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 =24;
end
% There are a total of 22 entries in each of the rate and state variable arrays.
% There are a total of 60 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 (minute)');
LEGEND_CONSTANTS(:,1) = strpad('Glc_x_0 in component Glc_x_0 (millimolar)');
LEGEND_STATES(:,1) = strpad('Glc_x in component Glc_x (millimolar)');
LEGEND_ALGEBRAIC(:,2) = strpad('GlcTrans in component GlcTrans (flux)');
LEGEND_ALGEBRAIC(:,1) = strpad('inGlc in component inGlc (flux)');
LEGEND_STATES(:,2) = strpad('Glc in component Glc (millimolar)');
LEGEND_ALGEBRAIC(:,3) = strpad('HK in component HK (flux)');
LEGEND_STATES(:,3) = strpad('G6P in component G6P (millimolar)');
LEGEND_ALGEBRAIC(:,4) = strpad('PGI in component PGI (flux)');
LEGEND_ALGEBRAIC(:,11) = strpad('storage in component storage (flux)');
LEGEND_STATES(:,4) = strpad('F6P in component F6P (millimolar)');
LEGEND_ALGEBRAIC(:,5) = strpad('PFK in component PFK (flux)');
LEGEND_STATES(:,5) = strpad('FBP in component FBP (millimolar)');
LEGEND_ALGEBRAIC(:,6) = strpad('ALD in component ALD (flux)');
LEGEND_STATES(:,6) = strpad('GAP in component GAP (millimolar)');
LEGEND_ALGEBRAIC(:,8) = strpad('GAPDH in component GAPDH (flux)');
LEGEND_ALGEBRAIC(:,7) = strpad('TIM in component TIM (flux)');
LEGEND_STATES(:,7) = strpad('DHAP in component DHAP (millimolar)');
LEGEND_ALGEBRAIC(:,15) = strpad('lpGlyc in component lpGlyc (flux)');
LEGEND_STATES(:,8) = strpad('BPG in component BPG (millimolar)');
LEGEND_ALGEBRAIC(:,9) = strpad('lpPEP in component lpPEP (flux)');
LEGEND_STATES(:,9) = strpad('PEP in component PEP (millimolar)');
LEGEND_ALGEBRAIC(:,10) = strpad('PK in component PK (flux)');
LEGEND_STATES(:,10) = strpad('Pyr in component Pyr (millimolar)');
LEGEND_ALGEBRAIC(:,12) = strpad('PDC in component PDC (flux)');
LEGEND_STATES(:,11) = strpad('ATP in component ATP (millimolar)');
LEGEND_ALGEBRAIC(:,13) = strpad('consum in component consum (flux)');
LEGEND_ALGEBRAIC(:,16) = strpad('AK in component AK (flux)');
LEGEND_STATES(:,12) = strpad('ADP in component ADP (millimolar)');
LEGEND_STATES(:,13) = strpad('AMP in component AMP (millimolar)');
LEGEND_CONSTANTS(:,2) = strpad('CN_x_0 in component CN_x_0 (millimolar)');
LEGEND_STATES(:,14) = strpad('CN_x in component CN_x (millimolar)');
LEGEND_ALGEBRAIC(:,22) = strpad('lacto in component lacto (flux)');
LEGEND_ALGEBRAIC(:,24) = strpad('inCN in component inCN (flux)');
LEGEND_STATES(:,15) = strpad('ACA in component ACA (millimolar)');
LEGEND_ALGEBRAIC(:,19) = strpad('difACA in component difACA (flux)');
LEGEND_ALGEBRAIC(:,14) = strpad('ADH in component ADH (flux)');
LEGEND_STATES(:,16) = strpad('ACA_x in component ACA_x (millimolar)');
LEGEND_ALGEBRAIC(:,17) = strpad('outACA in component outACA (flux)');
LEGEND_STATES(:,17) = strpad('EtOH in component EtOH (millimolar)');
LEGEND_ALGEBRAIC(:,20) = strpad('difEtOH in component difEtOH (flux)');
LEGEND_STATES(:,18) = strpad('EtOH_x in component EtOH_x (millimolar)');
LEGEND_ALGEBRAIC(:,18) = strpad('outEtOH in component outEtOH (flux)');
LEGEND_STATES(:,19) = strpad('Glyc in component Glyc (millimolar)');
LEGEND_ALGEBRAIC(:,23) = strpad('difGlyc in component difGlyc (flux)');
LEGEND_STATES(:,20) = strpad('Glyc_x in component Glyc_x (millimolar)');
LEGEND_ALGEBRAIC(:,21) = strpad('outGlyc in component outGlyc (flux)');
LEGEND_STATES(:,21) = strpad('NADH in component NADH (millimolar)');
LEGEND_STATES(:,22) = strpad('NAD in component NAD (millimolar)');
LEGEND_CONSTANTS(:,3) = strpad('k0 in component model_parameters (first_order_rate_constant)');
LEGEND_CONSTANTS(:,4) = strpad('K2_Glc in component GlcTrans (millimolar)');
LEGEND_CONSTANTS(:,5) = strpad('K2_IG6P in component GlcTrans (millimolar)');
LEGEND_CONSTANTS(:,6) = strpad('K2_IIG6P in component GlcTrans (millimolar)');
LEGEND_CONSTANTS(:,7) = strpad('V_2m in component GlcTrans (flux)');
LEGEND_CONSTANTS(:,8) = strpad('P2 in component GlcTrans (dimensionless)');
LEGEND_CONSTANTS(:,9) = strpad('y_vol in component model_parameters (dimensionless)');
LEGEND_CONSTANTS(:,10) = strpad('K3_DGlc in component HK (millimolar)');
LEGEND_CONSTANTS(:,11) = strpad('K3_Glc in component HK (millimolar)');
LEGEND_CONSTANTS(:,12) = strpad('K3_ATP in component HK (millimolar)');
LEGEND_CONSTANTS(:,13) = strpad('V_3m in component HK (flux)');
LEGEND_CONSTANTS(:,14) = strpad('V_4m in component PGI (flux)');
LEGEND_CONSTANTS(:,15) = strpad('K4_G6P in component PGI (millimolar)');
LEGEND_CONSTANTS(:,16) = strpad('K4_F6P in component PGI (millimolar)');
LEGEND_CONSTANTS(:,17) = strpad('K4_eq in component PGI (dimensionless)');
LEGEND_CONSTANTS(:,18) = strpad('K5 in component PFK (millimolar2)');
LEGEND_CONSTANTS(:,19) = strpad('kappa5 in component PFK (dimensionless)');
LEGEND_CONSTANTS(:,20) = strpad('V_5m in component PFK (flux)');
LEGEND_CONSTANTS(:,21) = strpad('K6_eq in component ALD (millimolar)');
LEGEND_CONSTANTS(:,22) = strpad('K6_FBP in component ALD (millimolar)');
LEGEND_CONSTANTS(:,23) = strpad('K6_DHAP in component ALD (millimolar)');
LEGEND_CONSTANTS(:,24) = strpad('K6_GAP in component ALD (millimolar)');
LEGEND_CONSTANTS(:,25) = strpad('K6_IGAP in component ALD (millimolar)');
LEGEND_CONSTANTS(:,26) = strpad('V_6r in component ALD (flux)');
LEGEND_CONSTANTS(:,27) = strpad('V_6f in component ALD (flux)');
LEGEND_CONSTANTS(:,28) = strpad('K7_eq in component TIM (dimensionless)');
LEGEND_CONSTANTS(:,29) = strpad('K7_DHAP in component TIM (millimolar)');
LEGEND_CONSTANTS(:,30) = strpad('K7_GAP in component TIM (millimolar)');
LEGEND_CONSTANTS(:,31) = strpad('V_7m in component TIM (flux)');
LEGEND_CONSTANTS(:,32) = strpad('K8_NAD in component GAPDH (millimolar)');
LEGEND_CONSTANTS(:,33) = strpad('K8_NADH in component GAPDH (millimolar)');
LEGEND_CONSTANTS(:,34) = strpad('K8_GAP in component GAPDH (millimolar)');
LEGEND_CONSTANTS(:,35) = strpad('K8_BPG in component GAPDH (millimolar)');
LEGEND_CONSTANTS(:,36) = strpad('K8_eq in component GAPDH (dimensionless)');
LEGEND_CONSTANTS(:,37) = strpad('V_8m in component GAPDH (flux)');
LEGEND_CONSTANTS(:,38) = strpad('k9f in component lpPEP (second_order_rate_constant)');
LEGEND_CONSTANTS(:,39) = strpad('k9r in component lpPEP (second_order_rate_constant)');
LEGEND_CONSTANTS(:,40) = strpad('K10_PEP in component PK (millimolar)');
LEGEND_CONSTANTS(:,41) = strpad('K10_ADP in component PK (millimolar)');
LEGEND_CONSTANTS(:,42) = strpad('V_10m in component PK (flux)');
LEGEND_CONSTANTS(:,43) = strpad('K11 in component PDC (millimolar)');
LEGEND_CONSTANTS(:,44) = strpad('V_11m in component PDC (flux)');
LEGEND_CONSTANTS(:,45) = strpad('K12_NADH in component ADH (millimolar)');
LEGEND_CONSTANTS(:,46) = strpad('K12_ACA in component ADH (millimolar)');
LEGEND_CONSTANTS(:,47) = strpad('V_12m in component ADH (flux)');
LEGEND_CONSTANTS(:,48) = strpad('k13 in component difEtOH (first_order_rate_constant)');
LEGEND_CONSTANTS(:,49) = strpad('K15_NADH in component lpGlyc (millimolar)');
LEGEND_CONSTANTS(:,50) = strpad('K15_INADH in component lpGlyc (millimolar)');
LEGEND_CONSTANTS(:,51) = strpad('K15_INAD in component lpGlyc (millimolar)');
LEGEND_CONSTANTS(:,52) = strpad('K15_DHAP in component lpGlyc (millimolar)');
LEGEND_CONSTANTS(:,53) = strpad('V_15m in component lpGlyc (flux)');
LEGEND_CONSTANTS(:,54) = strpad('k16 in component difGlyc (first_order_rate_constant)');
LEGEND_CONSTANTS(:,55) = strpad('k18 in component difACA (first_order_rate_constant)');
LEGEND_CONSTANTS(:,56) = strpad('k20 in component lacto (second_order_rate_constant)');
LEGEND_CONSTANTS(:,57) = strpad('k22 in component storage (second_order_rate_constant)');
LEGEND_CONSTANTS(:,58) = strpad('k23 in component consum (first_order_rate_constant)');
LEGEND_CONSTANTS(:,59) = strpad('k24f in component AK (second_order_rate_constant)');
LEGEND_CONSTANTS(:,60) = strpad('k24r in component AK (second_order_rate_constant)');
LEGEND_RATES(:,1) = strpad('d/dt Glc_x in component Glc_x (millimolar)');
LEGEND_RATES(:,2) = strpad('d/dt Glc in component Glc (millimolar)');
LEGEND_RATES(:,3) = strpad('d/dt G6P in component G6P (millimolar)');
LEGEND_RATES(:,4) = strpad('d/dt F6P in component F6P (millimolar)');
LEGEND_RATES(:,5) = strpad('d/dt FBP in component FBP (millimolar)');
LEGEND_RATES(:,6) = strpad('d/dt GAP in component GAP (millimolar)');
LEGEND_RATES(:,7) = strpad('d/dt DHAP in component DHAP (millimolar)');
LEGEND_RATES(:,8) = strpad('d/dt BPG in component BPG (millimolar)');
LEGEND_RATES(:,9) = strpad('d/dt PEP in component PEP (millimolar)');
LEGEND_RATES(:,10) = strpad('d/dt Pyr in component Pyr (millimolar)');
LEGEND_RATES(:,11) = strpad('d/dt ATP in component ATP (millimolar)');
LEGEND_RATES(:,12) = strpad('d/dt ADP in component ADP (millimolar)');
LEGEND_RATES(:,13) = strpad('d/dt AMP in component AMP (millimolar)');
LEGEND_RATES(:,14) = strpad('d/dt CN_x in component CN_x (millimolar)');
LEGEND_RATES(:,15) = strpad('d/dt ACA in component ACA (millimolar)');
LEGEND_RATES(:,16) = strpad('d/dt ACA_x in component ACA_x (millimolar)');
LEGEND_RATES(:,17) = strpad('d/dt EtOH in component EtOH (millimolar)');
LEGEND_RATES(:,18) = strpad('d/dt EtOH_x in component EtOH_x (millimolar)');
LEGEND_RATES(:,19) = strpad('d/dt Glyc in component Glyc (millimolar)');
LEGEND_RATES(:,20) = strpad('d/dt Glyc_x in component Glyc_x (millimolar)');
LEGEND_RATES(:,21) = strpad('d/dt NADH in component NADH (millimolar)');
LEGEND_RATES(:,22) = strpad('d/dt NAD in component NAD (millimolar)');
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) = 24.0;
STATES(:,1) = 6.7;
STATES(:,2) = 0.573074;
STATES(:,3) = 4.2;
STATES(:,4) = 0.49;
STATES(:,5) = 4.64;
STATES(:,6) = 0.115;
STATES(:,7) = 2.95;
STATES(:,8) = 0.00027;
STATES(:,9) = 0.04;
STATES(:,10) = 8.7;
STATES(:,11) = 2.1;
STATES(:,12) = 1.5;
STATES(:,13) = 0.33;
CONSTANTS(:,2) = 5.60;
STATES(:,14) = 5.20358;
STATES(:,15) = 1.48153;
STATES(:,16) = 1.28836;
STATES(:,17) = 19.2379;
STATES(:,18) = 16.4514;
STATES(:,19) = 4.196;
STATES(:,20) = 1.68478;
STATES(:,21) = 0.33;
STATES(:,22) = 0.65;
CONSTANTS(:,3) = 0.048;
CONSTANTS(:,4) = 1.7;
CONSTANTS(:,5) = 1.2;
CONSTANTS(:,6) = 7.2;
CONSTANTS(:,7) = 1014.96;
CONSTANTS(:,8) = 1.0;
CONSTANTS(:,9) = 59.0;
CONSTANTS(:,10) = 0.37;
CONSTANTS(:,11) = 0.0;
CONSTANTS(:,12) = 0.1;
CONSTANTS(:,13) = 51.7547;
CONSTANTS(:,14) = 496.042;
CONSTANTS(:,15) = 0.8;
CONSTANTS(:,16) = 0.15;
CONSTANTS(:,17) = 0.13;
CONSTANTS(:,18) = 0.021;
CONSTANTS(:,19) = 0.15;
CONSTANTS(:,20) = 45.4327;
CONSTANTS(:,21) = 0.081;
CONSTANTS(:,22) = 0.3;
CONSTANTS(:,23) = 2.0;
CONSTANTS(:,24) = 4.0;
CONSTANTS(:,25) = 10.0;
CONSTANTS(:,26) = 1.10391E4;
CONSTANTS(:,27) = 2.20782E3;
CONSTANTS(:,28) = 0.055;
CONSTANTS(:,29) = 1.23;
CONSTANTS(:,30) = 1.27;
CONSTANTS(:,31) = 1.16365E2;
CONSTANTS(:,32) = 0.1;
CONSTANTS(:,33) = 0.06;
CONSTANTS(:,34) = 0.6;
CONSTANTS(:,35) = 0.01;
CONSTANTS(:,36) = 0.0055;
CONSTANTS(:,37) = 8.33858E2;
CONSTANTS(:,38) = 4.43866E5;
CONSTANTS(:,39) = 1.52862E3;
CONSTANTS(:,40) = 0.2;
CONSTANTS(:,41) = 0.17;
CONSTANTS(:,42) = 3.43096E2;
CONSTANTS(:,43) = 0.3;
CONSTANTS(:,44) = 5.31328E1;
CONSTANTS(:,45) = 0.1;
CONSTANTS(:,46) = 0.71;
CONSTANTS(:,47) = 8.98023E1;
CONSTANTS(:,48) = 16.72;
CONSTANTS(:,49) = 0.13;
CONSTANTS(:,50) = 0.034;
CONSTANTS(:,51) = 0.13;
CONSTANTS(:,52) = 25.0;
CONSTANTS(:,53) = 8.14797E1;
CONSTANTS(:,54) = 1.9;
CONSTANTS(:,55) = 24.7;
CONSTANTS(:,56) = 2.83828E-3;
CONSTANTS(:,57) = 2.25932;
CONSTANTS(:,58) = 3.20760;
CONSTANTS(:,59) = 4.32900E2;
CONSTANTS(:,60) = 1.33333E2;
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(:,2) = (CONSTANTS(:,7)./CONSTANTS(:,9)).*((STATES(:,1)./CONSTANTS(:,4))./(1.00000+STATES(:,1)./CONSTANTS(:,4)+ (( CONSTANTS(:,8).*(STATES(:,1)./CONSTANTS(:,4))+1.00000)./( CONSTANTS(:,8).*(STATES(:,2)./CONSTANTS(:,4))+1.00000)).*(1.00000+STATES(:,2)./CONSTANTS(:,4)+STATES(:,3)./CONSTANTS(:,5)+( STATES(:,2).*STATES(:,3))./( CONSTANTS(:,4).*CONSTANTS(:,6))))) - (CONSTANTS(:,7)./CONSTANTS(:,9)).*((STATES(:,2)./CONSTANTS(:,4))./(1.00000+STATES(:,2)./CONSTANTS(:,4)+ (( CONSTANTS(:,8).*(STATES(:,2)./CONSTANTS(:,4))+1.00000)./( CONSTANTS(:,8).*(STATES(:,1)./CONSTANTS(:,4))+1.00000)).*(1.00000+STATES(:,1)./CONSTANTS(:,4))+STATES(:,3)./CONSTANTS(:,5)+( STATES(:,2).*STATES(:,3))./( CONSTANTS(:,4).*CONSTANTS(:,6))));
ALGEBRAIC(:,1) = CONSTANTS(:,3).*(CONSTANTS(:,1) - STATES(:,1));
RATES(:,1) = ALGEBRAIC(:,1) - ALGEBRAIC(:,2);
ALGEBRAIC(:,3) = ( CONSTANTS(:,13).*STATES(:,11).*STATES(:,2))./( CONSTANTS(:,10).*CONSTANTS(:,12)+ CONSTANTS(:,11).*STATES(:,11)+ CONSTANTS(:,12).*STATES(:,2)+ STATES(:,2).*STATES(:,11));
RATES(:,2) = 59.0000.*ALGEBRAIC(:,2) - ALGEBRAIC(:,3);
ALGEBRAIC(:,4) = ( CONSTANTS(:,14).*STATES(:,3))./(CONSTANTS(:,15)+STATES(:,3)+ (CONSTANTS(:,15)./CONSTANTS(:,16)).*STATES(:,4)) - ( CONSTANTS(:,14).*(STATES(:,4)./CONSTANTS(:,17)))./(CONSTANTS(:,15)+STATES(:,3)+ (CONSTANTS(:,15)./CONSTANTS(:,16)).*STATES(:,4));
ALGEBRAIC(:,5) = ( CONSTANTS(:,20).*power(STATES(:,4), 2.00000))./( CONSTANTS(:,18).*(1.00000+ CONSTANTS(:,19).*(STATES(:,11)./STATES(:,13)).*(STATES(:,11)./STATES(:,13)))+power(STATES(:,4), 2.00000));
RATES(:,4) = ALGEBRAIC(:,4) - ALGEBRAIC(:,5);
ALGEBRAIC(:,6) = ( CONSTANTS(:,27).*STATES(:,5))./(CONSTANTS(:,22)+STATES(:,5)+( STATES(:,6).*CONSTANTS(:,23).*CONSTANTS(:,27))./( CONSTANTS(:,21).*CONSTANTS(:,26))+( STATES(:,7).*CONSTANTS(:,24).*CONSTANTS(:,27))./( CONSTANTS(:,21).*CONSTANTS(:,26))+( STATES(:,5).*STATES(:,6))./CONSTANTS(:,25)+( STATES(:,6).*STATES(:,7).*CONSTANTS(:,27))./( CONSTANTS(:,21).*CONSTANTS(:,26))) - ( CONSTANTS(:,27).*(( STATES(:,6).*STATES(:,7))./CONSTANTS(:,21)))./(CONSTANTS(:,22)+STATES(:,5)+( STATES(:,6).*CONSTANTS(:,23).*CONSTANTS(:,27))./( CONSTANTS(:,21).*CONSTANTS(:,26))+( STATES(:,7).*CONSTANTS(:,24).*CONSTANTS(:,27))./( CONSTANTS(:,21).*CONSTANTS(:,26))+( STATES(:,5).*STATES(:,6))./CONSTANTS(:,25)+( STATES(:,6).*STATES(:,7).*CONSTANTS(:,27))./( CONSTANTS(:,21).*CONSTANTS(:,26)));
RATES(:,5) = ALGEBRAIC(:,5) - ALGEBRAIC(:,6);
ALGEBRAIC(:,8) = ( CONSTANTS(:,37).*STATES(:,6).*STATES(:,22))./( CONSTANTS(:,34).*CONSTANTS(:,32).*(1.00000+STATES(:,6)./CONSTANTS(:,34)+STATES(:,8)./CONSTANTS(:,35)).*(1.00000+STATES(:,22)./CONSTANTS(:,32)+STATES(:,21)./CONSTANTS(:,33))) - ( CONSTANTS(:,37).*(( STATES(:,8).*STATES(:,21))./CONSTANTS(:,36)))./( CONSTANTS(:,34).*CONSTANTS(:,32).*(1.00000+STATES(:,6)./CONSTANTS(:,34)+STATES(:,8)./CONSTANTS(:,35)).*(1.00000+STATES(:,22)./CONSTANTS(:,32)+STATES(:,21)./CONSTANTS(:,33)));
ALGEBRAIC(:,7) = ( CONSTANTS(:,31).*STATES(:,7))./(CONSTANTS(:,29)+STATES(:,7)+ (CONSTANTS(:,29)./CONSTANTS(:,30)).*STATES(:,6)) - ( CONSTANTS(:,31).*(STATES(:,6)./CONSTANTS(:,28)))./(CONSTANTS(:,29)+STATES(:,7)+ (CONSTANTS(:,29)./CONSTANTS(:,30)).*STATES(:,6));
RATES(:,6) = (ALGEBRAIC(:,6)+ALGEBRAIC(:,7)) - ALGEBRAIC(:,8);
ALGEBRAIC(:,9) = CONSTANTS(:,38).*STATES(:,8).*STATES(:,12) - CONSTANTS(:,39).*STATES(:,9).*STATES(:,11);
RATES(:,8) = ALGEBRAIC(:,8) - ALGEBRAIC(:,9);
ALGEBRAIC(:,10) = ( CONSTANTS(:,42).*STATES(:,12).*STATES(:,9))./( (CONSTANTS(:,40)+STATES(:,9)).*(CONSTANTS(:,41)+STATES(:,12)));
RATES(:,9) = ALGEBRAIC(:,9) - ALGEBRAIC(:,10);
ALGEBRAIC(:,11) = CONSTANTS(:,57).*STATES(:,11).*STATES(:,3);
RATES(:,3) = ALGEBRAIC(:,3) - (ALGEBRAIC(:,4)+ALGEBRAIC(:,11));
ALGEBRAIC(:,12) = ( CONSTANTS(:,44).*STATES(:,10))./(CONSTANTS(:,43)+STATES(:,10));
RATES(:,10) = ALGEBRAIC(:,10) - ALGEBRAIC(:,12);
ALGEBRAIC(:,15) = ( CONSTANTS(:,53).*STATES(:,7))./( CONSTANTS(:,52).*(1.00000+ (CONSTANTS(:,50)./STATES(:,21)).*(1.00000+STATES(:,22)./CONSTANTS(:,51)))+ STATES(:,7).*(1.00000+ (CONSTANTS(:,49)./STATES(:,21)).*(1.00000+STATES(:,22)./CONSTANTS(:,51))));
RATES(:,7) = ALGEBRAIC(:,6) - (ALGEBRAIC(:,7)+ALGEBRAIC(:,15));
ALGEBRAIC(:,13) = CONSTANTS(:,58).*STATES(:,11);
ALGEBRAIC(:,16) = CONSTANTS(:,59).*STATES(:,13).*STATES(:,11) - CONSTANTS(:,60).*power(STATES(:,12), 2.00000);
RATES(:,11) = (ALGEBRAIC(:,10)+ALGEBRAIC(:,9)) - (ALGEBRAIC(:,5)+ALGEBRAIC(:,11)+ALGEBRAIC(:,3)+ALGEBRAIC(:,13)+ALGEBRAIC(:,16));
RATES(:,12) = (ALGEBRAIC(:,5)+ALGEBRAIC(:,11)+ALGEBRAIC(:,3)+ALGEBRAIC(:,13)+ 2.00000.*ALGEBRAIC(:,16)) - (ALGEBRAIC(:,10)+ALGEBRAIC(:,9));
RATES(:,13) = - ALGEBRAIC(:,16);
ALGEBRAIC(:,14) = ( CONSTANTS(:,47).*STATES(:,15).*STATES(:,21))./( (CONSTANTS(:,45)+STATES(:,21)).*(CONSTANTS(:,46)+STATES(:,15)));
RATES(:,21) = ALGEBRAIC(:,8) - (ALGEBRAIC(:,14)+ALGEBRAIC(:,15));
RATES(:,22) = (ALGEBRAIC(:,14)+ALGEBRAIC(:,15)) - ALGEBRAIC(:,8);
ALGEBRAIC(:,19) = (CONSTANTS(:,55)./CONSTANTS(:,9)).*(STATES(:,15) - STATES(:,16));
RATES(:,15) = ALGEBRAIC(:,12) - ( 59.0000.*ALGEBRAIC(:,19)+ALGEBRAIC(:,14));
ALGEBRAIC(:,20) = (CONSTANTS(:,48)./CONSTANTS(:,9)).*(STATES(:,17) - STATES(:,18));
RATES(:,17) = ALGEBRAIC(:,14) - 59.0000.*ALGEBRAIC(:,20);
ALGEBRAIC(:,18) = CONSTANTS(:,3).*STATES(:,18);
RATES(:,18) = ALGEBRAIC(:,20) - ALGEBRAIC(:,18);
ALGEBRAIC(:,22) = CONSTANTS(:,56).*STATES(:,16).*STATES(:,14);
ALGEBRAIC(:,17) = CONSTANTS(:,3).*STATES(:,16);
RATES(:,16) = ALGEBRAIC(:,19) - (ALGEBRAIC(:,22)+ALGEBRAIC(:,17));
ALGEBRAIC(:,23) = (CONSTANTS(:,54)./CONSTANTS(:,9)).*(STATES(:,19) - STATES(:,20));
RATES(:,19) = ALGEBRAIC(:,15) - 59.0000.*ALGEBRAIC(:,23);
ALGEBRAIC(:,21) = CONSTANTS(:,3).*STATES(:,20);
RATES(:,20) = ALGEBRAIC(:,23) - ALGEBRAIC(:,21);
ALGEBRAIC(:,24) = CONSTANTS(:,3).*(CONSTANTS(:,2) - STATES(:,14));
RATES(:,14) = ALGEBRAIC(:,24) - ALGEBRAIC(:,22);
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(:,2) = (CONSTANTS(:,7)./CONSTANTS(:,9)).*((STATES(:,1)./CONSTANTS(:,4))./(1.00000+STATES(:,1)./CONSTANTS(:,4)+ (( CONSTANTS(:,8).*(STATES(:,1)./CONSTANTS(:,4))+1.00000)./( CONSTANTS(:,8).*(STATES(:,2)./CONSTANTS(:,4))+1.00000)).*(1.00000+STATES(:,2)./CONSTANTS(:,4)+STATES(:,3)./CONSTANTS(:,5)+( STATES(:,2).*STATES(:,3))./( CONSTANTS(:,4).*CONSTANTS(:,6))))) - (CONSTANTS(:,7)./CONSTANTS(:,9)).*((STATES(:,2)./CONSTANTS(:,4))./(1.00000+STATES(:,2)./CONSTANTS(:,4)+ (( CONSTANTS(:,8).*(STATES(:,2)./CONSTANTS(:,4))+1.00000)./( CONSTANTS(:,8).*(STATES(:,1)./CONSTANTS(:,4))+1.00000)).*(1.00000+STATES(:,1)./CONSTANTS(:,4))+STATES(:,3)./CONSTANTS(:,5)+( STATES(:,2).*STATES(:,3))./( CONSTANTS(:,4).*CONSTANTS(:,6))));
ALGEBRAIC(:,1) = CONSTANTS(:,3).*(CONSTANTS(:,1) - STATES(:,1));
ALGEBRAIC(:,3) = ( CONSTANTS(:,13).*STATES(:,11).*STATES(:,2))./( CONSTANTS(:,10).*CONSTANTS(:,12)+ CONSTANTS(:,11).*STATES(:,11)+ CONSTANTS(:,12).*STATES(:,2)+ STATES(:,2).*STATES(:,11));
ALGEBRAIC(:,4) = ( CONSTANTS(:,14).*STATES(:,3))./(CONSTANTS(:,15)+STATES(:,3)+ (CONSTANTS(:,15)./CONSTANTS(:,16)).*STATES(:,4)) - ( CONSTANTS(:,14).*(STATES(:,4)./CONSTANTS(:,17)))./(CONSTANTS(:,15)+STATES(:,3)+ (CONSTANTS(:,15)./CONSTANTS(:,16)).*STATES(:,4));
ALGEBRAIC(:,5) = ( CONSTANTS(:,20).*power(STATES(:,4), 2.00000))./( CONSTANTS(:,18).*(1.00000+ CONSTANTS(:,19).*(STATES(:,11)./STATES(:,13)).*(STATES(:,11)./STATES(:,13)))+power(STATES(:,4), 2.00000));
ALGEBRAIC(:,6) = ( CONSTANTS(:,27).*STATES(:,5))./(CONSTANTS(:,22)+STATES(:,5)+( STATES(:,6).*CONSTANTS(:,23).*CONSTANTS(:,27))./( CONSTANTS(:,21).*CONSTANTS(:,26))+( STATES(:,7).*CONSTANTS(:,24).*CONSTANTS(:,27))./( CONSTANTS(:,21).*CONSTANTS(:,26))+( STATES(:,5).*STATES(:,6))./CONSTANTS(:,25)+( STATES(:,6).*STATES(:,7).*CONSTANTS(:,27))./( CONSTANTS(:,21).*CONSTANTS(:,26))) - ( CONSTANTS(:,27).*(( STATES(:,6).*STATES(:,7))./CONSTANTS(:,21)))./(CONSTANTS(:,22)+STATES(:,5)+( STATES(:,6).*CONSTANTS(:,23).*CONSTANTS(:,27))./( CONSTANTS(:,21).*CONSTANTS(:,26))+( STATES(:,7).*CONSTANTS(:,24).*CONSTANTS(:,27))./( CONSTANTS(:,21).*CONSTANTS(:,26))+( STATES(:,5).*STATES(:,6))./CONSTANTS(:,25)+( STATES(:,6).*STATES(:,7).*CONSTANTS(:,27))./( CONSTANTS(:,21).*CONSTANTS(:,26)));
ALGEBRAIC(:,8) = ( CONSTANTS(:,37).*STATES(:,6).*STATES(:,22))./( CONSTANTS(:,34).*CONSTANTS(:,32).*(1.00000+STATES(:,6)./CONSTANTS(:,34)+STATES(:,8)./CONSTANTS(:,35)).*(1.00000+STATES(:,22)./CONSTANTS(:,32)+STATES(:,21)./CONSTANTS(:,33))) - ( CONSTANTS(:,37).*(( STATES(:,8).*STATES(:,21))./CONSTANTS(:,36)))./( CONSTANTS(:,34).*CONSTANTS(:,32).*(1.00000+STATES(:,6)./CONSTANTS(:,34)+STATES(:,8)./CONSTANTS(:,35)).*(1.00000+STATES(:,22)./CONSTANTS(:,32)+STATES(:,21)./CONSTANTS(:,33)));
ALGEBRAIC(:,7) = ( CONSTANTS(:,31).*STATES(:,7))./(CONSTANTS(:,29)+STATES(:,7)+ (CONSTANTS(:,29)./CONSTANTS(:,30)).*STATES(:,6)) - ( CONSTANTS(:,31).*(STATES(:,6)./CONSTANTS(:,28)))./(CONSTANTS(:,29)+STATES(:,7)+ (CONSTANTS(:,29)./CONSTANTS(:,30)).*STATES(:,6));
ALGEBRAIC(:,9) = CONSTANTS(:,38).*STATES(:,8).*STATES(:,12) - CONSTANTS(:,39).*STATES(:,9).*STATES(:,11);
ALGEBRAIC(:,10) = ( CONSTANTS(:,42).*STATES(:,12).*STATES(:,9))./( (CONSTANTS(:,40)+STATES(:,9)).*(CONSTANTS(:,41)+STATES(:,12)));
ALGEBRAIC(:,11) = CONSTANTS(:,57).*STATES(:,11).*STATES(:,3);
ALGEBRAIC(:,12) = ( CONSTANTS(:,44).*STATES(:,10))./(CONSTANTS(:,43)+STATES(:,10));
ALGEBRAIC(:,15) = ( CONSTANTS(:,53).*STATES(:,7))./( CONSTANTS(:,52).*(1.00000+ (CONSTANTS(:,50)./STATES(:,21)).*(1.00000+STATES(:,22)./CONSTANTS(:,51)))+ STATES(:,7).*(1.00000+ (CONSTANTS(:,49)./STATES(:,21)).*(1.00000+STATES(:,22)./CONSTANTS(:,51))));
ALGEBRAIC(:,13) = CONSTANTS(:,58).*STATES(:,11);
ALGEBRAIC(:,16) = CONSTANTS(:,59).*STATES(:,13).*STATES(:,11) - CONSTANTS(:,60).*power(STATES(:,12), 2.00000);
ALGEBRAIC(:,14) = ( CONSTANTS(:,47).*STATES(:,15).*STATES(:,21))./( (CONSTANTS(:,45)+STATES(:,21)).*(CONSTANTS(:,46)+STATES(:,15)));
ALGEBRAIC(:,19) = (CONSTANTS(:,55)./CONSTANTS(:,9)).*(STATES(:,15) - STATES(:,16));
ALGEBRAIC(:,20) = (CONSTANTS(:,48)./CONSTANTS(:,9)).*(STATES(:,17) - STATES(:,18));
ALGEBRAIC(:,18) = CONSTANTS(:,3).*STATES(:,18);
ALGEBRAIC(:,22) = CONSTANTS(:,56).*STATES(:,16).*STATES(:,14);
ALGEBRAIC(:,17) = CONSTANTS(:,3).*STATES(:,16);
ALGEBRAIC(:,23) = (CONSTANTS(:,54)./CONSTANTS(:,9)).*(STATES(:,19) - STATES(:,20));
ALGEBRAIC(:,21) = CONSTANTS(:,3).*STATES(:,20);
ALGEBRAIC(:,24) = CONSTANTS(:,3).*(CONSTANTS(:,2) - STATES(:,14));
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