/*
   There are a total of 15 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 42 entries in the constant variable array.
 */
/*
 * VOI is time in component environment (day).
 * STATES[0] is OB_p in component OB_p (dimensionless).
 * CONSTANTS[0] is D_OB_u in component OB_p (first_order_rate_constant).
 * CONSTANTS[1] is pd_OB_p in component OB_p (first_order_rate_constant).
 * ALGEBRAIC[2] is pi_TGF_beta_act in component TGF_beta (dimensionless).
 * ALGEBRAIC[3] is pi_TGF_beta_rep in component TGF_beta (dimensionless).
 * CONSTANTS[2] is D_OB_p in component model_parameters (first_order_rate_constant).
 * STATES[1] is OB_a in component OB_a (dimensionless).
 * CONSTANTS[3] is OB_a_initial in component OB_a (dimensionless).
 * CONSTANTS[4] is A_OB_a in component OB_a (first_order_rate_constant).
 * CONSTANTS[5] is pd_OB_a in component OB_a (first_order_rate_constant).
 * STATES[2] is OC_a in component OC_a (dimensionless).
 * CONSTANTS[6] is OC_a_initial in component OC_a (dimensionless).
 * ALGEBRAIC[0] is D_OC_p in component OC_a (first_order_rate_constant).
 * CONSTANTS[7] is A_OC_a in component OC_a (first_order_rate_constant).
 * CONSTANTS[8] is pd_OC_a in component OC_a (first_order_rate_constant).
 * ALGEBRAIC[10] is pi_RANKL_act in component RANKL (dimensionless).
 * STATES[3] is BV in component BV (dimensionless).
 * CONSTANTS[9] is k_form in component BV (first_order_rate_constant).
 * CONSTANTS[10] is k_res in component BV (first_order_rate_constant).
 * ALGEBRAIC[1] is TGF_beta in component TGF_beta (dimensionless).
 * CONSTANTS[11] is KD_TGF_repress in component TGF_beta (pM).
 * CONSTANTS[12] is KD_TGF_activate in component TGF_beta (pM).
 * CONSTANTS[13] is alpha in component TGF_beta (pM).
 * CONSTANTS[14] is S_TGF_beta in component TGF_beta (pM).
 * CONSTANTS[15] is Deg_TGF_beta in component TGF_beta (pM).
 * CONSTANTS[40] is pi_PTH_act in component PTH (dimensionless).
 * CONSTANTS[41] is pi_PTH_rep in component PTH (dimensionless).
 * CONSTANTS[16] is beta_PTH in component PTH (flux).
 * CONSTANTS[17] is Deg_PTH in component PTH (first_order_rate_constant).
 * CONSTANTS[18] is P_PTH_d in component PTH (flux).
 * CONSTANTS[37] is PTH_tot in component PTH (pM).
 * CONSTANTS[19] is KD_PTH_repress in component PTH (pM).
 * CONSTANTS[20] is KD_PTH_activate in component PTH (pM).
 * ALGEBRAIC[5] is OPG in component OPG (pM).
 * CONSTANTS[21] is beta_OPG in component OPG (flux).
 * CONSTANTS[22] is beta1_OB_p_OPG in component OPG (dimensionless).
 * CONSTANTS[23] is beta2_OB_a_OPG in component OPG (dimensionless).
 * CONSTANTS[24] is OPG_max in component OPG (pM).
 * ALGEBRAIC[4] is OPG_eff in component OPG (flux).
 * CONSTANTS[25] is P_OPG_d in component OPG (flux).
 * CONSTANTS[26] is Deg_OPG in component OPG (first_order_rate_constant).
 * ALGEBRAIC[7] is Degr_OPG in component OPG (flux).
 * ALGEBRAIC[6] is prod_OPG in component OPG (flux).
 * ALGEBRAIC[9] is RANKL in component RANKL (dimensionless).
 * CONSTANTS[27] is K_A2_RANKL in component RANKL (dimensionless).
 * CONSTANTS[28] is K_A1_RANKL in component RANKL (dimensionless).
 * CONSTANTS[29] is RANK in component RANKL (pM).
 * ALGEBRAIC[8] is RANKL_eff in component RANKL (pM).
 * ALGEBRAIC[13] is RANKL_tot in component RANKL (pM).
 * CONSTANTS[38] is K_RANKL_OB_p in component RANKL (pM).
 * CONSTANTS[39] is K_RANKL_OB_a in component RANKL (pM).
 * ALGEBRAIC[11] is OPG_RANKL in component RANKL (pM).
 * CONSTANTS[30] is R_RANKL in component RANKL (dimensionless).
 * ALGEBRAIC[12] is RANKL_RANK in component RANKL (pM).
 * ALGEBRAIC[14] is pd_RANKL in component RANKL (flux).
 * CONSTANTS[31] is P_RANKL_d in component RANKL (flux).
 * CONSTANTS[32] is R1_OB_p_RANKL in component RANKL (pM).
 * CONSTANTS[33] is R2_OB_a_RANKL in component RANKL (pM).
 * CONSTANTS[34] is beta_RANKL in component RANKL (flux).
 * CONSTANTS[35] is Deg_RANKL in component RANKL (first_order_rate_constant).
 * CONSTANTS[36] is KD_RANKL_activate in component RANKL (pM).
 * RATES[0] is d/dt OB_p in component OB_p (dimensionless).
 * RATES[1] is d/dt OB_a in component OB_a (dimensionless).
 * RATES[2] is d/dt OC_a in component OC_a (dimensionless).
 * RATES[3] is d/dt BV in component BV (dimensionless).
 * There are a total of 2 condition variables.
 */
void
initConsts(double* CONSTANTS, double* RATES, double *STATES)
{
STATES[0] = 6.194e-4;
CONSTANTS[0] = 7.000e-04;
CONSTANTS[1] = 0.0;
CONSTANTS[2] = 2.674e-1;
STATES[1] = 5.584e-4;
CONSTANTS[3] = 5.584e-4;
CONSTANTS[4] = 1.890e-1;
CONSTANTS[5] = 0.0;
STATES[2] = 8.070e-4;
CONSTANTS[6] = 8.070e-4;
CONSTANTS[7] = 7.000e-1;
CONSTANTS[8] = 0.0;
STATES[3] = 100.0;
CONSTANTS[9] = 1.571e0;
CONSTANTS[10] = 1.000e0;
CONSTANTS[11] = 1.416e-3;
CONSTANTS[12] = 4.545e-3;
CONSTANTS[13] = 1.0;
CONSTANTS[14] = 0.0;
CONSTANTS[15] = 1.0;
CONSTANTS[16] = 2.500e2;
CONSTANTS[17] = 8.600e1;
CONSTANTS[18] = 0.0;
CONSTANTS[19] = 2.226e-1;
CONSTANTS[20] = 1.500e2;
CONSTANTS[21] = 1.464e8;
CONSTANTS[22] = 0.0;
CONSTANTS[23] = 1.0;
CONSTANTS[24] = 2.000e8;
CONSTANTS[25] = 0.0;
CONSTANTS[26] = 3.500e-1;
CONSTANTS[27] = 3.412e-2;
CONSTANTS[28] = 1.000e-3;
CONSTANTS[29] = 1.000e1;
CONSTANTS[30] = 3.000e6;
CONSTANTS[31] = 0.0;
CONSTANTS[32] = 1.0;
CONSTANTS[33] = 0.0;
CONSTANTS[34] = 1.684e4;
CONSTANTS[35] = 1.013e1;
CONSTANTS[36] = 1.306e1;
CONSTANTS[37] = (CONSTANTS[16]+CONSTANTS[18])/CONSTANTS[17];
CONSTANTS[38] =  CONSTANTS[32]*CONSTANTS[30];
CONSTANTS[39] =  CONSTANTS[33]*CONSTANTS[30];
CONSTANTS[40] = CONSTANTS[37]/(CONSTANTS[37]+CONSTANTS[20]);
CONSTANTS[41] = 1.00000/(1.00000+CONSTANTS[37]/CONSTANTS[19]);
RATES[0] = 0.1001;
RATES[1] = 0.1001;
RATES[2] = 0.1001;
RATES[3] = 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]*ALGEBRAIC[2] -  CONSTANTS[2]*ALGEBRAIC[3]*STATES[0])+CONSTANTS[1];
resid[1] = RATES[1] - ( CONSTANTS[2]*ALGEBRAIC[3]*STATES[0] -  CONSTANTS[4]*STATES[1])+CONSTANTS[5];
resid[2] = RATES[2] - ( ALGEBRAIC[0]*ALGEBRAIC[10] -  CONSTANTS[7]*ALGEBRAIC[2]*STATES[2])+CONSTANTS[8];
resid[3] = RATES[3] -  CONSTANTS[9]*(STATES[1] - CONSTANTS[3]) -  CONSTANTS[10]*(STATES[2] - CONSTANTS[6]);
}
void
computeVariables(double VOI, double* CONSTANTS, double* RATES, double* STATES, double* ALGEBRAIC)
{
ALGEBRAIC[6] =  ALGEBRAIC[4]*(1.00000 - ALGEBRAIC[5]/CONSTANTS[24])+CONSTANTS[25];
ALGEBRAIC[7] =  CONSTANTS[26]*ALGEBRAIC[5];
ALGEBRAIC[11] =  CONSTANTS[28]*ALGEBRAIC[5]*ALGEBRAIC[9];
ALGEBRAIC[12] =  CONSTANTS[27]*ALGEBRAIC[9]*CONSTANTS[29];
ALGEBRAIC[13] =  ALGEBRAIC[9]*(1.00000+ CONSTANTS[28]*ALGEBRAIC[5]+ CONSTANTS[27]*CONSTANTS[29]);
ALGEBRAIC[14] = ( CONSTANTS[34]*(1.00000 - ALGEBRAIC[13]/ALGEBRAIC[8]) -  CONSTANTS[35]*ALGEBRAIC[13])+CONSTANTS[31];
}
void
computeEssentialVariables(double VOI, double* CONSTANTS, double* RATES, double* STATES, double* ALGEBRAIC)
{
ALGEBRAIC[0] = (CONDVAR[0]>0.00000&&CONDVAR[1]<=0.00000 ? 0.0210000 : 0.00210000);
ALGEBRAIC[1] = ( CONSTANTS[13]*CONSTANTS[10]*STATES[2]+CONSTANTS[14])/CONSTANTS[15];
ALGEBRAIC[2] = ALGEBRAIC[1]/(CONSTANTS[12]+ALGEBRAIC[1]);
ALGEBRAIC[3] = 1.00000/(1.00000+ALGEBRAIC[1]/CONSTANTS[11]);
ALGEBRAIC[4] =  ( CONSTANTS[22]*CONSTANTS[21]*STATES[0]+ CONSTANTS[23]*CONSTANTS[21]*STATES[1])*CONSTANTS[41];
ALGEBRAIC[5] = (ALGEBRAIC[4]+CONSTANTS[25])/(ALGEBRAIC[4]/CONSTANTS[24]+CONSTANTS[26]);
ALGEBRAIC[8] =  ( CONSTANTS[38]*STATES[0]+ CONSTANTS[39]*STATES[1])*CONSTANTS[40];
ALGEBRAIC[9] = ( (ALGEBRAIC[8]/(1.00000+ CONSTANTS[28]*ALGEBRAIC[5]+ CONSTANTS[27]*CONSTANTS[29]))*(CONSTANTS[34]+CONSTANTS[31]))/(CONSTANTS[34]+ CONSTANTS[35]*ALGEBRAIC[8]);
ALGEBRAIC[10] = ALGEBRAIC[9]/(CONSTANTS[36]+ALGEBRAIC[9]);
}
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 - 0.00000;
CONDVAR[1] = VOI - 100.000;
}