // namespace malariaspread

DECLARE_DYNAMICS(malariaspread::E1v)