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 =29;
end
% There are a total of 29 entries in each of the rate and state variable arrays.
% There are a total of 67 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_STATES(:,1) = strpad('Rs in component Rs (dimensionless)');
LEGEND_ALGEBRAIC(:,1) = strpad('v1 in component v1 (first_order_rate_constant)');
LEGEND_ALGEBRAIC(:,8) = strpad('v3 in component v3 (first_order_rate_constant)');
LEGEND_STATES(:,2) = strpad('RL in component RL (dimensionless)');
LEGEND_ALGEBRAIC(:,5) = strpad('v2 in component v2 (first_order_rate_constant)');
LEGEND_ALGEBRAIC(:,11) = strpad('v4 in component v4 (first_order_rate_constant)');
LEGEND_STATES(:,3) = strpad('Ri in component Ri (dimensionless)');
LEGEND_ALGEBRAIC(:,16) = strpad('v6 in component v6 (first_order_rate_constant)');
LEGEND_STATES(:,4) = strpad('L in component L (dimensionless)');
LEGEND_STATES(:,5) = strpad('R2L2 in component R2L2 (dimensionless)');
LEGEND_ALGEBRAIC(:,14) = strpad('v5 in component v5 (first_order_rate_constant)');
LEGEND_ALGEBRAIC(:,19) = strpad('v7 in component v7 (first_order_rate_constant)');
LEGEND_STATES(:,6) = strpad('R2_CPP in component R2_CPP (dimensionless)');
LEGEND_ALGEBRAIC(:,23) = strpad('v8 in component v8 (first_order_rate_constant)');
LEGEND_STATES(:,7) = strpad('Li in component Li (dimensionless)');
LEGEND_STATES(:,8) = strpad('R2i in component R2i (dimensionless)');
LEGEND_STATES(:,9) = strpad('Shc in component Shc (dimensionless)');
LEGEND_ALGEBRAIC(:,2) = strpad('v9 in component v9 (first_order_rate_constant)');
LEGEND_ALGEBRAIC(:,6) = strpad('v10 in component v10 (first_order_rate_constant)');
LEGEND_STATES(:,10) = strpad('ShcP in component ShcP (dimensionless)');
LEGEND_ALGEBRAIC(:,9) = strpad('v11 in component v11 (first_order_rate_constant)');
LEGEND_ALGEBRAIC(:,17) = strpad('v27 in component v27 (first_order_rate_constant)');
LEGEND_STATES(:,11) = strpad('ShcGS in component ShcGS (dimensionless)');
LEGEND_ALGEBRAIC(:,15) = strpad('v13 in component v13 (first_order_rate_constant)');
LEGEND_ALGEBRAIC(:,12) = strpad('v12 in component v12 (first_order_rate_constant)');
LEGEND_STATES(:,12) = strpad('GS in component GS (dimensionless)');
LEGEND_ALGEBRAIC(:,20) = strpad('v28 in component v28 (first_order_rate_constant)');
LEGEND_STATES(:,13) = strpad('GSP in component GSP (dimensionless)');
LEGEND_STATES(:,14) = strpad('RasGDP in component RasGDP (dimensionless)');
LEGEND_ALGEBRAIC(:,21) = strpad('v15 in component v15 (first_order_rate_constant)');
LEGEND_STATES(:,15) = strpad('Ras_ShcGS in component Ras_ShcGS (dimensionless)');
LEGEND_STATES(:,16) = strpad('RasGTP in component RasGTP (dimensionless)');
LEGEND_ALGEBRAIC(:,24) = strpad('v17 in component v17 (first_order_rate_constant)');
LEGEND_ALGEBRAIC(:,18) = strpad('v14 in component v14 (first_order_rate_constant)');
LEGEND_ALGEBRAIC(:,22) = strpad('v16 in component v16 (first_order_rate_constant)');
LEGEND_STATES(:,17) = strpad('GAP in component GAP (dimensionless)');
LEGEND_STATES(:,18) = strpad('Ras_GAP in component Ras_GAP (dimensionless)');
LEGEND_STATES(:,19) = strpad('Raf in component Raf (dimensionless)');
LEGEND_ALGEBRAIC(:,25) = strpad('v18 in component v18 (first_order_rate_constant)');
LEGEND_STATES(:,20) = strpad('Ras_Raf in component Ras_Raf (dimensionless)');
LEGEND_STATES(:,21) = strpad('Rafa in component Rafa (dimensionless)');
LEGEND_ALGEBRAIC(:,26) = strpad('v19 in component v19 (first_order_rate_constant)');
LEGEND_ALGEBRAIC(:,28) = strpad('v21 in component v21 (first_order_rate_constant)');
LEGEND_STATES(:,22) = strpad('MEK in component MEK (dimensionless)');
LEGEND_ALGEBRAIC(:,27) = strpad('v20 in component v20 (first_order_rate_constant)');
LEGEND_STATES(:,23) = strpad('MEKP in component MEKP (dimensionless)');
LEGEND_ALGEBRAIC(:,29) = strpad('v22 in component v22 (first_order_rate_constant)');
LEGEND_STATES(:,24) = strpad('MEKPP in component MEKPP (dimensionless)');
LEGEND_STATES(:,25) = strpad('ERK in component ERK (dimensionless)');
LEGEND_ALGEBRAIC(:,7) = strpad('v24 in component v24 (first_order_rate_constant)');
LEGEND_ALGEBRAIC(:,3) = strpad('v23 in component v23 (first_order_rate_constant)');
LEGEND_STATES(:,26) = strpad('ERKP in component ERKP (dimensionless)');
LEGEND_ALGEBRAIC(:,13) = strpad('v26 in component v26 (first_order_rate_constant)');
LEGEND_ALGEBRAIC(:,10) = strpad('v25 in component v25 (first_order_rate_constant)');
LEGEND_STATES(:,27) = strpad('ERKPP in component ERKPP (dimensionless)');
LEGEND_STATES(:,28) = strpad('t in component t (dimensionless)');
LEGEND_CONSTANTS(:,66) = strpad('v29 in component v29 (first_order_rate_constant)');
LEGEND_STATES(:,29) = strpad('X in component X (dimensionless)');
LEGEND_ALGEBRAIC(:,4) = strpad('v30 in component v30 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,1) = strpad('k1 in component v1 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,2) = strpad('kn1 in component v1 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,3) = strpad('DT in component v2 (dimensionless)');
LEGEND_CONSTANTS(:,4) = strpad('E in component v2 (dimensionless)');
LEGEND_CONSTANTS(:,5) = strpad('k2 in component v2 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,6) = strpad('f in component v2 (dimensionless)');
LEGEND_CONSTANTS(:,7) = strpad('DT in component v3 (dimensionless)');
LEGEND_CONSTANTS(:,8) = strpad('E in component v3 (dimensionless)');
LEGEND_CONSTANTS(:,9) = strpad('kn3 in component v3 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,10) = strpad('f in component v3 (dimensionless)');
LEGEND_CONSTANTS(:,11) = strpad('k3 in component v3 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,12) = strpad('k2_4 in component v4 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,13) = strpad('k4 in component v4 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,14) = strpad('DT in component v5 (dimensionless)');
LEGEND_CONSTANTS(:,15) = strpad('E in component v5 (dimensionless)');
LEGEND_CONSTANTS(:,16) = strpad('k5 in component v5 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,17) = strpad('f in component v5 (dimensionless)');
LEGEND_CONSTANTS(:,18) = strpad('DT in component v6 (dimensionless)');
LEGEND_CONSTANTS(:,19) = strpad('E in component v6 (dimensionless)');
LEGEND_CONSTANTS(:,20) = strpad('k6 in component v6 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,21) = strpad('k7 in component v7 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,22) = strpad('f in component v7 (dimensionless)');
LEGEND_CONSTANTS(:,23) = strpad('kn7 in component v7 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,24) = strpad('DT in component v8 (dimensionless)');
LEGEND_CONSTANTS(:,25) = strpad('E in component v8 (dimensionless)');
LEGEND_CONSTANTS(:,26) = strpad('k8 in component v8 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,27) = strpad('k9 in component v9 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,28) = strpad('K_9 in component v9 (dimensionless)');
LEGEND_CONSTANTS(:,29) = strpad('V_10 in component v10 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,30) = strpad('K_10 in component v10 (dimensionless)');
LEGEND_CONSTANTS(:,31) = strpad('k11 in component v11 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,32) = strpad('kn11 in component v11 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,33) = strpad('k12 in component v12 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,34) = strpad('kn12 in component v12 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,35) = strpad('k_13 in component v13 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,36) = strpad('k14 in component v14 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,37) = strpad('kn14 in component v14 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,38) = strpad('k15 in component v15 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,39) = strpad('k16 in component v16 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,40) = strpad('kn16 in component v16 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,41) = strpad('k17 in component v17 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,42) = strpad('V_18 in component v18 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,43) = strpad('K_18 in component v18 (dimensionless)');
LEGEND_CONSTANTS(:,44) = strpad('k19 in component v19 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,45) = strpad('K_19 in component v19 (dimensionless)');
LEGEND_CONSTANTS(:,46) = strpad('V_20 in component v20 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,47) = strpad('K_20 in component v20 (dimensionless)');
LEGEND_CONSTANTS(:,48) = strpad('k21 in component v21 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,49) = strpad('K_21 in component v21 (dimensionless)');
LEGEND_CONSTANTS(:,50) = strpad('V_22 in component v22 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,51) = strpad('K_22 in component v22 (dimensionless)');
LEGEND_CONSTANTS(:,52) = strpad('k23 in component v23 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,53) = strpad('K_23 in component v23 (dimensionless)');
LEGEND_CONSTANTS(:,54) = strpad('V_24 in component v24 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,55) = strpad('K_24 in component v24 (dimensionless)');
LEGEND_CONSTANTS(:,56) = strpad('k25 in component v25 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,57) = strpad('K_25 in component v25 (dimensionless)');
LEGEND_CONSTANTS(:,58) = strpad('V_26 in component v26 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,59) = strpad('K_26 in component v26 (dimensionless)');
LEGEND_CONSTANTS(:,60) = strpad('k27 in component v27 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,61) = strpad('K_27 in component v27 (dimensionless)');
LEGEND_CONSTANTS(:,62) = strpad('V_28 in component v28 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,63) = strpad('K_28 in component v28 (dimensionless)');
LEGEND_CONSTANTS(:,64) = strpad('v_1 in component v29 (first_order_rate_constant)');
LEGEND_CONSTANTS(:,65) = strpad('k_11 in component v30 (first_order_rate_constant)');
LEGEND_RATES(:,1) = strpad('d/dt Rs in component Rs (dimensionless)');
LEGEND_RATES(:,2) = strpad('d/dt RL in component RL (dimensionless)');
LEGEND_RATES(:,3) = strpad('d/dt Ri in component Ri (dimensionless)');
LEGEND_RATES(:,4) = strpad('d/dt L in component L (dimensionless)');
LEGEND_RATES(:,5) = strpad('d/dt R2L2 in component R2L2 (dimensionless)');
LEGEND_RATES(:,6) = strpad('d/dt R2_CPP in component R2_CPP (dimensionless)');
LEGEND_RATES(:,7) = strpad('d/dt Li in component Li (dimensionless)');
LEGEND_RATES(:,8) = strpad('d/dt R2i in component R2i (dimensionless)');
LEGEND_RATES(:,9) = strpad('d/dt Shc in component Shc (dimensionless)');
LEGEND_RATES(:,10) = strpad('d/dt ShcP in component ShcP (dimensionless)');
LEGEND_RATES(:,11) = strpad('d/dt ShcGS in component ShcGS (dimensionless)');
LEGEND_RATES(:,12) = strpad('d/dt GS in component GS (dimensionless)');
LEGEND_RATES(:,13) = strpad('d/dt GSP in component GSP (dimensionless)');
LEGEND_RATES(:,14) = strpad('d/dt RasGDP in component RasGDP (dimensionless)');
LEGEND_RATES(:,15) = strpad('d/dt Ras_ShcGS in component Ras_ShcGS (dimensionless)');
LEGEND_RATES(:,16) = strpad('d/dt RasGTP in component RasGTP (dimensionless)');
LEGEND_RATES(:,17) = strpad('d/dt GAP in component GAP (dimensionless)');
LEGEND_RATES(:,18) = strpad('d/dt Ras_GAP in component Ras_GAP (dimensionless)');
LEGEND_RATES(:,19) = strpad('d/dt Raf in component Raf (dimensionless)');
LEGEND_RATES(:,20) = strpad('d/dt Ras_Raf in component Ras_Raf (dimensionless)');
LEGEND_RATES(:,21) = strpad('d/dt Rafa in component Rafa (dimensionless)');
LEGEND_RATES(:,22) = strpad('d/dt MEK in component MEK (dimensionless)');
LEGEND_RATES(:,23) = strpad('d/dt MEKP in component MEKP (dimensionless)');
LEGEND_RATES(:,24) = strpad('d/dt MEKPP in component MEKPP (dimensionless)');
LEGEND_RATES(:,25) = strpad('d/dt ERK in component ERK (dimensionless)');
LEGEND_RATES(:,26) = strpad('d/dt ERKP in component ERKP (dimensionless)');
LEGEND_RATES(:,27) = strpad('d/dt ERKPP in component ERKPP (dimensionless)');
LEGEND_RATES(:,28) = strpad('d/dt t in component t (dimensionless)');
LEGEND_RATES(:,29) = strpad('d/dt X in component X (dimensionless)');
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) = 11100;
STATES(:,2) = 0;
STATES(:,3) = 3900;
STATES(:,4) = 0.0000001;
STATES(:,5) = 0;
STATES(:,6) = 0;
STATES(:,7) = 0;
STATES(:,8) = 0;
STATES(:,9) = 30000;
STATES(:,10) = 0;
STATES(:,11) = 0;
STATES(:,12) = 20000;
STATES(:,13) = 0;
STATES(:,14) = 19800;
STATES(:,15) = 0;
STATES(:,16) = 200;
STATES(:,17) = 15000;
STATES(:,18) = 0;
STATES(:,19) = 10000;
STATES(:,20) = 0;
STATES(:,21) = 0;
STATES(:,22) = 360000;
STATES(:,23) = 0;
STATES(:,24) = 0;
STATES(:,25) = 750000;
STATES(:,26) = 0;
STATES(:,27) = 0;
STATES(:,28) = 0;
STATES(:,29) = 0;
CONSTANTS(:,1) = 384210000;
CONSTANTS(:,2) = 0.73;
CONSTANTS(:,3) = 6.5;
CONSTANTS(:,4) = 0.12;
CONSTANTS(:,5) = 0.7;
CONSTANTS(:,6) = 0.2;
CONSTANTS(:,7) = 6.5;
CONSTANTS(:,8) = 0.12;
CONSTANTS(:,9) = 0.7;
CONSTANTS(:,10) = 0.2;
CONSTANTS(:,11) = 0.0484;
CONSTANTS(:,12) = 0.0000001;
CONSTANTS(:,13) = 0.001383;
CONSTANTS(:,14) = 6.5;
CONSTANTS(:,15) = 0.12;
CONSTANTS(:,16) = 0.35;
CONSTANTS(:,17) = 0.2;
CONSTANTS(:,18) = 6.5;
CONSTANTS(:,19) = 0.12;
CONSTANTS(:,20) = 0.35;
CONSTANTS(:,21) = 1;
CONSTANTS(:,22) = 0.2;
CONSTANTS(:,23) = 0.000347;
CONSTANTS(:,24) = 6.5;
CONSTANTS(:,25) = 0.12;
CONSTANTS(:,26) = 0.35;
CONSTANTS(:,27) = 12;
CONSTANTS(:,28) = 6000;
CONSTANTS(:,29) = 300000;
CONSTANTS(:,30) = 6000;
CONSTANTS(:,31) = 0.002;
CONSTANTS(:,32) = 3.81;
CONSTANTS(:,33) = 0.0163;
CONSTANTS(:,34) = 10;
CONSTANTS(:,35) = 15;
CONSTANTS(:,36) = 0.005;
CONSTANTS(:,37) = 60;
CONSTANTS(:,38) = 720;
CONSTANTS(:,39) = 0.0012;
CONSTANTS(:,40) = 3;
CONSTANTS(:,41) = 27;
CONSTANTS(:,42) = 97000;
CONSTANTS(:,43) = 6000;
CONSTANTS(:,44) = 50;
CONSTANTS(:,45) = 9000;
CONSTANTS(:,46) = 920000;
CONSTANTS(:,47) = 600000;
CONSTANTS(:,48) = 50;
CONSTANTS(:,49) = 9000;
CONSTANTS(:,50) = 920000;
CONSTANTS(:,51) = 600000;
CONSTANTS(:,52) = 8.3;
CONSTANTS(:,53) = 90000;
CONSTANTS(:,54) = 200000;
CONSTANTS(:,55) = 600000;
CONSTANTS(:,56) = 8.3;
CONSTANTS(:,57) = 90000;
CONSTANTS(:,58) = 400000;
CONSTANTS(:,59) = 600000;
CONSTANTS(:,60) = 1.6;
CONSTANTS(:,61) = 600000;
CONSTANTS(:,62) = 75;
CONSTANTS(:,63) = 20000;
CONSTANTS(:,64) = 1;
CONSTANTS(:,65) = 0;
CONSTANTS(:,66) = CONSTANTS(:,64);
CONSTANTS(:,66) = CONSTANTS(:,66);
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
RATES(:,28) = CONSTANTS(:,66);
ALGEBRAIC(:,1) = CONSTANTS(:,1).*STATES(:,1).*STATES(:,4) - CONSTANTS(:,2).*STATES(:,2);
RATES(:,4) = - ALGEBRAIC(:,1);
ALGEBRAIC(:,4) = CONSTANTS(:,65).*STATES(:,28);
RATES(:,29) = ALGEBRAIC(:,4);
ALGEBRAIC(:,2) = ( CONSTANTS(:,27).*2.00000.*(STATES(:,5)+STATES(:,8)+STATES(:,6)).*STATES(:,9))./(CONSTANTS(:,28)+STATES(:,9));
ALGEBRAIC(:,6) = ( CONSTANTS(:,29).*STATES(:,10))./(CONSTANTS(:,30)+STATES(:,10));
RATES(:,9) = ALGEBRAIC(:,6) - ALGEBRAIC(:,2);
ALGEBRAIC(:,7) = ( CONSTANTS(:,54).*STATES(:,26))./(CONSTANTS(:,55)+STATES(:,26));
ALGEBRAIC(:,3) = ( CONSTANTS(:,52).*STATES(:,25).*(STATES(:,23)+STATES(:,24)))./(CONSTANTS(:,53)+STATES(:,25));
RATES(:,25) = ALGEBRAIC(:,7) - ALGEBRAIC(:,3);
ALGEBRAIC(:,8) = CONSTANTS(:,11).*STATES(:,3) - CONSTANTS(:,10).*CONSTANTS(:,9).*(CONSTANTS(:,8)+ (1.00000 - CONSTANTS(:,8)).*(1.00000 - exp( - power(STATES(:,28)./CONSTANTS(:,7), 3.00000)))).*STATES(:,1);
RATES(:,1) = ALGEBRAIC(:,8) - ALGEBRAIC(:,1);
ALGEBRAIC(:,5) = CONSTANTS(:,6).*CONSTANTS(:,5).*(CONSTANTS(:,4)+ (1.00000 - CONSTANTS(:,4)).*(1.00000 - exp( - power(STATES(:,28)./CONSTANTS(:,3), 3.00000)))).*STATES(:,2);
ALGEBRAIC(:,11) = CONSTANTS(:,13).*STATES(:,2).*STATES(:,2) - CONSTANTS(:,12).*STATES(:,5);
RATES(:,2) = (ALGEBRAIC(:,1) - ALGEBRAIC(:,5)) - ALGEBRAIC(:,11);
ALGEBRAIC(:,13) = ( CONSTANTS(:,58).*STATES(:,27))./(CONSTANTS(:,59)+STATES(:,27));
ALGEBRAIC(:,10) = ( CONSTANTS(:,56).*STATES(:,26).*(STATES(:,23)+STATES(:,24)))./(CONSTANTS(:,57)+STATES(:,26));
RATES(:,26) = ((ALGEBRAIC(:,3)+ALGEBRAIC(:,13)) - ALGEBRAIC(:,7)) - ALGEBRAIC(:,10);
RATES(:,27) = ALGEBRAIC(:,10) - ALGEBRAIC(:,13);
ALGEBRAIC(:,15) = CONSTANTS(:,35).*STATES(:,15);
ALGEBRAIC(:,12) = CONSTANTS(:,33).*STATES(:,14).*STATES(:,11) - CONSTANTS(:,34).*STATES(:,15);
RATES(:,15) = ALGEBRAIC(:,12) - ALGEBRAIC(:,15);
ALGEBRAIC(:,16) = CONSTANTS(:,20).*(CONSTANTS(:,19)+ (1.00000 - CONSTANTS(:,19)).*(1.00000 - exp( - power(STATES(:,28)./CONSTANTS(:,18), 3.00000)))).*STATES(:,8);
RATES(:,3) = ALGEBRAIC(:,5)+ALGEBRAIC(:,8)+ALGEBRAIC(:,16);
RATES(:,7) = ALGEBRAIC(:,5)+ALGEBRAIC(:,16);
ALGEBRAIC(:,9) = CONSTANTS(:,31).*STATES(:,10).*STATES(:,12) - CONSTANTS(:,32).*STATES(:,11);
ALGEBRAIC(:,17) = ( STATES(:,27).*STATES(:,11).*CONSTANTS(:,60))./(CONSTANTS(:,61)+STATES(:,11));
RATES(:,10) = (ALGEBRAIC(:,17) - ALGEBRAIC(:,6)) - ALGEBRAIC(:,9);
RATES(:,11) = ((ALGEBRAIC(:,15)+ALGEBRAIC(:,9)) - ALGEBRAIC(:,17)) - ALGEBRAIC(:,12);
ALGEBRAIC(:,14) = CONSTANTS(:,17).*CONSTANTS(:,16).*(CONSTANTS(:,15)+ (1.00000 - CONSTANTS(:,15)).*(1.00000 - exp( - power(STATES(:,28)./CONSTANTS(:,14), 3.00000)))).*STATES(:,5);
ALGEBRAIC(:,19) = CONSTANTS(:,21).*CONSTANTS(:,22).*STATES(:,5) - CONSTANTS(:,23).*STATES(:,6);
RATES(:,5) = (ALGEBRAIC(:,11) - ALGEBRAIC(:,14)) - ALGEBRAIC(:,19);
ALGEBRAIC(:,20) = ( CONSTANTS(:,62).*STATES(:,13))./(CONSTANTS(:,63)+STATES(:,13));
RATES(:,12) = ALGEBRAIC(:,20) - ALGEBRAIC(:,9);
RATES(:,13) = ALGEBRAIC(:,17) - ALGEBRAIC(:,20);
ALGEBRAIC(:,21) = CONSTANTS(:,38).*STATES(:,18);
RATES(:,14) = ALGEBRAIC(:,21) - ALGEBRAIC(:,12);
ALGEBRAIC(:,18) = CONSTANTS(:,36).*STATES(:,16).*STATES(:,17) - CONSTANTS(:,37).*STATES(:,18);
RATES(:,17) = ALGEBRAIC(:,21) - ALGEBRAIC(:,18);
RATES(:,18) = ALGEBRAIC(:,18) - ALGEBRAIC(:,21);
ALGEBRAIC(:,23) = CONSTANTS(:,26).*(CONSTANTS(:,25)+ (1.00000 - CONSTANTS(:,25)).*(1.00000 - exp( - power(STATES(:,28)./CONSTANTS(:,24), 3.00000)))).*STATES(:,6);
RATES(:,6) = ALGEBRAIC(:,19) - ALGEBRAIC(:,23);
RATES(:,8) = (ALGEBRAIC(:,14)+ALGEBRAIC(:,23)) - ALGEBRAIC(:,16);
ALGEBRAIC(:,24) = CONSTANTS(:,41).*STATES(:,20);
ALGEBRAIC(:,22) = CONSTANTS(:,39).*STATES(:,16).*STATES(:,19) - CONSTANTS(:,40).*STATES(:,20);
RATES(:,16) = ((ALGEBRAIC(:,15)+ALGEBRAIC(:,24)) - ALGEBRAIC(:,18)) - ALGEBRAIC(:,22);
RATES(:,20) = ALGEBRAIC(:,22) - ALGEBRAIC(:,24);
ALGEBRAIC(:,25) = ( CONSTANTS(:,42).*STATES(:,21))./(CONSTANTS(:,43)+STATES(:,21));
RATES(:,19) = ALGEBRAIC(:,25) - ALGEBRAIC(:,22);
ALGEBRAIC(:,26) = ( STATES(:,21).*STATES(:,22).*CONSTANTS(:,44))./(CONSTANTS(:,45)+STATES(:,22));
ALGEBRAIC(:,27) = ( CONSTANTS(:,46).*STATES(:,23))./(CONSTANTS(:,47)+STATES(:,23));
RATES(:,22) = ALGEBRAIC(:,27) - ALGEBRAIC(:,26);
ALGEBRAIC(:,28) = ( STATES(:,21).*STATES(:,23).*CONSTANTS(:,48))./(CONSTANTS(:,49)+STATES(:,23));
RATES(:,21) = ((ALGEBRAIC(:,24) - ALGEBRAIC(:,26)) - ALGEBRAIC(:,28)) - ALGEBRAIC(:,25);
ALGEBRAIC(:,29) = ( CONSTANTS(:,50).*STATES(:,24))./(CONSTANTS(:,51)+STATES(:,24));
RATES(:,23) = ((ALGEBRAIC(:,26)+ALGEBRAIC(:,29)) - ALGEBRAIC(:,27)) - ALGEBRAIC(:,28);
RATES(:,24) = ALGEBRAIC(:,28) - ALGEBRAIC(:,29);
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(:,1).*STATES(:,1).*STATES(:,4) - CONSTANTS(:,2).*STATES(:,2);
ALGEBRAIC(:,4) = CONSTANTS(:,65).*STATES(:,28);
ALGEBRAIC(:,2) = ( CONSTANTS(:,27).*2.00000.*(STATES(:,5)+STATES(:,8)+STATES(:,6)).*STATES(:,9))./(CONSTANTS(:,28)+STATES(:,9));
ALGEBRAIC(:,6) = ( CONSTANTS(:,29).*STATES(:,10))./(CONSTANTS(:,30)+STATES(:,10));
ALGEBRAIC(:,7) = ( CONSTANTS(:,54).*STATES(:,26))./(CONSTANTS(:,55)+STATES(:,26));
ALGEBRAIC(:,3) = ( CONSTANTS(:,52).*STATES(:,25).*(STATES(:,23)+STATES(:,24)))./(CONSTANTS(:,53)+STATES(:,25));
ALGEBRAIC(:,8) = CONSTANTS(:,11).*STATES(:,3) - CONSTANTS(:,10).*CONSTANTS(:,9).*(CONSTANTS(:,8)+ (1.00000 - CONSTANTS(:,8)).*(1.00000 - exp( - power(STATES(:,28)./CONSTANTS(:,7), 3.00000)))).*STATES(:,1);
ALGEBRAIC(:,5) = CONSTANTS(:,6).*CONSTANTS(:,5).*(CONSTANTS(:,4)+ (1.00000 - CONSTANTS(:,4)).*(1.00000 - exp( - power(STATES(:,28)./CONSTANTS(:,3), 3.00000)))).*STATES(:,2);
ALGEBRAIC(:,11) = CONSTANTS(:,13).*STATES(:,2).*STATES(:,2) - CONSTANTS(:,12).*STATES(:,5);
ALGEBRAIC(:,13) = ( CONSTANTS(:,58).*STATES(:,27))./(CONSTANTS(:,59)+STATES(:,27));
ALGEBRAIC(:,10) = ( CONSTANTS(:,56).*STATES(:,26).*(STATES(:,23)+STATES(:,24)))./(CONSTANTS(:,57)+STATES(:,26));
ALGEBRAIC(:,15) = CONSTANTS(:,35).*STATES(:,15);
ALGEBRAIC(:,12) = CONSTANTS(:,33).*STATES(:,14).*STATES(:,11) - CONSTANTS(:,34).*STATES(:,15);
ALGEBRAIC(:,16) = CONSTANTS(:,20).*(CONSTANTS(:,19)+ (1.00000 - CONSTANTS(:,19)).*(1.00000 - exp( - power(STATES(:,28)./CONSTANTS(:,18), 3.00000)))).*STATES(:,8);
ALGEBRAIC(:,9) = CONSTANTS(:,31).*STATES(:,10).*STATES(:,12) - CONSTANTS(:,32).*STATES(:,11);
ALGEBRAIC(:,17) = ( STATES(:,27).*STATES(:,11).*CONSTANTS(:,60))./(CONSTANTS(:,61)+STATES(:,11));
ALGEBRAIC(:,14) = CONSTANTS(:,17).*CONSTANTS(:,16).*(CONSTANTS(:,15)+ (1.00000 - CONSTANTS(:,15)).*(1.00000 - exp( - power(STATES(:,28)./CONSTANTS(:,14), 3.00000)))).*STATES(:,5);
ALGEBRAIC(:,19) = CONSTANTS(:,21).*CONSTANTS(:,22).*STATES(:,5) - CONSTANTS(:,23).*STATES(:,6);
ALGEBRAIC(:,20) = ( CONSTANTS(:,62).*STATES(:,13))./(CONSTANTS(:,63)+STATES(:,13));
ALGEBRAIC(:,21) = CONSTANTS(:,38).*STATES(:,18);
ALGEBRAIC(:,18) = CONSTANTS(:,36).*STATES(:,16).*STATES(:,17) - CONSTANTS(:,37).*STATES(:,18);
ALGEBRAIC(:,23) = CONSTANTS(:,26).*(CONSTANTS(:,25)+ (1.00000 - CONSTANTS(:,25)).*(1.00000 - exp( - power(STATES(:,28)./CONSTANTS(:,24), 3.00000)))).*STATES(:,6);
ALGEBRAIC(:,24) = CONSTANTS(:,41).*STATES(:,20);
ALGEBRAIC(:,22) = CONSTANTS(:,39).*STATES(:,16).*STATES(:,19) - CONSTANTS(:,40).*STATES(:,20);
ALGEBRAIC(:,25) = ( CONSTANTS(:,42).*STATES(:,21))./(CONSTANTS(:,43)+STATES(:,21));
ALGEBRAIC(:,26) = ( STATES(:,21).*STATES(:,22).*CONSTANTS(:,44))./(CONSTANTS(:,45)+STATES(:,22));
ALGEBRAIC(:,27) = ( CONSTANTS(:,46).*STATES(:,23))./(CONSTANTS(:,47)+STATES(:,23));
ALGEBRAIC(:,28) = ( STATES(:,21).*STATES(:,23).*CONSTANTS(:,48))./(CONSTANTS(:,49)+STATES(:,23));
ALGEBRAIC(:,29) = ( CONSTANTS(:,50).*STATES(:,24))./(CONSTANTS(:,51)+STATES(:,24));
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