/*
   There are a total of 4 entries in the algebraic variable array.
   There are a total of 3 entries in each of the rate and state variable arrays.
   There are a total of 19 entries in the constant variable array.
 */
/*
 * VOI is time in component environment (hour).
 * ALGEBRAIC[0] is Qv in component v (per_second).
 * STATES[0] is Vv in component v (mV).
 * CONSTANTS[0] is tau_v in component v (second).
 * CONSTANTS[1] is v_vm in component v (mV_second).
 * CONSTANTS[2] is awake_start in component v (hour).
 * CONSTANTS[3] is awake_end in component v (hour).
 * ALGEBRAIC[1] is Qm in component m (per_second).
 * CONSTANTS[4] is Qmax in component model_parameters (per_second).
 * ALGEBRAIC[3] is D in component D (mV).
 * CONSTANTS[5] is theta in component model_parameters (mV).
 * CONSTANTS[6] is sigma in component model_parameters (mV).
 * STATES[1] is Vm in component m (mV).
 * CONSTANTS[7] is tau_m in component m (second).
 * CONSTANTS[8] is v_mv in component m (mV_second).
 * CONSTANTS[9] is A in component m (mV).
 * CONSTANTS[10] is awake_start in component m (hour).
 * CONSTANTS[11] is awake_end in component m (hour).
 * STATES[2] is H in component H (nM).
 * CONSTANTS[12] is chi in component H (hour).
 * CONSTANTS[13] is mu in component H (nM_second).
 * ALGEBRAIC[2] is C in component D (dimensionless).
 * CONSTANTS[14] is c0 in component D (dimensionless).
 * CONSTANTS[18] is omega in component D (per_hour).
 * CONSTANTS[15] is alpha in component D (hour).
 * CONSTANTS[16] is v_vc in component D (mV).
 * CONSTANTS[17] is v_vh in component D (mV_per_nM).
 * RATES[0] is d/dt Vv in component v (mV).
 * RATES[1] is d/dt Vm in component m (mV).
 * RATES[2] is d/dt H in component H (nM).
 * There are a total of 4 condition variables.
 */
void
initConsts(double* CONSTANTS, double* RATES, double *STATES)
{
STATES[0] = -12.5;
CONSTANTS[0] = 10.0;
CONSTANTS[1] = -2.1;
CONSTANTS[2] = 167.04;
CONSTANTS[3] = 240.0;
CONSTANTS[4] = 100.0;
CONSTANTS[5] = 10.0;
CONSTANTS[6] = 3.0;
STATES[1] = 0.0;
CONSTANTS[7] = 10.0;
CONSTANTS[8] = -1.8;
CONSTANTS[9] = 1.3;
CONSTANTS[10] = 160.0;
CONSTANTS[11] = 240.0;
STATES[2] = 15.0;
CONSTANTS[12] = 45.0;
CONSTANTS[13] = 4.4;
CONSTANTS[14] = 4.5;
CONSTANTS[15] = 0;
CONSTANTS[16] = -2.9;
CONSTANTS[17] = 1.0;
CONSTANTS[18] = ( 2.00000* 3.14159265358979)/24.0000;
RATES[0] = 0.1001;
RATES[1] = 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] - (CONDVAR[0]>=0.00000&&CONDVAR[1]<0.00000 ? 0.00000 : (( CONSTANTS[1]*ALGEBRAIC[1]+ALGEBRAIC[3]) - STATES[0])/(CONSTANTS[0]/3600.00));
resid[1] = RATES[1] - (CONDVAR[2]>=0.00000&&CONDVAR[3]<0.00000 ? 0.00000 : ((CONSTANTS[9]+ CONSTANTS[8]*ALGEBRAIC[0]) - STATES[1])/(CONSTANTS[7]/3600.00));
resid[2] = RATES[2] - ( CONSTANTS[13]*ALGEBRAIC[1] - STATES[2])/CONSTANTS[12];
}
void
computeVariables(double VOI, double* CONSTANTS, double* RATES, double* STATES, double* ALGEBRAIC)
{
}
void
computeEssentialVariables(double VOI, double* CONSTANTS, double* RATES, double* STATES, double* ALGEBRAIC)
{
ALGEBRAIC[0] = CONSTANTS[4]/(1.00000+exp(- (STATES[0] - CONSTANTS[5])/CONSTANTS[6]));
ALGEBRAIC[1] = CONSTANTS[4]/(1.00000+exp(- (STATES[1] - CONSTANTS[5])/CONSTANTS[6]));
ALGEBRAIC[2] = CONSTANTS[14]+cos( CONSTANTS[18]*(VOI - CONSTANTS[15]));
ALGEBRAIC[3] =  CONSTANTS[16]*ALGEBRAIC[2]+ CONSTANTS[17]*STATES[2];
}
void
getStateInformation(double* SI)
{
SI[0] = 1.0;
SI[1] = 1.0;
SI[2] = 1.0;
}
void
computeRoots(double VOI, double* CONSTANTS, double* RATES, double* OLDRATES, double* STATES,
             double* OLDSTATES, double* ALGEBRAIC, double* CONDVARS)
{
CONDVAR[0] = VOI - CONSTANTS[2];
CONDVAR[1] = VOI - CONSTANTS[3];
CONDVAR[2] = VOI - CONSTANTS[10];
CONDVAR[3] = VOI - CONSTANTS[11];
}