Generated Code
The following is matlab code generated by the CellML API from this CellML file. (Back to language selection)
The raw code is available.
function [VOI, STATES, ALGEBRAIC, CONSTANTS] = mainFunction()
% This is the "main function". In Matlab, things work best if you rename this function to match the filename.
[VOI, STATES, ALGEBRAIC, CONSTANTS] = solveModel();
end
function [algebraicVariableCount] = getAlgebraicVariableCount()
% Used later when setting a global variable with the number of algebraic variables.
% Note: This is not the "main method".
algebraicVariableCount =50;
end
% There are a total of 13 entries in each of the rate and state variable arrays.
% There are a total of 53 entries in the constant variable array.
%
function [VOI, STATES, ALGEBRAIC, CONSTANTS] = solveModel()
% Create ALGEBRAIC of correct size
global algebraicVariableCount; algebraicVariableCount = getAlgebraicVariableCount();
% Initialise constants and state variables
[INIT_STATES, CONSTANTS] = initConsts;
% Set timespan to solve over
tspan = [0, 10];
% Set numerical accuracy options for ODE solver
options = odeset('RelTol', 1e-06, 'AbsTol', 1e-06, 'MaxStep', 1);
% Solve model with ODE solver
[VOI, STATES] = ode15s(@(VOI, STATES)computeRates(VOI, STATES, CONSTANTS), tspan, INIT_STATES, options);
% Compute algebraic variables
[RATES, ALGEBRAIC] = computeRates(VOI, STATES, CONSTANTS);
ALGEBRAIC = computeAlgebraic(ALGEBRAIC, CONSTANTS, STATES, VOI);
% Plot state variables against variable of integration
[LEGEND_STATES, LEGEND_ALGEBRAIC, LEGEND_VOI, LEGEND_CONSTANTS] = createLegends();
figure();
plot(VOI, STATES);
xlabel(LEGEND_VOI);
l = legend(LEGEND_STATES);
set(l,'Interpreter','none');
end
function [LEGEND_STATES, LEGEND_ALGEBRAIC, LEGEND_VOI, LEGEND_CONSTANTS] = createLegends()
LEGEND_STATES = ''; LEGEND_ALGEBRAIC = ''; LEGEND_VOI = ''; LEGEND_CONSTANTS = '';
LEGEND_VOI = strpad('time in component environment (second)');
LEGEND_CONSTANTS(:,1) = strpad('R_cm in component cell (dimensionless)');
LEGEND_CONSTANTS(:,2) = strpad('R in component cell (kilojoule_per_mole_kelvin)');
LEGEND_CONSTANTS(:,3) = strpad('T in component cell (kelvin)');
LEGEND_CONSTANTS(:,4) = strpad('F in component cell (kilojoule_per_mole_millivolt)');
LEGEND_CONSTANTS(:,51) = strpad('S in component cell (kilojoule_per_mole)');
LEGEND_CONSTANTS(:,52) = strpad('Z in component cell (millivolt)');
LEGEND_ALGEBRAIC(:,9) = strpad('electric_potential in component cell (millivolt)');
LEGEND_CONSTANTS(:,5) = strpad('protonmotive_force in component cell (millivolt)');
LEGEND_ALGEBRAIC(:,10) = strpad('ex_membrane_potential in component cell (millivolt)');
LEGEND_ALGEBRAIC(:,11) = strpad('in_membrane_potential in component cell (millivolt)');
LEGEND_CONSTANTS(:,6) = strpad('c_buffi in component cell (molar_proton_per_pH_unit)');
LEGEND_CONSTANTS(:,7) = strpad('c_buffe in component cell (molar_proton_per_pH_unit)');
LEGEND_ALGEBRAIC(:,1) = strpad('pH_e in component cell (dimensionless)');
LEGEND_ALGEBRAIC(:,5) = strpad('pH_i in component cell (dimensionless)');
LEGEND_CONSTANTS(:,8) = strpad('pKa in component cell (dimensionless)');
LEGEND_STATES(:,1) = strpad('He in component He (micromolar)');
LEGEND_STATES(:,2) = strpad('Hi in component Hi (micromolar)');
LEGEND_ALGEBRAIC(:,8) = strpad('delta_pH in component cell (dimensionless)');
LEGEND_CONSTANTS(:,9) = strpad('dpH in component cell (dimensionless)');
LEGEND_ALGEBRAIC(:,6) = strpad('C0_i in component cell (molar_proton_per_pH_unit)');
LEGEND_ALGEBRAIC(:,3) = strpad('C0_e in component cell (molar_proton_per_pH_unit)');
LEGEND_ALGEBRAIC(:,7) = strpad('r_buffi in component cell (dimensionless)');
LEGEND_ALGEBRAIC(:,4) = strpad('r_buffe in component cell (dimensionless)');
LEGEND_CONSTANTS(:,10) = strpad('BN in component cell (dimensionless)');
LEGEND_ALGEBRAIC(:,12) = strpad('u in component cell (dimensionless)');
LEGEND_ALGEBRAIC(:,14) = strpad('EmN in component redox_potentials (millivolt)');
LEGEND_ALGEBRAIC(:,33) = strpad('EmU in component redox_potentials (millivolt)');
LEGEND_ALGEBRAIC(:,30) = strpad('Emc in component redox_potentials (millivolt)');
LEGEND_ALGEBRAIC(:,32) = strpad('Ema in component redox_potentials (millivolt)');
LEGEND_CONSTANTS(:,11) = strpad('EmN0 in component redox_potentials (millivolt)');
LEGEND_CONSTANTS(:,12) = strpad('EmU0 in component redox_potentials (millivolt)');
LEGEND_CONSTANTS(:,13) = strpad('Emc0 in component redox_potentials (millivolt)');
LEGEND_ALGEBRAIC(:,13) = strpad('NAD in component NAD (micromolar)');
LEGEND_STATES(:,3) = strpad('NADH in component NADH (micromolar)');
LEGEND_ALGEBRAIC(:,31) = strpad('UQ in component UQ (micromolar)');
LEGEND_STATES(:,4) = strpad('UQH2 in component UQH2 (micromolar)');
LEGEND_STATES(:,5) = strpad('c_2 in component c_2 (micromolar)');
LEGEND_ALGEBRAIC(:,29) = strpad('c_3 in component c_3 (micromolar)');
LEGEND_CONSTANTS(:,14) = strpad('Nt in component NAD (micromolar)');
LEGEND_ALGEBRAIC(:,35) = strpad('vDH in component vDH (flux)');
LEGEND_ALGEBRAIC(:,37) = strpad('vC1 in component vC1 (flux)');
LEGEND_STATES(:,6) = strpad('O2 in component O2 (micromolar)');
LEGEND_ALGEBRAIC(:,40) = strpad('vC4 in component vC4 (flux)');
LEGEND_CONSTANTS(:,15) = strpad('nA in component vSN (dimensionless)');
LEGEND_ALGEBRAIC(:,39) = strpad('vC3 in component vC3 (flux)');
LEGEND_ALGEBRAIC(:,44) = strpad('vSN in component vSN (flux)');
LEGEND_ALGEBRAIC(:,45) = strpad('vEX in component vEX (flux)');
LEGEND_ALGEBRAIC(:,48) = strpad('vPI in component vPI (flux)');
LEGEND_CONSTANTS(:,53) = strpad('vLK in component vLK (flux)');
LEGEND_ALGEBRAIC(:,49) = strpad('vCK in component vCK (flux)');
LEGEND_ALGEBRAIC(:,50) = strpad('vEFF in component vEFF (flux)');
LEGEND_ALGEBRAIC(:,18) = strpad('ADP_mi in component ADP_mi (micromolar)');
LEGEND_ALGEBRAIC(:,15) = strpad('ADP_ti in component ADP_ti (micromolar)');
LEGEND_ALGEBRAIC(:,16) = strpad('ADP_fi in component ADP_fi (micromolar)');
LEGEND_CONSTANTS(:,16) = strpad('kDDi in component ADP_fi (micromolar)');
LEGEND_CONSTANTS(:,17) = strpad('Mg_fi in component Mg_fi (micromolar)');
LEGEND_CONSTANTS(:,18) = strpad('Ai_SUM in component ADP_ti (micromolar)');
LEGEND_STATES(:,7) = strpad('ATP_ti in component ATP_ti (micromolar)');
LEGEND_ALGEBRAIC(:,20) = strpad('ATP_mi in component ATP_mi (micromolar)');
LEGEND_ALGEBRAIC(:,17) = strpad('ATP_fi in component ATP_fi (micromolar)');
LEGEND_CONSTANTS(:,19) = strpad('kDTi in component ATP_fi (micromolar)');
LEGEND_ALGEBRAIC(:,21) = strpad('ADP_me in component ADP_me (micromolar)');
LEGEND_STATES(:,8) = strpad('ADP_te in component ADP_te (micromolar)');
LEGEND_ALGEBRAIC(:,19) = strpad('ADP_fe in component ADP_fe (micromolar)');
LEGEND_CONSTANTS(:,20) = strpad('kDDe in component ADP_fe (micromolar)');
LEGEND_CONSTANTS(:,21) = strpad('Mg_fe in component Mg_fe (micromolar)');
LEGEND_ALGEBRAIC(:,46) = strpad('vUT in component vUT (flux)');
LEGEND_ALGEBRAIC(:,47) = strpad('vAK in component vAK (flux)');
LEGEND_ALGEBRAIC(:,23) = strpad('ATP_me in component ATP_me (micromolar)');
LEGEND_STATES(:,9) = strpad('ATP_te in component ATP_te (micromolar)');
LEGEND_ALGEBRAIC(:,22) = strpad('ATP_fe in component ATP_fe (micromolar)');
LEGEND_CONSTANTS(:,22) = strpad('kDTe in component ATP_fe (micromolar)');
LEGEND_ALGEBRAIC(:,24) = strpad('AMP_e in component AMP_e (micromolar)');
LEGEND_CONSTANTS(:,23) = strpad('Ae_SUM in component AMP_e (micromolar)');
LEGEND_ALGEBRAIC(:,25) = strpad('Cr in component Cr (micromolar)');
LEGEND_CONSTANTS(:,24) = strpad('C_SUM in component Cr (micromolar)');
LEGEND_STATES(:,10) = strpad('PCr in component PCr (micromolar)');
LEGEND_ALGEBRAIC(:,27) = strpad('Pi_ji in component Pi_ji (micromolar)');
LEGEND_STATES(:,11) = strpad('Pi_ti in component Pi_ti (micromolar)');
LEGEND_ALGEBRAIC(:,28) = strpad('Pi_je in component Pi_je (micromolar)');
LEGEND_STATES(:,12) = strpad('Pi_te in component Pi_te (micromolar)');
LEGEND_ALGEBRAIC(:,26) = strpad('P_SUM in component P_SUM (micromolar)');
LEGEND_CONSTANTS(:,25) = strpad('ct in component c_3 (micromolar)');
LEGEND_CONSTANTS(:,26) = strpad('Ut in component UQ (micromolar)');
LEGEND_STATES(:,13) = strpad('a_2 in component a_2 (micromolar)');
LEGEND_ALGEBRAIC(:,34) = strpad('A3_2 in component a_2 (dimensionless)');
LEGEND_CONSTANTS(:,27) = strpad('Ema0 in component a_2 (millivolt)');
LEGEND_CONSTANTS(:,28) = strpad('at in component a_2 (micromolar)');
LEGEND_ALGEBRAIC(:,2) = strpad('a_3 in component a_3 (micromolar)');
LEGEND_CONSTANTS(:,29) = strpad('kDH in component vDH (flux)');
LEGEND_CONSTANTS(:,30) = strpad('KmN in component vDH (micromolar)');
LEGEND_CONSTANTS(:,31) = strpad('pD in component vDH (dimensionless)');
LEGEND_CONSTANTS(:,32) = strpad('kC1 in component vC1 (flux)');
LEGEND_ALGEBRAIC(:,36) = strpad('delta_GC1 in component vC1 (millivolt)');
LEGEND_CONSTANTS(:,33) = strpad('kC3 in component vC3 (flux)');
LEGEND_ALGEBRAIC(:,38) = strpad('delta_GC3 in component vC3 (millivolt)');
LEGEND_CONSTANTS(:,34) = strpad('kC4 in component vC4 (flux)');
LEGEND_CONSTANTS(:,35) = strpad('KmO in component vC4 (micromolar)');
LEGEND_CONSTANTS(:,36) = strpad('kSN in component vSN (flux)');
LEGEND_ALGEBRAIC(:,42) = strpad('delta_GSN in component vSN (millivolt)');
LEGEND_ALGEBRAIC(:,41) = strpad('delta_Gp in component vSN (kilojoule_per_mole)');
LEGEND_CONSTANTS(:,37) = strpad('delta_Gp0 in component vSN (kilojoule_per_mole)');
LEGEND_ALGEBRAIC(:,43) = strpad('gamma in component vSN (dimensionless)');
LEGEND_CONSTANTS(:,38) = strpad('kEX in component vEX (flux)');
LEGEND_CONSTANTS(:,39) = strpad('km_ADP in component vEX (micromolar)');
LEGEND_CONSTANTS(:,40) = strpad('km_A in component vUT (micromolar)');
LEGEND_CONSTANTS(:,41) = strpad('kUT in component vUT (flux)');
LEGEND_CONSTANTS(:,42) = strpad('kf_AK in component vAK (second_order_rate_constant)');
LEGEND_CONSTANTS(:,43) = strpad('kb_AK in component vAK (second_order_rate_constant)');
LEGEND_CONSTANTS(:,44) = strpad('kL1 in component vLK (flux)');
LEGEND_CONSTANTS(:,45) = strpad('kL2 in component vLK (per_millivolt)');
LEGEND_CONSTANTS(:,46) = strpad('kPI in component vPI (second_order_rate_constant)');
LEGEND_CONSTANTS(:,47) = strpad('kf_CK in component vCK (third_order_rate_constant)');
LEGEND_CONSTANTS(:,48) = strpad('kb_CK in component vCK (second_order_rate_constant)');
LEGEND_CONSTANTS(:,49) = strpad('pH_o in component vEFF (dimensionless)');
LEGEND_CONSTANTS(:,50) = strpad('k_EFF in component vEFF (flux)');
LEGEND_RATES(:,3) = strpad('d/dt NADH in component NADH (micromolar)');
LEGEND_RATES(:,6) = strpad('d/dt O2 in component O2 (micromolar)');
LEGEND_RATES(:,2) = strpad('d/dt Hi in component Hi (micromolar)');
LEGEND_RATES(:,1) = strpad('d/dt He in component He (micromolar)');
LEGEND_RATES(:,7) = strpad('d/dt ATP_ti in component ATP_ti (micromolar)');
LEGEND_RATES(:,8) = strpad('d/dt ADP_te in component ADP_te (micromolar)');
LEGEND_RATES(:,9) = strpad('d/dt ATP_te in component ATP_te (micromolar)');
LEGEND_RATES(:,10) = strpad('d/dt PCr in component PCr (micromolar)');
LEGEND_RATES(:,11) = strpad('d/dt Pi_ti in component Pi_ti (micromolar)');
LEGEND_RATES(:,12) = strpad('d/dt Pi_te in component Pi_te (micromolar)');
LEGEND_RATES(:,5) = strpad('d/dt c_2 in component c_2 (micromolar)');
LEGEND_RATES(:,4) = strpad('d/dt UQH2 in component UQH2 (micromolar)');
LEGEND_RATES(:,13) = strpad('d/dt a_2 in component a_2 (micromolar)');
LEGEND_STATES = LEGEND_STATES';
LEGEND_ALGEBRAIC = LEGEND_ALGEBRAIC';
LEGEND_RATES = LEGEND_RATES';
LEGEND_CONSTANTS = LEGEND_CONSTANTS';
end
function [STATES, CONSTANTS] = initConsts()
VOI = 0; CONSTANTS = []; STATES = []; ALGEBRAIC = [];
CONSTANTS(:,1) = 15.0;
CONSTANTS(:,2) = 0.0083;
CONSTANTS(:,3) = 289.0;
CONSTANTS(:,4) = 0.0965;
CONSTANTS(:,5) = 190.0;
CONSTANTS(:,6) = 0.022;
CONSTANTS(:,7) = 0.025;
CONSTANTS(:,8) = 6.8;
STATES(:,1) = 1.00;
STATES(:,2) = 1.00;
CONSTANTS(:,9) = 0.001;
CONSTANTS(:,10) = 5.0;
CONSTANTS(:,11) = -320.0;
CONSTANTS(:,12) = 85.0;
CONSTANTS(:,13) = 250.0;
STATES(:,3) = 500.0;
STATES(:,4) = 1.00;
STATES(:,5) = 1.00;
CONSTANTS(:,14) = 2970.0;
STATES(:,6) = 1.00;
CONSTANTS(:,15) = 2.5;
CONSTANTS(:,16) = 282;
CONSTANTS(:,17) = 380.0;
CONSTANTS(:,18) = 16260.0;
STATES(:,7) = 1.00;
CONSTANTS(:,19) = 17;
STATES(:,8) = 1.00;
CONSTANTS(:,20) = 347;
CONSTANTS(:,21) = 4000.0;
STATES(:,9) = 1.00;
CONSTANTS(:,22) = 24;
CONSTANTS(:,23) = 1600.2;
CONSTANTS(:,24) = 35000.0;
STATES(:,10) = 1.00;
STATES(:,11) = 1.00;
STATES(:,12) = 1.00;
CONSTANTS(:,25) = 270.0;
CONSTANTS(:,26) = 1350.0;
STATES(:,13) = 1.00;
CONSTANTS(:,27) = 540.0;
CONSTANTS(:,28) = 135.0;
CONSTANTS(:,29) = 28074;
CONSTANTS(:,30) = 100.0;
CONSTANTS(:,31) = 0.8;
CONSTANTS(:,32) = 238.95;
CONSTANTS(:,33) = 136.41;
CONSTANTS(:,34) = 136.41;
CONSTANTS(:,35) = 120.0;
CONSTANTS(:,36) = 34316.0;
CONSTANTS(:,37) = 31.9;
CONSTANTS(:,38) = 54572;
CONSTANTS(:,39) = 3.5;
CONSTANTS(:,40) = 150.0;
CONSTANTS(:,41) = 686.5;
CONSTANTS(:,42) = 862.10;
CONSTANTS(:,43) = 22.747;
CONSTANTS(:,44) = 2.5;
CONSTANTS(:,45) = 0.038;
CONSTANTS(:,46) = 69.421;
CONSTANTS(:,47) = 1.9258;
CONSTANTS(:,48) = 0.00087538;
CONSTANTS(:,49) = 7.0;
CONSTANTS(:,50) = 1.9258;
CONSTANTS(:,51) = 2.30300.*CONSTANTS(:,2).*CONSTANTS(:,3);
CONSTANTS(:,52) = 2.30300.*CONSTANTS(:,2).*(CONSTANTS(:,3)./CONSTANTS(:,4));
CONSTANTS(:,53) = CONSTANTS(:,44).*(exp( CONSTANTS(:,45).*CONSTANTS(:,5)) - 1.00000);
if (isempty(STATES)), warning('Initial values for states not set');, end
end
function [RATES, ALGEBRAIC] = computeRates(VOI, STATES, CONSTANTS)
global algebraicVariableCount;
statesSize = size(STATES);
statesColumnCount = statesSize(2);
if ( statesColumnCount == 1)
STATES = STATES';
ALGEBRAIC = zeros(1, algebraicVariableCount);
utilOnes = 1;
else
statesRowCount = statesSize(1);
ALGEBRAIC = zeros(statesRowCount, algebraicVariableCount);
RATES = zeros(statesRowCount, statesColumnCount);
utilOnes = ones(statesRowCount, 1);
end
ALGEBRAIC(:,1) = - arbitrary_log(STATES(:,1)./1.00000e+06, 10);
ALGEBRAIC(:,5) = - arbitrary_log(STATES(:,2)./1.00000e+06, 10);
ALGEBRAIC(:,8) = CONSTANTS(:,52).*(ALGEBRAIC(:,5) - ALGEBRAIC(:,1));
ALGEBRAIC(:,9) = - (CONSTANTS(:,5) - ALGEBRAIC(:,8));
ALGEBRAIC(:,12) = ALGEBRAIC(:,9)./CONSTANTS(:,5);
ALGEBRAIC(:,29) = CONSTANTS(:,25) - STATES(:,5);
ALGEBRAIC(:,30) = CONSTANTS(:,13)+ CONSTANTS(:,52).*arbitrary_log(ALGEBRAIC(:,29)./STATES(:,5), 10);
ALGEBRAIC(:,32) = ALGEBRAIC(:,30)+ CONSTANTS(:,5).*((2.00000+ 2.00000.*ALGEBRAIC(:,12))./2.00000);
ALGEBRAIC(:,34) = power(10.0000, (ALGEBRAIC(:,32) - CONSTANTS(:,27))./CONSTANTS(:,52));
RATES(:,13) = CONSTANTS(:,28)./(1.00000+ALGEBRAIC(:,34));
ALGEBRAIC(:,13) = CONSTANTS(:,14) - STATES(:,3);
ALGEBRAIC(:,35) = CONSTANTS(:,29).*(1.00000./power(1.00000+CONSTANTS(:,30)./(ALGEBRAIC(:,13)./STATES(:,3)), CONSTANTS(:,31)));
ALGEBRAIC(:,14) = CONSTANTS(:,11)+ (CONSTANTS(:,52)./2.00000).*arbitrary_log(ALGEBRAIC(:,13)./STATES(:,3), 10);
ALGEBRAIC(:,31) = CONSTANTS(:,26) - STATES(:,4);
ALGEBRAIC(:,33) = CONSTANTS(:,12)+ (CONSTANTS(:,52)./2.00000).*arbitrary_log(ALGEBRAIC(:,31)./STATES(:,4), 10);
ALGEBRAIC(:,36) = ALGEBRAIC(:,33) - (ALGEBRAIC(:,14)+ CONSTANTS(:,5).*(4.00000./2.00000));
ALGEBRAIC(:,37) = CONSTANTS(:,32).*ALGEBRAIC(:,36);
RATES(:,3) = (ALGEBRAIC(:,35) - ALGEBRAIC(:,37)).*(CONSTANTS(:,1)./CONSTANTS(:,10));
ALGEBRAIC(:,38) = ALGEBRAIC(:,30) - (ALGEBRAIC(:,33)+ CONSTANTS(:,5).*((4.00000 - 2.00000.*ALGEBRAIC(:,12))./2.00000));
ALGEBRAIC(:,39) = CONSTANTS(:,33).*ALGEBRAIC(:,38);
RATES(:,4) = CONSTANTS(:,1).*(ALGEBRAIC(:,37) - ALGEBRAIC(:,39));
ALGEBRAIC(:,40) = CONSTANTS(:,34).*STATES(:,13).*STATES(:,5).*(1.00000./(1.00000+CONSTANTS(:,35)./STATES(:,6)));
RATES(:,6) = - ALGEBRAIC(:,40);
RATES(:,5) = (ALGEBRAIC(:,39)+ ALGEBRAIC(:,40).*2.00000).*CONSTANTS(:,1).*2.00000;
ALGEBRAIC(:,15) = CONSTANTS(:,18) - STATES(:,7);
ALGEBRAIC(:,41) = CONSTANTS(:,37)./(CONSTANTS(:,4)+ CONSTANTS(:,52).*arbitrary_log( 1.00000e+06.*(STATES(:,7)./( ALGEBRAIC(:,15).*STATES(:,11))), 10));
ALGEBRAIC(:,42) = CONSTANTS(:,15).*CONSTANTS(:,5) - ALGEBRAIC(:,41);
ALGEBRAIC(:,43) = power(10.0000, ALGEBRAIC(:,42)./CONSTANTS(:,52));
ALGEBRAIC(:,44) = CONSTANTS(:,36).*((ALGEBRAIC(:,43) - 1.00000)./(ALGEBRAIC(:,43)+1.00000));
ALGEBRAIC(:,11) = 0.650000.*ALGEBRAIC(:,9);
ALGEBRAIC(:,16) = ALGEBRAIC(:,15)./(1.00000+CONSTANTS(:,17)./CONSTANTS(:,16));
ALGEBRAIC(:,17) = STATES(:,7)./(1.00000+CONSTANTS(:,17)./CONSTANTS(:,19));
ALGEBRAIC(:,19) = STATES(:,8)./(1.00000+CONSTANTS(:,21)./CONSTANTS(:,20));
ALGEBRAIC(:,22) = STATES(:,9)./(1.00000+CONSTANTS(:,21)./CONSTANTS(:,22));
ALGEBRAIC(:,45) = CONSTANTS(:,38).*(ALGEBRAIC(:,19)./(ALGEBRAIC(:,19)+ ALGEBRAIC(:,22).*power(10.0000, - ALGEBRAIC(:,11)./CONSTANTS(:,52))) - ALGEBRAIC(:,16)./(ALGEBRAIC(:,16)+ ALGEBRAIC(:,17).*power(10.0000, - ALGEBRAIC(:,11)./CONSTANTS(:,52)))).*(1.00000./(1.00000+CONSTANTS(:,39)./ALGEBRAIC(:,19)));
RATES(:,7) = (ALGEBRAIC(:,44) - ALGEBRAIC(:,45)).*CONSTANTS(:,1);
ALGEBRAIC(:,6) = (power(10.0000, - ALGEBRAIC(:,5)) - power(10.0000, - ALGEBRAIC(:,5) - CONSTANTS(:,9)))./CONSTANTS(:,9);
ALGEBRAIC(:,7) = CONSTANTS(:,6)./ALGEBRAIC(:,6);
ALGEBRAIC(:,27) = STATES(:,11)./(1.00000+power(10.0000, ALGEBRAIC(:,5) - CONSTANTS(:,8)));
ALGEBRAIC(:,28) = STATES(:,12)./(1.00000+power(10.0000, ALGEBRAIC(:,1) - CONSTANTS(:,8)));
ALGEBRAIC(:,48) = CONSTANTS(:,46).*( STATES(:,1).*ALGEBRAIC(:,28) - STATES(:,2).*ALGEBRAIC(:,27));
RATES(:,2) = ( (( (4.00000 - 2.00000.*ALGEBRAIC(:,12)).*ALGEBRAIC(:,39)+ 4.00000.*ALGEBRAIC(:,37)) - ( 2.00000.*(2.00000+ 2.00000.*ALGEBRAIC(:,12)).*ALGEBRAIC(:,40)+ CONSTANTS(:,15).*ALGEBRAIC(:,44)+ ALGEBRAIC(:,12).*ALGEBRAIC(:,45)+ (1.00000 - ALGEBRAIC(:,12)).*ALGEBRAIC(:,48)+CONSTANTS(:,53))).*CONSTANTS(:,1))./ALGEBRAIC(:,7);
RATES(:,11) = (ALGEBRAIC(:,48) - ALGEBRAIC(:,44)).*CONSTANTS(:,1);
ALGEBRAIC(:,46) = CONSTANTS(:,41).*(1.00000./(1.00000+CONSTANTS(:,40)./STATES(:,9)));
RATES(:,12) = ALGEBRAIC(:,46) - ALGEBRAIC(:,48);
ALGEBRAIC(:,25) = CONSTANTS(:,24) - STATES(:,10);
ALGEBRAIC(:,49) = CONSTANTS(:,47).*STATES(:,8).*STATES(:,10).*STATES(:,1) - CONSTANTS(:,48).*STATES(:,9).*ALGEBRAIC(:,25);
ALGEBRAIC(:,21) = STATES(:,8) - ALGEBRAIC(:,19);
ALGEBRAIC(:,23) = STATES(:,9) - ALGEBRAIC(:,22);
ALGEBRAIC(:,24) = CONSTANTS(:,23) - (STATES(:,9)+STATES(:,8));
ALGEBRAIC(:,47) = CONSTANTS(:,42).*ALGEBRAIC(:,21).*ALGEBRAIC(:,19) - CONSTANTS(:,43).*ALGEBRAIC(:,23).*ALGEBRAIC(:,24);
RATES(:,8) = ALGEBRAIC(:,46) - (ALGEBRAIC(:,45)+ 2.00000.*ALGEBRAIC(:,47)+ALGEBRAIC(:,49));
RATES(:,9) = (ALGEBRAIC(:,45)+ALGEBRAIC(:,47)+ALGEBRAIC(:,49)) - ALGEBRAIC(:,46);
RATES(:,10) = - ALGEBRAIC(:,49);
ALGEBRAIC(:,3) = (power(10.0000, - ALGEBRAIC(:,1)) - power(10.0000, - ALGEBRAIC(:,1) - CONSTANTS(:,9)))./CONSTANTS(:,9);
ALGEBRAIC(:,4) = CONSTANTS(:,7)./ALGEBRAIC(:,3);
ALGEBRAIC(:,50) = CONSTANTS(:,50).*(CONSTANTS(:,49) - ALGEBRAIC(:,1));
RATES(:,1) = (( 2.00000.*(2.00000+ 2.00000.*ALGEBRAIC(:,12)).*ALGEBRAIC(:,40)+ (4.00000 - 2.00000.*ALGEBRAIC(:,12)).*ALGEBRAIC(:,39)+ 4.00000.*ALGEBRAIC(:,37)) - ( CONSTANTS(:,15).*ALGEBRAIC(:,44)+ ALGEBRAIC(:,12).*ALGEBRAIC(:,45)+ (1.00000 - ALGEBRAIC(:,12)).*ALGEBRAIC(:,48)+CONSTANTS(:,53)+ALGEBRAIC(:,49)+ALGEBRAIC(:,50)))./ALGEBRAIC(:,4);
RATES = RATES';
end
% Calculate algebraic variables
function ALGEBRAIC = computeAlgebraic(ALGEBRAIC, CONSTANTS, STATES, VOI)
statesSize = size(STATES);
statesColumnCount = statesSize(2);
if ( statesColumnCount == 1)
STATES = STATES';
utilOnes = 1;
else
statesRowCount = statesSize(1);
utilOnes = ones(statesRowCount, 1);
end
ALGEBRAIC(:,1) = - arbitrary_log(STATES(:,1)./1.00000e+06, 10);
ALGEBRAIC(:,5) = - arbitrary_log(STATES(:,2)./1.00000e+06, 10);
ALGEBRAIC(:,8) = CONSTANTS(:,52).*(ALGEBRAIC(:,5) - ALGEBRAIC(:,1));
ALGEBRAIC(:,9) = - (CONSTANTS(:,5) - ALGEBRAIC(:,8));
ALGEBRAIC(:,12) = ALGEBRAIC(:,9)./CONSTANTS(:,5);
ALGEBRAIC(:,29) = CONSTANTS(:,25) - STATES(:,5);
ALGEBRAIC(:,30) = CONSTANTS(:,13)+ CONSTANTS(:,52).*arbitrary_log(ALGEBRAIC(:,29)./STATES(:,5), 10);
ALGEBRAIC(:,32) = ALGEBRAIC(:,30)+ CONSTANTS(:,5).*((2.00000+ 2.00000.*ALGEBRAIC(:,12))./2.00000);
ALGEBRAIC(:,34) = power(10.0000, (ALGEBRAIC(:,32) - CONSTANTS(:,27))./CONSTANTS(:,52));
ALGEBRAIC(:,13) = CONSTANTS(:,14) - STATES(:,3);
ALGEBRAIC(:,35) = CONSTANTS(:,29).*(1.00000./power(1.00000+CONSTANTS(:,30)./(ALGEBRAIC(:,13)./STATES(:,3)), CONSTANTS(:,31)));
ALGEBRAIC(:,14) = CONSTANTS(:,11)+ (CONSTANTS(:,52)./2.00000).*arbitrary_log(ALGEBRAIC(:,13)./STATES(:,3), 10);
ALGEBRAIC(:,31) = CONSTANTS(:,26) - STATES(:,4);
ALGEBRAIC(:,33) = CONSTANTS(:,12)+ (CONSTANTS(:,52)./2.00000).*arbitrary_log(ALGEBRAIC(:,31)./STATES(:,4), 10);
ALGEBRAIC(:,36) = ALGEBRAIC(:,33) - (ALGEBRAIC(:,14)+ CONSTANTS(:,5).*(4.00000./2.00000));
ALGEBRAIC(:,37) = CONSTANTS(:,32).*ALGEBRAIC(:,36);
ALGEBRAIC(:,38) = ALGEBRAIC(:,30) - (ALGEBRAIC(:,33)+ CONSTANTS(:,5).*((4.00000 - 2.00000.*ALGEBRAIC(:,12))./2.00000));
ALGEBRAIC(:,39) = CONSTANTS(:,33).*ALGEBRAIC(:,38);
ALGEBRAIC(:,40) = CONSTANTS(:,34).*STATES(:,13).*STATES(:,5).*(1.00000./(1.00000+CONSTANTS(:,35)./STATES(:,6)));
ALGEBRAIC(:,15) = CONSTANTS(:,18) - STATES(:,7);
ALGEBRAIC(:,41) = CONSTANTS(:,37)./(CONSTANTS(:,4)+ CONSTANTS(:,52).*arbitrary_log( 1.00000e+06.*(STATES(:,7)./( ALGEBRAIC(:,15).*STATES(:,11))), 10));
ALGEBRAIC(:,42) = CONSTANTS(:,15).*CONSTANTS(:,5) - ALGEBRAIC(:,41);
ALGEBRAIC(:,43) = power(10.0000, ALGEBRAIC(:,42)./CONSTANTS(:,52));
ALGEBRAIC(:,44) = CONSTANTS(:,36).*((ALGEBRAIC(:,43) - 1.00000)./(ALGEBRAIC(:,43)+1.00000));
ALGEBRAIC(:,11) = 0.650000.*ALGEBRAIC(:,9);
ALGEBRAIC(:,16) = ALGEBRAIC(:,15)./(1.00000+CONSTANTS(:,17)./CONSTANTS(:,16));
ALGEBRAIC(:,17) = STATES(:,7)./(1.00000+CONSTANTS(:,17)./CONSTANTS(:,19));
ALGEBRAIC(:,19) = STATES(:,8)./(1.00000+CONSTANTS(:,21)./CONSTANTS(:,20));
ALGEBRAIC(:,22) = STATES(:,9)./(1.00000+CONSTANTS(:,21)./CONSTANTS(:,22));
ALGEBRAIC(:,45) = CONSTANTS(:,38).*(ALGEBRAIC(:,19)./(ALGEBRAIC(:,19)+ ALGEBRAIC(:,22).*power(10.0000, - ALGEBRAIC(:,11)./CONSTANTS(:,52))) - ALGEBRAIC(:,16)./(ALGEBRAIC(:,16)+ ALGEBRAIC(:,17).*power(10.0000, - ALGEBRAIC(:,11)./CONSTANTS(:,52)))).*(1.00000./(1.00000+CONSTANTS(:,39)./ALGEBRAIC(:,19)));
ALGEBRAIC(:,6) = (power(10.0000, - ALGEBRAIC(:,5)) - power(10.0000, - ALGEBRAIC(:,5) - CONSTANTS(:,9)))./CONSTANTS(:,9);
ALGEBRAIC(:,7) = CONSTANTS(:,6)./ALGEBRAIC(:,6);
ALGEBRAIC(:,27) = STATES(:,11)./(1.00000+power(10.0000, ALGEBRAIC(:,5) - CONSTANTS(:,8)));
ALGEBRAIC(:,28) = STATES(:,12)./(1.00000+power(10.0000, ALGEBRAIC(:,1) - CONSTANTS(:,8)));
ALGEBRAIC(:,48) = CONSTANTS(:,46).*( STATES(:,1).*ALGEBRAIC(:,28) - STATES(:,2).*ALGEBRAIC(:,27));
ALGEBRAIC(:,46) = CONSTANTS(:,41).*(1.00000./(1.00000+CONSTANTS(:,40)./STATES(:,9)));
ALGEBRAIC(:,25) = CONSTANTS(:,24) - STATES(:,10);
ALGEBRAIC(:,49) = CONSTANTS(:,47).*STATES(:,8).*STATES(:,10).*STATES(:,1) - CONSTANTS(:,48).*STATES(:,9).*ALGEBRAIC(:,25);
ALGEBRAIC(:,21) = STATES(:,8) - ALGEBRAIC(:,19);
ALGEBRAIC(:,23) = STATES(:,9) - ALGEBRAIC(:,22);
ALGEBRAIC(:,24) = CONSTANTS(:,23) - (STATES(:,9)+STATES(:,8));
ALGEBRAIC(:,47) = CONSTANTS(:,42).*ALGEBRAIC(:,21).*ALGEBRAIC(:,19) - CONSTANTS(:,43).*ALGEBRAIC(:,23).*ALGEBRAIC(:,24);
ALGEBRAIC(:,3) = (power(10.0000, - ALGEBRAIC(:,1)) - power(10.0000, - ALGEBRAIC(:,1) - CONSTANTS(:,9)))./CONSTANTS(:,9);
ALGEBRAIC(:,4) = CONSTANTS(:,7)./ALGEBRAIC(:,3);
ALGEBRAIC(:,50) = CONSTANTS(:,50).*(CONSTANTS(:,49) - ALGEBRAIC(:,1));
ALGEBRAIC(:,2) = CONSTANTS(:,28) - STATES(:,13);
ALGEBRAIC(:,10) = -0.350000.*ALGEBRAIC(:,9);
ALGEBRAIC(:,18) = ALGEBRAIC(:,15) - ALGEBRAIC(:,16);
ALGEBRAIC(:,20) = STATES(:,7) - ALGEBRAIC(:,17);
ALGEBRAIC(:,26) = STATES(:,10)+ STATES(:,9).*3.00000+ STATES(:,8).*2.00000+ALGEBRAIC(:,24)+STATES(:,12)+( STATES(:,7).*3.00000+ ALGEBRAIC(:,15).*2.00000+STATES(:,11))./CONSTANTS(:,1);
end
% Compute a logarithm to any base" +
function x = arbitrary_log(a, base)
x = log(a) ./ log(base);
end
% Pad out or shorten strings to a set length
function strout = strpad(strin)
req_length = 160;
insize = size(strin,2);
if insize > req_length
strout = strin(1:req_length);
else
strout = [strin, blanks(req_length - insize)];
end
end