/*
   There are a total of 3 entries in the algebraic variable array.
   There are a total of 4 entries in each of the rate and state variable arrays.
   There are a total of 9 entries in the constant variable array.
 */
/*
 * VOI is time in component environment (day).
 * STATES[0] is x in component x (per_mm3).
 * CONSTANTS[0] is lamda in component x (per_mm3_per_day).
 * CONSTANTS[1] is d in component x (per_day).
 * CONSTANTS[2] is beta in component kinetic_parameters (mm3_per_day).
 * ALGEBRAIC[2] is s in component kinetic_parameters (dimensionless).
 * STATES[1] is y in component y (per_mm3).
 * CONSTANTS[3] is a in component y (per_day).
 * CONSTANTS[4] is p in component kinetic_parameters (mm3_per_day).
 * STATES[2] is z in component z (per_mm3).
 * ALGEBRAIC[0] is log_y in component y (dimensionless).
 * STATES[3] is w in component w (per_mm3).
 * CONSTANTS[5] is b in component w (per_day).
 * CONSTANTS[6] is c in component kinetic_parameters (mm3_mm3_per_day).
 * CONSTANTS[7] is q in component kinetic_parameters (per_mm3).
 * ALGEBRAIC[1] is log_w in component w (dimensionless).
 * CONSTANTS[8] is h in component z (per_day).
 * RATES[0] is d/dt x in component x (per_mm3).
 * RATES[1] is d/dt y in component y (per_mm3).
 * RATES[3] is d/dt w in component w (per_mm3).
 * RATES[2] is d/dt z in component z (per_mm3).
 * There are a total of 2 condition variables.
 */
void
initConsts(double* CONSTANTS, double* RATES, double *STATES)
{
STATES[0] = 10;
CONSTANTS[0] = 1;
CONSTANTS[1] = 0.1;
CONSTANTS[2] = 0.5;
STATES[1] = 0.1;
CONSTANTS[3] = 0.2;
CONSTANTS[4] = 1;
STATES[2] = 0;
STATES[3] = 0.001;
CONSTANTS[5] = 0.01;
CONSTANTS[6] = 0.1;
CONSTANTS[7] = 0.5;
CONSTANTS[8] = 0.1;
RATES[0] = 0.1001;
RATES[1] = 0.1001;
RATES[3] = 0.1001;
RATES[2] = 0.1001;
}
void
computeResiduals(double VOI, double* CONSTANTS, double* RATES, double* OLDRATES, double* STATES,
                 double* OLDSTATES, double* ALGEBRAIC, double* CONDVARS)
{
resid[0] = RATES[0] - CONSTANTS[0] - ( CONSTANTS[1]*STATES[0]+ ALGEBRAIC[2]*CONSTANTS[2]*STATES[0]*STATES[1]);
resid[1] = RATES[1] -  ALGEBRAIC[2]*CONSTANTS[2]*STATES[0]*STATES[1] - ( CONSTANTS[3]*STATES[1]+ CONSTANTS[4]*STATES[1]*STATES[2]);
resid[2] = RATES[3] -  CONSTANTS[6]*STATES[0]*STATES[1]*STATES[3] - ( CONSTANTS[6]*CONSTANTS[7]*STATES[1]*STATES[3]+ CONSTANTS[5]*STATES[3]);
resid[3] = RATES[2] -  CONSTANTS[6]*CONSTANTS[7]*STATES[1]*STATES[3] -  CONSTANTS[8]*STATES[2];
}
void
computeVariables(double VOI, double* CONSTANTS, double* RATES, double* STATES, double* ALGEBRAIC)
{
ALGEBRAIC[0] = arbitrary_log( STATES[1]*1.00000, 10);
ALGEBRAIC[1] = arbitrary_log( STATES[3]*1.00000, 10);
}
void
computeEssentialVariables(double VOI, double* CONSTANTS, double* RATES, double* STATES, double* ALGEBRAIC)
{
ALGEBRAIC[2] = (CONDVAR[0]<=0.00000 ? 1.00000 : CONDVAR[1]>=0.00000 ? 1.00000 : 0.00420000);
}
void
getStateInformation(double* SI)
{
SI[0] = 1.0;
SI[1] = 1.0;
SI[2] = 1.0;
SI[3] = 1.0;
}
void
computeRoots(double VOI, double* CONSTANTS, double* RATES, double* OLDRATES, double* STATES,
             double* OLDSTATES, double* ALGEBRAIC, double* CONDVARS)
{
CONDVAR[0] = VOI - 15.0000;
CONDVAR[1] = VOI - 40.0000;
}