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 =30;
end
% There are a total of 18 entries in each of the rate and state variable arrays.
% There are a total of 33 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_STATES(:,1) = strpad('q_ATP in component environment (fmol)');
LEGEND_STATES(:,2) = strpad('q_AC in component environment (fmol)');
LEGEND_STATES(:,3) = strpad('q_cAMP in component environment (fmol)');
LEGEND_STATES(:,4) = strpad('q_AC_ATP in component environment (fmol)');
LEGEND_STATES(:,5) = strpad('q_FSK in component environment (fmol)');
LEGEND_STATES(:,6) = strpad('q_FSK_AC in component environment (fmol)');
LEGEND_STATES(:,7) = strpad('q_FSK_AC_ATP in component environment (fmol)');
LEGEND_STATES(:,8) = strpad('q_Gsa_GTP in component environment (fmol)');
LEGEND_STATES(:,9) = strpad('q_Gsa_GTP_AC in component environment (fmol)');
LEGEND_STATES(:,10) = strpad('q_Gsa_GTP_AC_ATP in component environment (fmol)');
LEGEND_STATES(:,11) = strpad('q_PDE in component environment (fmol)');
LEGEND_STATES(:,12) = strpad('q_PDEinh in component environment (fmol)');
LEGEND_STATES(:,13) = strpad('q_PDE_cAMP in component environment (fmol)');
LEGEND_STATES(:,14) = strpad('q_IBMX in component environment (fmol)');
LEGEND_STATES(:,15) = strpad('q_five_AMP in component environment (fmol)');
LEGEND_STATES(:,16) = strpad('q_Gia_GTP in component environment (fmol)');
LEGEND_STATES(:,17) = strpad('q_ACinh in component environment (fmol)');
LEGEND_STATES(:,18) = strpad('q_PPi in component environment (fmol)');
LEGEND_ALGEBRAIC(:,19) = strpad('v_1a in component cAMP (fmol_per_sec)');
LEGEND_ALGEBRAIC(:,20) = strpad('v_1b in component cAMP (fmol_per_sec)');
LEGEND_ALGEBRAIC(:,21) = strpad('v_2a in component cAMP (fmol_per_sec)');
LEGEND_ALGEBRAIC(:,22) = strpad('v_2b in component cAMP (fmol_per_sec)');
LEGEND_ALGEBRAIC(:,23) = strpad('v_3a in component cAMP (fmol_per_sec)');
LEGEND_ALGEBRAIC(:,24) = strpad('v_3b in component cAMP (fmol_per_sec)');
LEGEND_ALGEBRAIC(:,25) = strpad('v_4a in component cAMP (fmol_per_sec)');
LEGEND_ALGEBRAIC(:,27) = strpad('v_4b in component cAMP (fmol_per_sec)');
LEGEND_ALGEBRAIC(:,29) = strpad('v_5 in component cAMP (fmol_per_sec)');
LEGEND_ALGEBRAIC(:,26) = strpad('v_6 in component cAMP (fmol_per_sec)');
LEGEND_ALGEBRAIC(:,28) = strpad('v_7 in component cAMP (fmol_per_sec)');
LEGEND_ALGEBRAIC(:,30) = strpad('v_GiAC in component cAMP (fmol_per_sec)');
LEGEND_CONSTANTS(:,1) = strpad('kappa_1a in component cAMP_parameters (fmol_per_sec)');
LEGEND_CONSTANTS(:,2) = strpad('kappa_1b in component cAMP_parameters (fmol_per_sec)');
LEGEND_CONSTANTS(:,3) = strpad('kappa_2a in component cAMP_parameters (fmol_per_sec)');
LEGEND_CONSTANTS(:,4) = strpad('kappa_2b in component cAMP_parameters (fmol_per_sec)');
LEGEND_CONSTANTS(:,5) = strpad('kappa_3a in component cAMP_parameters (fmol_per_sec)');
LEGEND_CONSTANTS(:,6) = strpad('kappa_3b in component cAMP_parameters (fmol_per_sec)');
LEGEND_CONSTANTS(:,7) = strpad('kappa_4a in component cAMP_parameters (fmol_per_sec)');
LEGEND_CONSTANTS(:,8) = strpad('kappa_4b in component cAMP_parameters (fmol_per_sec)');
LEGEND_CONSTANTS(:,9) = strpad('kappa_5 in component cAMP_parameters (fmol_per_sec)');
LEGEND_CONSTANTS(:,10) = strpad('kappa_6 in component cAMP_parameters (fmol_per_sec)');
LEGEND_CONSTANTS(:,11) = strpad('kappa_7 in component cAMP_parameters (fmol_per_sec)');
LEGEND_CONSTANTS(:,12) = strpad('kappa_GiAC in component cAMP_parameters (fmol_per_sec)');
LEGEND_CONSTANTS(:,13) = strpad('K_ATP in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,14) = strpad('K_cAMP in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,15) = strpad('K_AC in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,16) = strpad('K_AC_ATP in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,17) = strpad('K_Gsa_GTP_AC in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,18) = strpad('K_Gsa_GTP_AC_ATP in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,19) = strpad('K_FSK_AC in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,20) = strpad('K_FSK_AC_ATP in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,21) = strpad('K_PDE in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,22) = strpad('K_PDE_cAMP in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,23) = strpad('K_five_AMP in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,24) = strpad('K_IBMX in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,25) = strpad('K_PDEinh in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,26) = strpad('K_Gsa_GTP in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,27) = strpad('K_FSK in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,28) = strpad('K_Gia_GTP in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,29) = strpad('K_ACinh in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,30) = strpad('K_PPi in component cAMP_parameters (per_fmol)');
LEGEND_CONSTANTS(:,31) = strpad('R in component constants (J_per_K_per_mol)');
LEGEND_CONSTANTS(:,32) = strpad('T in component constants (kelvin)');
LEGEND_ALGEBRAIC(:,1) = strpad('mu_ATP in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,2) = strpad('mu_cAMP in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,3) = strpad('mu_AC in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,4) = strpad('mu_AC_ATP in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,5) = strpad('mu_Gsa_GTP_AC in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,6) = strpad('mu_Gsa_GTP_AC_ATP in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,7) = strpad('mu_FSK_AC in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,8) = strpad('mu_FSK_AC_ATP in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,9) = strpad('mu_PDE in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,10) = strpad('mu_PDE_cAMP in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,11) = strpad('mu_five_AMP in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,12) = strpad('mu_IBMX in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,13) = strpad('mu_PDEinh in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,14) = strpad('mu_Gsa_GTP in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,15) = strpad('mu_FSK in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,16) = strpad('mu_Gia_GTP in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,17) = strpad('mu_ACinh in component cAMP (J_per_mol)');
LEGEND_ALGEBRAIC(:,18) = strpad('mu_PPi in component cAMP (J_per_mol)');
LEGEND_CONSTANTS(:,33) = strpad('F in component constants (C_per_mol)');
LEGEND_RATES(:,1) = strpad('d/dt q_ATP in component environment (fmol)');
LEGEND_RATES(:,2) = strpad('d/dt q_AC in component environment (fmol)');
LEGEND_RATES(:,4) = strpad('d/dt q_AC_ATP in component environment (fmol)');
LEGEND_RATES(:,3) = strpad('d/dt q_cAMP in component environment (fmol)');
LEGEND_RATES(:,5) = strpad('d/dt q_FSK in component environment (fmol)');
LEGEND_RATES(:,6) = strpad('d/dt q_FSK_AC in component environment (fmol)');
LEGEND_RATES(:,7) = strpad('d/dt q_FSK_AC_ATP in component environment (fmol)');
LEGEND_RATES(:,8) = strpad('d/dt q_Gsa_GTP in component environment (fmol)');
LEGEND_RATES(:,9) = strpad('d/dt q_Gsa_GTP_AC in component environment (fmol)');
LEGEND_RATES(:,10) = strpad('d/dt q_Gsa_GTP_AC_ATP in component environment (fmol)');
LEGEND_RATES(:,13) = strpad('d/dt q_PDE_cAMP in component environment (fmol)');
LEGEND_RATES(:,11) = strpad('d/dt q_PDE in component environment (fmol)');
LEGEND_RATES(:,14) = strpad('d/dt q_IBMX in component environment (fmol)');
LEGEND_RATES(:,12) = strpad('d/dt q_PDEinh in component environment (fmol)');
LEGEND_RATES(:,15) = strpad('d/dt q_five_AMP in component environment (fmol)');
LEGEND_RATES(:,16) = strpad('d/dt q_Gia_GTP in component environment (fmol)');
LEGEND_RATES(:,17) = strpad('d/dt q_ACinh in component environment (fmol)');
LEGEND_RATES(:,18) = strpad('d/dt q_PPi in component environment (fmol)');
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 = [];
STATES(:,1) = 190;
STATES(:,2) = 1.889E-03;
STATES(:,3) = 3.212E-02;
STATES(:,4) = 1e-18;
STATES(:,5) = 3.8e-5;
STATES(:,6) = 1e-18;
STATES(:,7) = 1e-18;
STATES(:,8) = 9.519E-04;
STATES(:,9) = 1e-18;
STATES(:,10) = 1e-18;
STATES(:,11) = 1.482E-03;
STATES(:,12) = 1e-18;
STATES(:,13) = 1e-18;
STATES(:,14) = 3.80E-06;
STATES(:,15) = 1e-18;
STATES(:,16) = 4.81E-04;
STATES(:,17) = 1e-18;
STATES(:,18) = 1e-18;
CONSTANTS(:,1) = 9.47329e+06;
CONSTANTS(:,2) = 0.00197793;
CONSTANTS(:,3) = 176000;
CONSTANTS(:,4) = 0.047492;
CONSTANTS(:,5) = 5.07667e+08;
CONSTANTS(:,6) = 5.9031e-17;
CONSTANTS(:,7) = 36084.5;
CONSTANTS(:,8) = 0.138787;
CONSTANTS(:,9) = 751.564;
CONSTANTS(:,10) = 556.617;
CONSTANTS(:,11) = 160555;
CONSTANTS(:,12) = 685.521;
CONSTANTS(:,13) = 9.19362e-06;
CONSTANTS(:,14) = 0.0102598;
CONSTANTS(:,15) = 9.02358;
CONSTANTS(:,16) = 2.93942;
CONSTANTS(:,17) = 52.2258;
CONSTANTS(:,18) = 5.20284;
CONSTANTS(:,19) = 0.181058;
CONSTANTS(:,20) = 0.0492449;
CONSTANTS(:,21) = 2.28256;
CONSTANTS(:,22) = 1.04728;
CONSTANTS(:,23) = 0.0102598;
CONSTANTS(:,24) = 0.01642;
CONSTANTS(:,25) = 38.679;
CONSTANTS(:,26) = 0.420618;
CONSTANTS(:,27) = 1.32565e-05;
CONSTANTS(:,28) = 0.013661;
CONSTANTS(:,29) = 42.4053;
CONSTANTS(:,30) = 2.60488e-05;
CONSTANTS(:,31) = 8.31;
CONSTANTS(:,32) = 310;
CONSTANTS(:,33) = 96485;
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) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,13).*STATES(:,1));
ALGEBRAIC(:,3) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,15).*STATES(:,2));
ALGEBRAIC(:,4) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,16).*STATES(:,4));
ALGEBRAIC(:,19) = CONSTANTS(:,1).*(exp((ALGEBRAIC(:,3)+ALGEBRAIC(:,1))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,4)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
ALGEBRAIC(:,2) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,14).*STATES(:,3));
ALGEBRAIC(:,18) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,30).*STATES(:,18));
ALGEBRAIC(:,20) = CONSTANTS(:,2).*(exp(ALGEBRAIC(:,4)./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp((ALGEBRAIC(:,3)+ALGEBRAIC(:,2)+ALGEBRAIC(:,18))./( CONSTANTS(:,31).*CONSTANTS(:,32))));
RATES(:,4) = ALGEBRAIC(:,19) - ALGEBRAIC(:,20);
ALGEBRAIC(:,5) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,17).*STATES(:,9));
ALGEBRAIC(:,6) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,18).*STATES(:,10));
ALGEBRAIC(:,21) = CONSTANTS(:,3).*(exp((ALGEBRAIC(:,5)+ALGEBRAIC(:,1))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,6)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
ALGEBRAIC(:,22) = CONSTANTS(:,4).*(exp(ALGEBRAIC(:,6)./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp((ALGEBRAIC(:,5)+ALGEBRAIC(:,2)+ALGEBRAIC(:,18))./( CONSTANTS(:,31).*CONSTANTS(:,32))));
RATES(:,10) = ALGEBRAIC(:,21) - ALGEBRAIC(:,22);
ALGEBRAIC(:,7) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,19).*STATES(:,6));
ALGEBRAIC(:,8) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,20).*STATES(:,7));
ALGEBRAIC(:,23) = CONSTANTS(:,5).*(exp((ALGEBRAIC(:,7)+ALGEBRAIC(:,1))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,8)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
RATES(:,1) = ( - ALGEBRAIC(:,19) - ALGEBRAIC(:,23)) - ALGEBRAIC(:,21);
ALGEBRAIC(:,24) = CONSTANTS(:,6).*(exp(ALGEBRAIC(:,8)./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp((ALGEBRAIC(:,7)+ALGEBRAIC(:,2)+ALGEBRAIC(:,18))./( CONSTANTS(:,31).*CONSTANTS(:,32))));
RATES(:,7) = ALGEBRAIC(:,23) - ALGEBRAIC(:,24);
ALGEBRAIC(:,9) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,21).*STATES(:,11));
ALGEBRAIC(:,10) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,22).*STATES(:,13));
ALGEBRAIC(:,25) = CONSTANTS(:,7).*(exp((ALGEBRAIC(:,9)+ALGEBRAIC(:,2))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,10)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
RATES(:,3) = (ALGEBRAIC(:,20)+ALGEBRAIC(:,24)+ALGEBRAIC(:,22)) - ALGEBRAIC(:,25);
ALGEBRAIC(:,14) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,26).*STATES(:,8));
ALGEBRAIC(:,26) = CONSTANTS(:,10).*(exp((ALGEBRAIC(:,3)+ALGEBRAIC(:,14))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,5)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
RATES(:,8) = - ALGEBRAIC(:,26);
RATES(:,9) = (ALGEBRAIC(:,26) - ALGEBRAIC(:,21))+ALGEBRAIC(:,22);
ALGEBRAIC(:,15) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,27).*STATES(:,5));
ALGEBRAIC(:,28) = CONSTANTS(:,11).*(exp((ALGEBRAIC(:,15)+ALGEBRAIC(:,3))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,7)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
RATES(:,5) = - ALGEBRAIC(:,28);
RATES(:,6) = (ALGEBRAIC(:,28)+ALGEBRAIC(:,24)) - ALGEBRAIC(:,23);
ALGEBRAIC(:,11) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,23).*STATES(:,15));
ALGEBRAIC(:,27) = CONSTANTS(:,8).*(exp(ALGEBRAIC(:,10)./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp((ALGEBRAIC(:,9)+ALGEBRAIC(:,11))./( CONSTANTS(:,31).*CONSTANTS(:,32))));
RATES(:,13) = ALGEBRAIC(:,25) - ALGEBRAIC(:,27);
RATES(:,15) = ALGEBRAIC(:,27);
ALGEBRAIC(:,16) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,28).*STATES(:,16));
ALGEBRAIC(:,17) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,29).*STATES(:,17));
ALGEBRAIC(:,30) = CONSTANTS(:,12).*(exp((ALGEBRAIC(:,3)+ALGEBRAIC(:,16))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,17)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
RATES(:,2) = (((ALGEBRAIC(:,20) - ALGEBRAIC(:,19)) - ALGEBRAIC(:,26)) - ALGEBRAIC(:,28)) - ALGEBRAIC(:,30);
ALGEBRAIC(:,12) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,24).*STATES(:,14));
ALGEBRAIC(:,13) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,25).*STATES(:,12));
ALGEBRAIC(:,29) = CONSTANTS(:,9).*(exp((ALGEBRAIC(:,9)+ALGEBRAIC(:,12))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,13)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
RATES(:,11) = (ALGEBRAIC(:,27) - ALGEBRAIC(:,25)) - ALGEBRAIC(:,29);
RATES(:,14) = - ALGEBRAIC(:,29);
RATES(:,12) = ALGEBRAIC(:,29);
RATES(:,16) = - ALGEBRAIC(:,30);
RATES(:,17) = ALGEBRAIC(:,30);
RATES(:,18) = ALGEBRAIC(:,30);
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) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,13).*STATES(:,1));
ALGEBRAIC(:,3) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,15).*STATES(:,2));
ALGEBRAIC(:,4) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,16).*STATES(:,4));
ALGEBRAIC(:,19) = CONSTANTS(:,1).*(exp((ALGEBRAIC(:,3)+ALGEBRAIC(:,1))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,4)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
ALGEBRAIC(:,2) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,14).*STATES(:,3));
ALGEBRAIC(:,18) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,30).*STATES(:,18));
ALGEBRAIC(:,20) = CONSTANTS(:,2).*(exp(ALGEBRAIC(:,4)./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp((ALGEBRAIC(:,3)+ALGEBRAIC(:,2)+ALGEBRAIC(:,18))./( CONSTANTS(:,31).*CONSTANTS(:,32))));
ALGEBRAIC(:,5) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,17).*STATES(:,9));
ALGEBRAIC(:,6) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,18).*STATES(:,10));
ALGEBRAIC(:,21) = CONSTANTS(:,3).*(exp((ALGEBRAIC(:,5)+ALGEBRAIC(:,1))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,6)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
ALGEBRAIC(:,22) = CONSTANTS(:,4).*(exp(ALGEBRAIC(:,6)./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp((ALGEBRAIC(:,5)+ALGEBRAIC(:,2)+ALGEBRAIC(:,18))./( CONSTANTS(:,31).*CONSTANTS(:,32))));
ALGEBRAIC(:,7) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,19).*STATES(:,6));
ALGEBRAIC(:,8) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,20).*STATES(:,7));
ALGEBRAIC(:,23) = CONSTANTS(:,5).*(exp((ALGEBRAIC(:,7)+ALGEBRAIC(:,1))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,8)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
ALGEBRAIC(:,24) = CONSTANTS(:,6).*(exp(ALGEBRAIC(:,8)./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp((ALGEBRAIC(:,7)+ALGEBRAIC(:,2)+ALGEBRAIC(:,18))./( CONSTANTS(:,31).*CONSTANTS(:,32))));
ALGEBRAIC(:,9) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,21).*STATES(:,11));
ALGEBRAIC(:,10) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,22).*STATES(:,13));
ALGEBRAIC(:,25) = CONSTANTS(:,7).*(exp((ALGEBRAIC(:,9)+ALGEBRAIC(:,2))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,10)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
ALGEBRAIC(:,14) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,26).*STATES(:,8));
ALGEBRAIC(:,26) = CONSTANTS(:,10).*(exp((ALGEBRAIC(:,3)+ALGEBRAIC(:,14))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,5)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
ALGEBRAIC(:,15) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,27).*STATES(:,5));
ALGEBRAIC(:,28) = CONSTANTS(:,11).*(exp((ALGEBRAIC(:,15)+ALGEBRAIC(:,3))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,7)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
ALGEBRAIC(:,11) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,23).*STATES(:,15));
ALGEBRAIC(:,27) = CONSTANTS(:,8).*(exp(ALGEBRAIC(:,10)./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp((ALGEBRAIC(:,9)+ALGEBRAIC(:,11))./( CONSTANTS(:,31).*CONSTANTS(:,32))));
ALGEBRAIC(:,16) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,28).*STATES(:,16));
ALGEBRAIC(:,17) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,29).*STATES(:,17));
ALGEBRAIC(:,30) = CONSTANTS(:,12).*(exp((ALGEBRAIC(:,3)+ALGEBRAIC(:,16))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,17)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
ALGEBRAIC(:,12) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,24).*STATES(:,14));
ALGEBRAIC(:,13) = CONSTANTS(:,31).*CONSTANTS(:,32).*log( CONSTANTS(:,25).*STATES(:,12));
ALGEBRAIC(:,29) = CONSTANTS(:,9).*(exp((ALGEBRAIC(:,9)+ALGEBRAIC(:,12))./( CONSTANTS(:,31).*CONSTANTS(:,32))) - exp(ALGEBRAIC(:,13)./( CONSTANTS(:,31).*CONSTANTS(:,32))));
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