/*
   There are a total of 33 entries in the algebraic variable array.
   There are a total of 7 entries in each of the rate and state variable arrays.
   There are a total of 47 entries in the constant variable array.
 */
/*
 * VOI is time in component Environment (ms).
 * STATES[0] is NADHm in component Mitochondrial_variables (mM).
 * ALGEBRAIC[32] is Jpdh in component J_variables (uM_per_ms).
 * ALGEBRAIC[19] is Jo in component J_variables (uM_per_ms).
 * CONSTANTS[0] is gamma in component Mitochondrial_variables (dimensionless).
 * ALGEBRAIC[0] is NADm in component Mitochondrial_variables (mM).
 * STATES[1] is ADPm in component Mitochondrial_variables (mM).
 * STATES[2] is PSIm in component Mitochondrial_variables (mV).
 * STATES[3] is Cam in component Mitochondrial_variables (uM).
 * CONSTANTS[1] is NADtot in component Mitochondrial_variables (mM).
 * CONSTANTS[2] is fm in component Mitochondrial_variables (dimensionless).
 * CONSTANTS[3] is Cmito in component Mitochondrial_variables (uM_per_mV).
 * CONSTANTS[4] is Amtot in component Mitochondrial_variables (mM).
 * ALGEBRAIC[1] is ATPm in component Mitochondrial_variables (mM).
 * ALGEBRAIC[2] is RATm in component Mitochondrial_variables (dimensionless).
 * ALGEBRAIC[25] is Jant in component J_variables (uM_per_ms).
 * ALGEBRAIC[24] is Jf1f0 in component J_variables (uM_per_ms).
 * ALGEBRAIC[20] is Jh_res in component J_variables (uM_per_ms).
 * ALGEBRAIC[22] is Jh_atp in component J_variables (uM_per_ms).
 * ALGEBRAIC[16] is Jh_leak in component J_variables (uM_per_ms).
 * ALGEBRAIC[14] is Jnaca in component J_variables (uM_per_ms).
 * ALGEBRAIC[13] is Juni in component J_variables (uM_per_ms).
 * ALGEBRAIC[15] is Jmito in component J_variables (uM_per_ms).
 * STATES[4] is c in component Clamp_protocol (uM).
 * ALGEBRAIC[3] is ATPc in component Cytosol (mM).
 * STATES[5] is ADPc in component Cytosol (uM).
 * CONSTANTS[5] is Ac_tot in component Cytosol (uM).
 * CONSTANTS[6] is khyd in component Cytosol (dimensionless).
 * CONSTANTS[7] is Jhydbas in component Cytosol (mM).
 * ALGEBRAIC[4] is Jh_yd in component Cytosol (mM).
 * CONSTANTS[46] is delta in component Cytosol (dimensionless).
 * ALGEBRAIC[31] is Fproto in component Clamp_parameters (uM).
 * ALGEBRAIC[30] is Cproto in component Clamp_parameters (uM).
 * STATES[6] is FBP in component Clamp_protocol (uM).
 * CONSTANTS[8] is Fhold in component Clamp_parameters (uM).
 * CONSTANTS[9] is Ftest in component Clamp_parameters (uM).
 * CONSTANTS[10] is Fton in component Clamp_parameters (ms).
 * CONSTANTS[11] is Ftoff in component Clamp_parameters (ms).
 * CONSTANTS[12] is Chold in component Clamp_parameters (uM).
 * CONSTANTS[13] is Ctest in component Clamp_parameters (uM).
 * CONSTANTS[14] is Cton1 in component Clamp_parameters (ms).
 * CONSTANTS[15] is Cton2 in component Clamp_parameters (ms).
 * CONSTANTS[16] is Cton3 in component Clamp_parameters (ms).
 * CONSTANTS[17] is Ctoff1 in component Clamp_parameters (ms).
 * CONSTANTS[18] is Ctoff2 in component Clamp_parameters (ms).
 * CONSTANTS[19] is Ctoff3 in component Clamp_parameters (ms).
 * ALGEBRAIC[27] is pulse1 in component Clamp_parameters (uM).
 * ALGEBRAIC[28] is pulse2 in component Clamp_parameters (uM).
 * ALGEBRAIC[29] is pulse3 in component Clamp_parameters (uM).
 * ALGEBRAIC[5] is heav_on in component Clamp_parameters (dimensionless).
 * ALGEBRAIC[6] is heav_off in component Clamp_parameters (dimensionless).
 * ALGEBRAIC[7] is heav_Cton1 in component Clamp_parameters (dimensionless).
 * ALGEBRAIC[8] is heav_Cton2 in component Clamp_parameters (dimensionless).
 * ALGEBRAIC[9] is heav_Cton3 in component Clamp_parameters (dimensionless).
 * ALGEBRAIC[10] is heav_Ctoff1 in component Clamp_parameters (dimensionless).
 * ALGEBRAIC[11] is heav_Ctoff2 in component Clamp_parameters (dimensionless).
 * ALGEBRAIC[12] is heav_Ctoff3 in component Clamp_parameters (dimensionless).
 * ALGEBRAIC[26] is Jgpdh in component J_variables (uM_per_ms).
 * CONSTANTS[20] is p1 in component Parameters (dimensionless).
 * CONSTANTS[21] is p2 in component Parameters (dimensionless).
 * CONSTANTS[22] is p3 in component Parameters (uM).
 * CONSTANTS[23] is p21 in component Parameters (per_uM_per_ms_per_mV).
 * CONSTANTS[24] is p22 in component Parameters (per_uM_per_ms).
 * CONSTANTS[25] is p23 in component Parameters (uM_per_ms).
 * CONSTANTS[26] is p24 in component Parameters (per_mV).
 * CONSTANTS[27] is p4 in component Parameters (uM_per_ms).
 * CONSTANTS[28] is p5 in component Parameters (mM).
 * CONSTANTS[29] is p6 in component Parameters (mV).
 * CONSTANTS[30] is p7 in component Parameters (mV).
 * CONSTANTS[31] is p8 in component Parameters (uM_per_ms).
 * CONSTANTS[32] is p9 in component Parameters (mM).
 * CONSTANTS[33] is p10 in component Parameters (mV).
 * CONSTANTS[34] is p11 in component Parameters (mV).
 * CONSTANTS[35] is p12 in component Parameters (uM_per_ms).
 * CONSTANTS[36] is p13 in component Parameters (mM).
 * CONSTANTS[37] is p14 in component Parameters (mV).
 * CONSTANTS[38] is p15 in component Parameters (mV).
 * CONSTANTS[39] is p16 in component Parameters (uM_per_ms).
 * CONSTANTS[40] is p17 in component Parameters (uM_per_ms_per_mV).
 * CONSTANTS[41] is p18 in component Parameters (uM_per_ms).
 * CONSTANTS[42] is p19 in component Parameters (uM_per_ms).
 * CONSTANTS[43] is p20 in component Parameters (dimensionless).
 * ALGEBRAIC[17] is MM1 in component J_variables (uM_per_ms).
 * ALGEBRAIC[18] is MM2 in component J_variables (uM_per_ms).
 * ALGEBRAIC[21] is b13 in component J_variables (uM_per_ms).
 * ALGEBRAIC[23] is b2 in component J_variables (uM_per_ms).
 * CONSTANTS[44] is FRT in component J_variables (per_mV).
 * CONSTANTS[45] is kgpdh in component J_variables (uM_per_ms).
 * RATES[0] is d/dt NADHm in component Mitochondrial_variables (mM).
 * RATES[1] is d/dt ADPm in component Mitochondrial_variables (mM).
 * RATES[2] is d/dt PSIm in component Mitochondrial_variables (mV).
 * RATES[3] is d/dt Cam in component Mitochondrial_variables (uM).
 * RATES[5] is d/dt ADPc in component Cytosol (uM).
 * RATES[6] is d/dt FBP in component Clamp_protocol (uM).
 * RATES[4] is d/dt c in component Clamp_protocol (uM).
 * There are a total of 8 condition variables.
 */
void
initConsts(double* CONSTANTS, double* RATES, double *STATES)
{
STATES[0] = 0.6;
CONSTANTS[0] = 0.001;
STATES[1] = 7.4;
STATES[2] = 93;
STATES[3] = 0.1;
CONSTANTS[1] = 10;
CONSTANTS[2] = 0.01;
CONSTANTS[3] = 1.8;
CONSTANTS[4] = 15;
STATES[4] = 0.1;
STATES[5] = 1850;
CONSTANTS[5] = 2500;
CONSTANTS[6] = 0.00005;
CONSTANTS[7] = 0.00005;
STATES[6] = 0.5;
CONSTANTS[8] = 1;
CONSTANTS[9] = 5;
CONSTANTS[10] = 90000;
CONSTANTS[11] = 330000;
CONSTANTS[12] = 0.1;
CONSTANTS[13] = 0.1;
CONSTANTS[14] = 120000;
CONSTANTS[15] = 180000;
CONSTANTS[16] = 240000;
CONSTANTS[17] = 150000;
CONSTANTS[18] = 210000;
CONSTANTS[19] = 270000;
CONSTANTS[20] = 400;
CONSTANTS[21] = 1;
CONSTANTS[22] = 0.01;
CONSTANTS[23] = 0.01;
CONSTANTS[24] = 1.1;
CONSTANTS[25] = 0.001;
CONSTANTS[26] = 0.016;
CONSTANTS[27] = 0.6;
CONSTANTS[28] = 0.1;
CONSTANTS[29] = 177;
CONSTANTS[30] = 5;
CONSTANTS[31] = 7;
CONSTANTS[32] = 0.1;
CONSTANTS[33] = 177;
CONSTANTS[34] = 5;
CONSTANTS[35] = 120;
CONSTANTS[36] = 10;
CONSTANTS[37] = 190;
CONSTANTS[38] = 8.5;
CONSTANTS[39] = 35;
CONSTANTS[40] = 0.002;
CONSTANTS[41] = -0.03;
CONSTANTS[42] = 0.35;
CONSTANTS[43] = 2;
CONSTANTS[44] = 0.037;
CONSTANTS[45] = 0.0005;
CONSTANTS[46] = 3.90000/53.2000;
RATES[0] = 0.1001;
RATES[1] = 0.1001;
RATES[2] = 0.1001;
RATES[3] = 0.1001;
RATES[5] = 0.1001;
RATES[6] = 0.1001;
RATES[4] = 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[32] - ALGEBRAIC[19]);
resid[1] = RATES[1] -  CONSTANTS[0]*(ALGEBRAIC[25] - ALGEBRAIC[24]);
resid[2] = RATES[2] - (((((ALGEBRAIC[20] - ALGEBRAIC[22]) - ALGEBRAIC[25]) - ALGEBRAIC[16]) - ALGEBRAIC[14]) -  ALGEBRAIC[13]*2.00000)/CONSTANTS[3];
resid[3] = RATES[3] -  - CONSTANTS[2]*ALGEBRAIC[15];
resid[4] = RATES[5] -  - CONSTANTS[46]*ALGEBRAIC[25]+ ALGEBRAIC[4]*1.00000;
resid[5] = RATES[6] - (ALGEBRAIC[31] - STATES[6])/0.100000;
resid[6] = RATES[4] - (ALGEBRAIC[30] - STATES[4])/0.100000;
}
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[3] = CONSTANTS[5] - STATES[5];
ALGEBRAIC[4] = ( ( CONSTANTS[6]*STATES[4]+CONSTANTS[7])*ALGEBRAIC[3])/1.00000;
ALGEBRAIC[13] =  ( CONSTANTS[23]*STATES[2] - CONSTANTS[24])*pow(STATES[4], 2.00000);
ALGEBRAIC[14] =  (( CONSTANTS[25]*STATES[3])/STATES[4])*exp( CONSTANTS[26]*STATES[2]);
ALGEBRAIC[15] = ALGEBRAIC[14] - ALGEBRAIC[13];
ALGEBRAIC[16] =  CONSTANTS[40]*STATES[2]+CONSTANTS[41];
ALGEBRAIC[17] = ( CONSTANTS[27]*STATES[0])/(CONSTANTS[28]+STATES[0]);
ALGEBRAIC[19] = ALGEBRAIC[17]/(1.00000+exp((STATES[2] - CONSTANTS[29])/CONSTANTS[30]));
ALGEBRAIC[18] = ( CONSTANTS[31]*STATES[0])/(CONSTANTS[32]+STATES[0]);
ALGEBRAIC[20] = ALGEBRAIC[18]/(1.00000+exp((STATES[2] - CONSTANTS[33])/CONSTANTS[34]));
ALGEBRAIC[1] = CONSTANTS[4] - STATES[1];
ALGEBRAIC[21] = ( CONSTANTS[35]*CONSTANTS[36])/(CONSTANTS[36]+ALGEBRAIC[1]);
ALGEBRAIC[22] = ALGEBRAIC[21]/(1.00000+exp((CONSTANTS[37] - STATES[2])/CONSTANTS[38]));
ALGEBRAIC[23] = ( CONSTANTS[39]*CONSTANTS[36])/(CONSTANTS[36]+ALGEBRAIC[1]);
ALGEBRAIC[24] = ALGEBRAIC[23]/(1.00000+exp((CONSTANTS[37] - STATES[2])/CONSTANTS[38]));
ALGEBRAIC[2] = ALGEBRAIC[1]/STATES[1];
ALGEBRAIC[25] = (( CONSTANTS[42]*ALGEBRAIC[2])/(ALGEBRAIC[2]+CONSTANTS[43]))/exp( - 0.500000*CONSTANTS[44]*STATES[2]);
ALGEBRAIC[7] = (CONDVAR[2]>=0.00000 ? 1.00000 : 0.00000);
ALGEBRAIC[10] = (CONDVAR[5]>=0.00000 ? 1.00000 : 0.00000);
ALGEBRAIC[27] =  (CONSTANTS[13] - CONSTANTS[12])*(ALGEBRAIC[7] - ALGEBRAIC[10]);
ALGEBRAIC[8] = (CONDVAR[3]>=0.00000 ? 1.00000 : 0.00000);
ALGEBRAIC[11] = (CONDVAR[6]>=0.00000 ? 1.00000 : 0.00000);
ALGEBRAIC[28] =  (CONSTANTS[13] - CONSTANTS[12])*(ALGEBRAIC[8] - ALGEBRAIC[11]);
ALGEBRAIC[9] = (CONDVAR[4]>=0.00000 ? 1.00000 : 0.00000);
ALGEBRAIC[12] = (CONDVAR[7]>=0.00000 ? 1.00000 : 0.00000);
ALGEBRAIC[29] =  (CONSTANTS[13] - CONSTANTS[12])*(ALGEBRAIC[9] - ALGEBRAIC[12]);
ALGEBRAIC[30] = CONSTANTS[12]+ALGEBRAIC[27]+ALGEBRAIC[28]+ALGEBRAIC[29];
ALGEBRAIC[5] = (CONDVAR[0]>=0.00000 ? 1.00000 : 0.00000);
ALGEBRAIC[6] = (CONDVAR[1]>=0.00000 ? 1.00000 : 0.00000);
ALGEBRAIC[31] = CONSTANTS[8]+ (CONSTANTS[9] - CONSTANTS[8])*(ALGEBRAIC[5] - ALGEBRAIC[6]);
ALGEBRAIC[0] = CONSTANTS[1] - STATES[0];
ALGEBRAIC[26] =  CONSTANTS[45]* pow((STATES[6]/1.00000), 1.0 / 2);
ALGEBRAIC[32] =  (CONSTANTS[20]/(CONSTANTS[21]+STATES[0]/ALGEBRAIC[0]))*(STATES[3]/(CONSTANTS[22]+STATES[3]))*ALGEBRAIC[26];
}
void
getStateInformation(double* SI)
{
SI[0] = 1.0;
SI[1] = 1.0;
SI[2] = 1.0;
SI[3] = 1.0;
SI[4] = 1.0;
SI[5] = 1.0;
SI[6] = 1.0;
}
void
computeRoots(double VOI, double* CONSTANTS, double* RATES, double* OLDRATES, double* STATES,
             double* OLDSTATES, double* ALGEBRAIC, double* CONDVARS)
{
CONDVAR[0] = (VOI - CONSTANTS[10]) - 0.00000;
CONDVAR[1] = (VOI - CONSTANTS[11]) - 0.00000;
CONDVAR[2] = (VOI - CONSTANTS[14]) - 0.00000;
CONDVAR[3] = (VOI - CONSTANTS[15]) - 0.00000;
CONDVAR[4] = (VOI - CONSTANTS[16]) - 0.00000;
CONDVAR[5] = (VOI - CONSTANTS[17]) - 0.00000;
CONDVAR[6] = (VOI - CONSTANTS[18]) - 0.00000;
CONDVAR[7] = (VOI - CONSTANTS[19]) - 0.00000;
}