/*
 * This code is generated by BioUML FrameWork 
 * for BIOMD0000000092.xml diagram  at 2008.03.20 15:08:28
 */
import biouml.plugins.simulation.ae.NewtonSolver;
import biouml.plugins.simulation.java.JavaBaseModel;
import ru.biosoft.math.MathRoutines;

public class BIOMD0000000092 extends JavaBaseModel
{

/*
 * Write rules to calculate equation parameters
 */


/*
 * Write rules to calculate equation parameters excluding internal variables.
 */
    public void __internalRateVarInitFunc_0(double time, double[] x)
    {
        rate_v1 = compartment*v1_k1*x[2];
        rate_v2 = compartment*(v2_k21*x[0]*x[2] - v2_k22*x[3]);
        rate_v3 = compartment*v3_k3*x[3];
    }

    public void Init()
    {
        initialValues = getInitialValues();
/*
 * Initialize variables
 */
        compartment = 1.0; // initial value of $compartment
        v1_k1 = 0.0040; // initial value of v1_k1
        v2_k21 = 1000.0; // initial value of v2_k21
        v2_k22 = 2.1E-4; // initial value of v2_k22
        v3_k3 = 5.4E-4; // initial value of v3_k3
    }

    /*
     * Model variables initial values
     */
    protected double rate_v1;
    protected double rate_v2;
    protected double rate_v3;
    protected double compartment;
    protected double v1_k1;
    protected double v2_k21;
    protected double v2_k22;
    protected double v3_k3;

    public double[] extendResult(double time,double [] x)
    {
        this.time = time;


        double[] y = new double[4];
        y[0] = x[0];
        y[1] = x[1];
        y[2] = x[2];
        y[3] = x[3];
        return y;
    }
    public double[] getInitialValues()
    {
        double [] x = new double[4];
        this.time = 0.0;
        x[0] = 0.0; // - $"compartment.e"
        x[1] = 0.0; // - $"compartment.w"
        x[2] = 2.4E-5; // - $"compartment.z"
        x[3] = 0.0; // - $compartment.ez

        __internalRateVarInitFunc_0(time, x);

        return x;
    }

/*
 * code for algebraic rules calculations
 */

/*
 * end of code for algebraic rules calculations
 */

    protected void calculateRates(double time, double[] x)
    {

        __internalRateVarInitFunc_0(time, x);

    }

        /*
         * calculate dy/dt for 'BIOMD0000000092.xml' model
         */
    public void __internalDyDt_0(double time, double [] x, double[] result)
    {
        result[0] = +rate_v1-rate_v2+rate_v3*2;
        result[1] = +rate_v1+rate_v3;
        result[2] = -rate_v1-rate_v2;
        result[3] = +rate_v2-rate_v3;
    }
    protected double [] calculateResult(double time, double[] x)
    {
        double[] result = new double[4];
        __internalDyDt_0(time, x, result);
        return result;
    }
    public double[] dy_dt(double time, double[] x)
    {
        this.time = time;
        calculateRates( time,x );

        return calculateResult( time,x );
    }

} // class ...