/*
   There are a total of 14 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 40 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[1] is pi_TGF_beta_act in component TGF_beta (dimensionless).
 * ALGEBRAIC[2] 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 A_OB_a in component OB_a (first_order_rate_constant).
 * CONSTANTS[4] is pd_OB_a in component OB_a (first_order_rate_constant).
 * STATES[2] is OC_a in component OC_a (dimensionless).
 * ALGEBRAIC[0] is D_OC_p in component OC_a (first_order_rate_constant).
 * CONSTANTS[5] is A_OC_a in component OC_a (first_order_rate_constant).
 * CONSTANTS[6] is pd_OC_a in component OC_a (first_order_rate_constant).
 * ALGEBRAIC[13] is pi_RANKL_act in component RANKL (dimensionless).
 * STATES[3] is BV in component BV (dimensionless).
 * CONSTANTS[7] is OC_a_initial in component BV (dimensionless).
 * CONSTANTS[8] is OB_a_initial 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).
 * 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[38] is pi_PTH_act in component PTH (dimensionless).
 * CONSTANTS[39] is pi_PTH_rep in component PTH (dimensionless).
 * CONSTANTS[14] is beta_PTH in component PTH (flux).
 * CONSTANTS[15] is Deg_PTH in component PTH (first_order_rate_constant).
 * CONSTANTS[16] is P_PTH_d in component PTH (flux).
 * CONSTANTS[35] is PTH_tot in component PTH (pM).
 * CONSTANTS[17] is KD_PTH_repress in component PTH (pM).
 * CONSTANTS[18] is KD_PTH_activate in component PTH (pM).
 * ALGEBRAIC[5] is OPG in component OPG (pM).
 * CONSTANTS[19] is beta_OPG in component OPG (flux).
 * CONSTANTS[20] is beta1_OB_p_OPG in component OPG (dimensionless).
 * CONSTANTS[21] is beta2_OB_a_OPG in component OPG (dimensionless).
 * CONSTANTS[22] is OPG_max in component OPG (pM).
 * ALGEBRAIC[3] is OPG_eff in component OPG (flux).
 * CONSTANTS[23] is P_OPG_d in component OPG (flux).
 * CONSTANTS[24] 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[25] is K_A2_RANKL in component RANKL (dimensionless).
 * CONSTANTS[26] is K_A1_RANKL in component RANKL (dimensionless).
 * CONSTANTS[27] is RANK in component RANKL (pM).
 * ALGEBRAIC[4] is RANKL_eff in component RANKL (pM).
 * ALGEBRAIC[8] is RANKL_tot in component RANKL (pM).
 * CONSTANTS[36] is K_RANKL_OB_p in component RANKL (pM).
 * CONSTANTS[37] is K_RANKL_OB_a in component RANKL (pM).
 * ALGEBRAIC[11] is OPG_RANKL in component RANKL (pM).
 * CONSTANTS[28] is R_RANKL in component RANKL (dimensionless).
 * ALGEBRAIC[12] is RANKL_RANK in component RANKL (pM).
 * ALGEBRAIC[10] is pd_RANKL in component RANKL (flux).
 * CONSTANTS[29] is P_RANKL_d in component RANKL (flux).
 * CONSTANTS[30] is R1_OB_p_RANKL in component RANKL (pM).
 * CONSTANTS[31] is R2_OB_a_RANKL in component RANKL (pM).
 * CONSTANTS[32] is beta_RANKL in component RANKL (flux).
 * CONSTANTS[33] is Deg_RANKL in component RANKL (first_order_rate_constant).
 * CONSTANTS[34] 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-4;
CONSTANTS[1] = 0.0;
CONSTANTS[2] = 2.674e-1;
STATES[1] = 5.584e-4;
CONSTANTS[3] = 1.890e-1;
CONSTANTS[4] = 0.0;
STATES[2] = 8.070e-4;
CONSTANTS[5] = 7.000e-1;
CONSTANTS[6] = 0.0;
STATES[3] = 100.0;
CONSTANTS[7] = 1.0;
CONSTANTS[8] = 1.0;
CONSTANTS[9] = 1.571e0;
CONSTANTS[10] = 200.00;
CONSTANTS[11] = 1.416e-3;
CONSTANTS[12] = 4.545e-3;
CONSTANTS[13] = 1.0;
CONSTANTS[14] = 2.500e2;
CONSTANTS[15] = 8.600e1;
CONSTANTS[16] = 0.0;
CONSTANTS[17] = 1.5e2;
CONSTANTS[18] = 2.226e-1;
CONSTANTS[19] = 1.625e8;
CONSTANTS[20] = 0.0;
CONSTANTS[21] = 1.0;
CONSTANTS[22] = 2.000e8;
CONSTANTS[23] = 0.0;
CONSTANTS[24] = 3.500e-1;
CONSTANTS[25] = 3.412e-2;
CONSTANTS[26] = 1.000e-3;
CONSTANTS[27] = 1.000e1;
CONSTANTS[28] = 2.703e6;
CONSTANTS[29] = 0.0;
CONSTANTS[30] = 1.0;
CONSTANTS[31] = 0.0;
CONSTANTS[32] = 1.684e4;
CONSTANTS[33] = 1.013e1;
CONSTANTS[34] = 4.457e0;
CONSTANTS[35] = (CONSTANTS[14]+CONSTANTS[16])/CONSTANTS[15];
CONSTANTS[36] =  CONSTANTS[30]*CONSTANTS[28];
CONSTANTS[37] =  CONSTANTS[31]*CONSTANTS[28];
CONSTANTS[38] = CONSTANTS[35]/(CONSTANTS[35]+CONSTANTS[18]);
CONSTANTS[39] = 1.00000/(1.00000+CONSTANTS[35]/CONSTANTS[17]);
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[1] -  CONSTANTS[2]*ALGEBRAIC[2]*STATES[0])+CONSTANTS[1];
resid[1] = RATES[1] - ( CONSTANTS[2]*ALGEBRAIC[2]*STATES[0] -  CONSTANTS[3]*STATES[1])+CONSTANTS[4];
resid[2] = RATES[2] - ( ALGEBRAIC[0]*ALGEBRAIC[13] -  CONSTANTS[5]*ALGEBRAIC[1]*STATES[2])+CONSTANTS[6];
resid[3] = RATES[3] -  CONSTANTS[9]*(STATES[1] - CONSTANTS[8]) -  CONSTANTS[10]*(STATES[2] - CONSTANTS[7]);
}
void
computeVariables(double VOI, double* CONSTANTS, double* RATES, double* STATES, double* ALGEBRAIC)
{
ALGEBRAIC[6] =  ALGEBRAIC[3]*(1.00000 - ALGEBRAIC[5]/CONSTANTS[22])+CONSTANTS[23];
ALGEBRAIC[7] =  CONSTANTS[24]*ALGEBRAIC[5];
ALGEBRAIC[10] = ( CONSTANTS[32]*(1.00000 -  ALGEBRAIC[9]*(ALGEBRAIC[8]/ALGEBRAIC[4])) -  CONSTANTS[33]*ALGEBRAIC[9]*ALGEBRAIC[8])+CONSTANTS[29];
ALGEBRAIC[11] =  CONSTANTS[26]*ALGEBRAIC[5]*ALGEBRAIC[9];
}
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]*STATES[2])/(CONSTANTS[12]+ CONSTANTS[13]*STATES[2]);
ALGEBRAIC[2] = 1.00000/(1.00000+( CONSTANTS[13]*STATES[2])/CONSTANTS[11]);
ALGEBRAIC[4] =  ( CONSTANTS[36]*STATES[0]+ CONSTANTS[37]*STATES[1])*CONSTANTS[38];
ALGEBRAIC[3] =  ( CONSTANTS[20]*CONSTANTS[19]*STATES[0]+ CONSTANTS[21]*CONSTANTS[19]*STATES[1])*CONSTANTS[39];
ALGEBRAIC[5] = (CONSTANTS[23]+ALGEBRAIC[3])/(ALGEBRAIC[3]/CONSTANTS[22]+CONSTANTS[24]);
ALGEBRAIC[8] = 1.00000+ CONSTANTS[25]*CONSTANTS[27]+ CONSTANTS[26]*ALGEBRAIC[5];
ALGEBRAIC[9] = (CONSTANTS[32]+CONSTANTS[29])/( ALGEBRAIC[8]*(CONSTANTS[32]/ALGEBRAIC[4]+CONSTANTS[33]));
ALGEBRAIC[12] =  CONSTANTS[25]*ALGEBRAIC[9]*CONSTANTS[27];
ALGEBRAIC[13] = ALGEBRAIC[12]/(CONSTANTS[34]+ALGEBRAIC[12]);
}
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;
}