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 =51;
end
% There are a total of 22 entries in each of the rate and state variable arrays.
% There are a total of 87 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 (hour)');
LEGEND_CONSTANTS(:,1) = strpad('k16 in component v1 (per_hour)');
LEGEND_STATES(:,1) = strpad('ERG in component ERGcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,9) = strpad('v_1 in component v1 (per_hour)');
LEGEND_CONSTANTS(:,2) = strpad('k18 in component v2 (per_hour)');
LEGEND_STATES(:,2) = strpad('DRG in component DRGcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,11) = strpad('v_2 in component v2 (per_hour)');
LEGEND_CONSTANTS(:,3) = strpad('K10 in component v3 (per_hour)');
LEGEND_STATES(:,3) = strpad('CD in component CDcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,1) = strpad('v_3 in component v3 (per_hour)');
LEGEND_STATES(:,4) = strpad('CYCD in component CYCDcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,13) = strpad('v_4 in component v4 (per_hour)');
LEGEND_CONSTANTS(:,4) = strpad('K25 in component v5 (per_hour)');
LEGEND_STATES(:,5) = strpad('p27 in component p27cmp (dimensionless)');
LEGEND_STATES(:,6) = strpad('CYCE in component CYCEcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,22) = strpad('v_5 in component v5 (per_hour)');
LEGEND_STATES(:,7) = strpad('CYCA in component CYCAcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,26) = strpad('v_6 in component v6 (per_hour)');
LEGEND_CONSTANTS(:,5) = strpad('k24 in component v7 (per_hour)');
LEGEND_ALGEBRAIC(:,28) = strpad('v_7 in component v7 (per_hour)');
LEGEND_CONSTANTS(:,6) = strpad('k24r in component v8 (per_hour)');
LEGEND_ALGEBRAIC(:,30) = strpad('v_8 in component v8 (per_hour)');
LEGEND_CONSTANTS(:,7) = strpad('K30 in component v9 (per_hour)');
LEGEND_CONSTANTS(:,8) = strpad('Cdc20 in component v9 (dimensionless)');
LEGEND_ALGEBRAIC(:,32) = strpad('v_9 in component v9 (per_hour)');
LEGEND_CONSTANTS(:,9) = strpad('CA in component v10 (dimensionless)');
LEGEND_CONSTANTS(:,82) = strpad('v_10 in component v10 (per_hour)');
LEGEND_CONSTANTS(:,10) = strpad('K25R in component v11 (per_hour)');
LEGEND_STATES(:,8) = strpad('CE in component CEcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,34) = strpad('v_11 in component v11 (per_hour)');
LEGEND_CONSTANTS(:,86) = strpad('v_12 in component v12 (per_hour)');
LEGEND_ALGEBRAIC(:,49) = strpad('V_8 in component V8 (per_hour)');
LEGEND_ALGEBRAIC(:,50) = strpad('v_13 in component v13 (per_hour)');
LEGEND_ALGEBRAIC(:,51) = strpad('v_14 in component v14 (per_hour)');
LEGEND_ALGEBRAIC(:,44) = strpad('V_6 in component V6 (per_hour)');
LEGEND_ALGEBRAIC(:,45) = strpad('v_15 in component v15 (per_hour)');
LEGEND_ALGEBRAIC(:,48) = strpad('v_16 in component v16 (per_hour)');
LEGEND_ALGEBRAIC(:,46) = strpad('v_17 in component v17 (per_hour)');
LEGEND_ALGEBRAIC(:,47) = strpad('v_18 in component v18 (per_hour)');
LEGEND_ALGEBRAIC(:,14) = strpad('V_2 in component V2 (per_hour)');
LEGEND_STATES(:,9) = strpad('CYCB in component CYCBcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,23) = strpad('v_19 in component v19 (per_hour)');
LEGEND_CONSTANTS(:,11) = strpad('K3a in component v20 (per_hour)');
LEGEND_CONSTANTS(:,12) = strpad('K3 in component v20 (per_hour)');
LEGEND_STATES(:,10) = strpad('Cdh1 in component Cdh1cmp (dimensionless)');
LEGEND_CONSTANTS(:,13) = strpad('J3 in component v20 (dimensionless)');
LEGEND_ALGEBRAIC(:,3) = strpad('v_20 in component v20 (per_hour)');
LEGEND_ALGEBRAIC(:,15) = strpad('V_4 in component V4 (per_hour)');
LEGEND_CONSTANTS(:,14) = strpad('J4 in component v21 (dimensionless)');
LEGEND_ALGEBRAIC(:,24) = strpad('v_21 in component v21 (per_hour)');
LEGEND_CONSTANTS(:,15) = strpad('K34 in component v22 (per_hour)');
LEGEND_STATES(:,11) = strpad('PPX in component PPXcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,4) = strpad('v_22 in component v22 (per_hour)');
LEGEND_CONSTANTS(:,16) = strpad('K31 in component v23 (per_hour)');
LEGEND_STATES(:,12) = strpad('IEP in component IEPcomp (dimensionless)');
LEGEND_CONSTANTS(:,17) = strpad('J31 in component v23 (dimensionless)');
LEGEND_ALGEBRAIC(:,5) = strpad('v_23 in component v23 (per_hour)');
LEGEND_CONSTANTS(:,18) = strpad('K32 in component v24 (per_hour)');
LEGEND_CONSTANTS(:,19) = strpad('J32 in component v24 (dimensionless)');
LEGEND_ALGEBRAIC(:,16) = strpad('v_24 in component v24 (per_hour)');
LEGEND_CONSTANTS(:,20) = strpad('K12 in component v25 (per_hour)');
LEGEND_STATES(:,13) = strpad('Cdc20T in component Cdc20Tcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,10) = strpad('v_25 in component v25 (per_hour)');
LEGEND_CONSTANTS(:,21) = strpad('K13 in component v26 (per_hour)');
LEGEND_CONSTANTS(:,22) = strpad('J13 in component v26 (dimensionless)');
LEGEND_ALGEBRAIC(:,6) = strpad('v_26 in component v26 (per_hour)');
LEGEND_CONSTANTS(:,23) = strpad('K14 in component v27 (per_hour)');
LEGEND_CONSTANTS(:,24) = strpad('J14 in component v27 (dimensionless)');
LEGEND_CONSTANTS(:,83) = strpad('v_27 in component v27 (per_hour)');
LEGEND_CONSTANTS(:,84) = strpad('v_28 in component v28 (per_hour)');
LEGEND_STATES(:,14) = strpad('E2FRb in component E2FRbcomp (dimensionless)');
LEGEND_CONSTANTS(:,25) = strpad('K20 in component v29 (per_hour)');
LEGEND_CONSTANTS(:,26) = strpad('CYCDT in component v29 (dimensionless)');
LEGEND_CONSTANTS(:,27) = strpad('LD in component v29 (dimensionless)');
LEGEND_CONSTANTS(:,28) = strpad('LA in component v29 (dimensionless)');
LEGEND_CONSTANTS(:,29) = strpad('LB in component v29 (dimensionless)');
LEGEND_CONSTANTS(:,30) = strpad('LE in component v29 (dimensionless)');
LEGEND_ALGEBRAIC(:,12) = strpad('v_29 in component v29 (per_hour)');
LEGEND_STATES(:,15) = strpad('PE2FRb in component PE2FRbcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,21) = strpad('v_30 in component v30 (per_hour)');
LEGEND_CONSTANTS(:,31) = strpad('K27 in component v31 (per_hour)');
LEGEND_STATES(:,16) = strpad('MASS in component MASScomp (dimensionless)');
LEGEND_CONSTANTS(:,32) = strpad('r31switch in component v31 (dimensionless)');
LEGEND_ALGEBRAIC(:,7) = strpad('v_31 in component v31 (per_hour)');
LEGEND_CONSTANTS(:,33) = strpad('K28 in component v32 (per_hour)');
LEGEND_STATES(:,17) = strpad('GM in component GMcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,17) = strpad('v_32 in component v32 (per_hour)');
LEGEND_CONSTANTS(:,34) = strpad('eps in component v33 (dimensionless)');
LEGEND_CONSTANTS(:,35) = strpad('MU in component v33 (per_hour)');
LEGEND_ALGEBRAIC(:,8) = strpad('v_33 in component v33 (per_hour)');
LEGEND_CONSTANTS(:,36) = strpad('k15 in component v34 (per_hour)');
LEGEND_CONSTANTS(:,37) = strpad('J15 in component v34 (dimensionless)');
LEGEND_ALGEBRAIC(:,18) = strpad('v_34 in component v34 (per_hour)');
LEGEND_CONSTANTS(:,38) = strpad('K11a in component v35 (per_hour)');
LEGEND_CONSTANTS(:,39) = strpad('K11 in component v35 (per_hour)');
LEGEND_ALGEBRAIC(:,19) = strpad('v_35 in component v35 (per_hour)');
LEGEND_CONSTANTS(:,40) = strpad('K29 in component v36 (per_hour)');
LEGEND_STATES(:,18) = strpad('E2F in component E2Fcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,36) = strpad('v_36 in component v36 (per_hour)');
LEGEND_CONSTANTS(:,41) = strpad('K33 in component v37 (per_hour)');
LEGEND_CONSTANTS(:,85) = strpad('v_37 in component v37 (per_hour)');
LEGEND_CONSTANTS(:,42) = strpad('K7a in component v38 (per_hour)');
LEGEND_CONSTANTS(:,43) = strpad('K7 in component v38 (per_hour)');
LEGEND_ALGEBRAIC(:,38) = strpad('v_38 in component v38 (per_hour)');
LEGEND_CONSTANTS(:,44) = strpad('K9 in component v39 (per_hour)');
LEGEND_ALGEBRAIC(:,41) = strpad('v_39 in component v39 (per_hour)');
LEGEND_CONSTANTS(:,45) = strpad('K5 in component v40 (per_hour)');
LEGEND_CONSTANTS(:,87) = strpad('v_40 in component v40 (per_hour)');
LEGEND_CONSTANTS(:,46) = strpad('k17 in component v41 (per_hour)');
LEGEND_CONSTANTS(:,47) = strpad('J17 in component v41 (dimensionless)');
LEGEND_CONSTANTS(:,48) = strpad('k17a in component v41 (per_hour)');
LEGEND_ALGEBRAIC(:,20) = strpad('v_41 in component v41 (per_hour)');
LEGEND_CONSTANTS(:,49) = strpad('K1 in component v42 (per_hour)');
LEGEND_CONSTANTS(:,50) = strpad('J1 in component v42 (dimensionless)');
LEGEND_CONSTANTS(:,51) = strpad('K1a in component v42 (per_hour)');
LEGEND_ALGEBRAIC(:,2) = strpad('v_42 in component v42 (per_hour)');
LEGEND_STATES(:,19) = strpad('Rb in component Rbcomp (dimensionless)');
LEGEND_ALGEBRAIC(:,25) = strpad('v_43 in component v43 (per_hour)');
LEGEND_STATES(:,20) = strpad('PPRb in component PPRbcomp (dimensionless)');
LEGEND_CONSTANTS(:,52) = strpad('K19 in component v44 (per_hour)');
LEGEND_CONSTANTS(:,53) = strpad('K19a in component v44 (per_hour)');
LEGEND_CONSTANTS(:,54) = strpad('PP1T in component v44 (dimensionless)');
LEGEND_ALGEBRAIC(:,39) = strpad('PP1A in component PP1Acomp (dimensionless)');
LEGEND_ALGEBRAIC(:,42) = strpad('v_44 in component v44 (per_hour)');
LEGEND_CONSTANTS(:,55) = strpad('K26R in component v45 (per_hour)');
LEGEND_ALGEBRAIC(:,27) = strpad('v_45 in component v45 (per_hour)');
LEGEND_CONSTANTS(:,56) = strpad('K23a in component v46 (per_hour)');
LEGEND_CONSTANTS(:,57) = strpad('K23 in component v46 (per_hour)');
LEGEND_ALGEBRAIC(:,29) = strpad('v_46 in component v46 (per_hour)');
LEGEND_STATES(:,21) = strpad('PE2F in component PE2Fcomp (dimensionless)');
LEGEND_CONSTANTS(:,58) = strpad('K22 in component v47 (per_hour)');
LEGEND_ALGEBRAIC(:,31) = strpad('v_47 in component v47 (per_hour)');
LEGEND_CONSTANTS(:,59) = strpad('K26 in component v48 (per_hour)');
LEGEND_ALGEBRAIC(:,33) = strpad('v_48 in component v48 (per_hour)');
LEGEND_ALGEBRAIC(:,35) = strpad('v_49 in component v49 (per_hour)');
LEGEND_ALGEBRAIC(:,37) = strpad('v_50 in component v50 (per_hour)');
LEGEND_ALGEBRAIC(:,40) = strpad('v_51 in component v51 (per_hour)');
LEGEND_ALGEBRAIC(:,43) = strpad('v_52 in component v52 (per_hour)');
LEGEND_CONSTANTS(:,60) = strpad('PP1T in component PP1Acomp (dimensionless)');
LEGEND_CONSTANTS(:,61) = strpad('K21 in component PP1Acomp (dimensionless)');
LEGEND_CONSTANTS(:,62) = strpad('FE in component PP1Acomp (dimensionless)');
LEGEND_CONSTANTS(:,63) = strpad('FB in component PP1Acomp (dimensionless)');
LEGEND_CONSTANTS(:,64) = strpad('K2aa in component V2 (per_hour)');
LEGEND_CONSTANTS(:,65) = strpad('K2a in component V2 (per_hour)');
LEGEND_CONSTANTS(:,66) = strpad('K2 in component V2 (per_hour)');
LEGEND_CONSTANTS(:,67) = strpad('K4 in component V4 (per_hour)');
LEGEND_CONSTANTS(:,68) = strpad('GA in component V4 (dimensionless)');
LEGEND_CONSTANTS(:,69) = strpad('GB in component V4 (dimensionless)');
LEGEND_CONSTANTS(:,70) = strpad('GE in component V4 (dimensionless)');
LEGEND_CONSTANTS(:,71) = strpad('K6a in component V6 (per_hour)');
LEGEND_CONSTANTS(:,72) = strpad('K6 in component V6 (per_hour)');
LEGEND_CONSTANTS(:,73) = strpad('HA in component V6 (dimensionless)');
LEGEND_CONSTANTS(:,74) = strpad('HB in component V6 (dimensionless)');
LEGEND_CONSTANTS(:,75) = strpad('HE in component V6 (dimensionless)');
LEGEND_CONSTANTS(:,76) = strpad('K8a in component V8 (per_hour)');
LEGEND_CONSTANTS(:,77) = strpad('K8 in component V8 (per_hour)');
LEGEND_CONSTANTS(:,78) = strpad('J8 in component V8 (dimensionless)');
LEGEND_CONSTANTS(:,79) = strpad('YE in component V8 (dimensionless)');
LEGEND_CONSTANTS(:,80) = strpad('YB in component V8 (dimensionless)');
LEGEND_CONSTANTS(:,81) = strpad('CYCET in component V8 (dimensionless)');
LEGEND_STATES(:,22) = strpad('CA in component CAcomp (dimensionless)');
LEGEND_RATES(:,22) = strpad('d/dt CA in component CAcomp (dimensionless)');
LEGEND_RATES(:,3) = strpad('d/dt CD in component CDcomp (dimensionless)');
LEGEND_RATES(:,13) = strpad('d/dt Cdc20T in component Cdc20Tcomp (dimensionless)');
LEGEND_RATES(:,10) = strpad('d/dt Cdh1 in component Cdh1cmp (dimensionless)');
LEGEND_RATES(:,8) = strpad('d/dt CE in component CEcomp (dimensionless)');
LEGEND_RATES(:,7) = strpad('d/dt CYCA in component CYCAcomp (dimensionless)');
LEGEND_RATES(:,9) = strpad('d/dt CYCB in component CYCBcomp (dimensionless)');
LEGEND_RATES(:,4) = strpad('d/dt CYCD in component CYCDcomp (dimensionless)');
LEGEND_RATES(:,6) = strpad('d/dt CYCE in component CYCEcomp (dimensionless)');
LEGEND_RATES(:,2) = strpad('d/dt DRG in component DRGcomp (dimensionless)');
LEGEND_RATES(:,1) = strpad('d/dt ERG in component ERGcomp (dimensionless)');
LEGEND_RATES(:,17) = strpad('d/dt GM in component GMcomp (dimensionless)');
LEGEND_RATES(:,12) = strpad('d/dt IEP in component IEPcomp (dimensionless)');
LEGEND_RATES(:,16) = strpad('d/dt MASS in component MASScomp (dimensionless)');
LEGEND_RATES(:,5) = strpad('d/dt p27 in component p27cmp (dimensionless)');
LEGEND_RATES(:,11) = strpad('d/dt PPX in component PPXcomp (dimensionless)');
LEGEND_RATES(:,20) = strpad('d/dt PPRb in component PPRbcomp (dimensionless)');
LEGEND_RATES(:,18) = strpad('d/dt E2F in component E2Fcomp (dimensionless)');
LEGEND_RATES(:,21) = strpad('d/dt PE2F in component PE2Fcomp (dimensionless)');
LEGEND_RATES(:,19) = strpad('d/dt Rb in component Rbcomp (dimensionless)');
LEGEND_RATES(:,14) = strpad('d/dt E2FRb in component E2FRbcomp (dimensionless)');
LEGEND_RATES(:,15) = strpad('d/dt PE2FRb in component PE2FRbcomp (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 = [];
CONSTANTS(:,1) = 0.25;
STATES(:,1) = 0.0121809;
CONSTANTS(:,2) = 10;
STATES(:,2) = 0.900533;
CONSTANTS(:,3) = 5;
STATES(:,3) = 0.010976;
STATES(:,4) = 0.43929;
CONSTANTS(:,4) = 1000;
STATES(:,5) = 0.00922806;
STATES(:,6) = 0.0229112;
STATES(:,7) = 1.4094;
CONSTANTS(:,5) = 1000;
CONSTANTS(:,6) = 10;
CONSTANTS(:,7) = 20;
CONSTANTS(:,8) = 0.00220177;
CONSTANTS(:,9) = 0.0356927;
CONSTANTS(:,10) = 10;
STATES(:,8) = 0.000542587;
STATES(:,9) = 2.72898;
CONSTANTS(:,11) = 7.5;
CONSTANTS(:,12) = 140;
STATES(:,10) = 0.000653278;
CONSTANTS(:,13) = 0.01;
CONSTANTS(:,14) = 0.04;
CONSTANTS(:,15) = 0.05;
STATES(:,11) = 1;
CONSTANTS(:,16) = 0.7;
STATES(:,12) = 0.154655;
CONSTANTS(:,17) = 0.01;
CONSTANTS(:,18) = 1.8;
CONSTANTS(:,19) = 0.01;
CONSTANTS(:,20) = 1.5;
STATES(:,13) = 2.36733;
CONSTANTS(:,21) = 5;
CONSTANTS(:,22) = 0.005;
CONSTANTS(:,23) = 2.5;
CONSTANTS(:,24) = 0.005;
STATES(:,14) = 0.00478911;
CONSTANTS(:,25) = 10;
CONSTANTS(:,26) = 0.010976;
CONSTANTS(:,27) = 3.3;
CONSTANTS(:,28) = 3;
CONSTANTS(:,29) = 5;
CONSTANTS(:,30) = 5;
STATES(:,15) = 0.0192822;
CONSTANTS(:,31) = 0.2;
STATES(:,16) = 1.68776;
CONSTANTS(:,32) = 1;
CONSTANTS(:,33) = 0.2;
STATES(:,17) = 1.35565;
CONSTANTS(:,34) = 1;
CONSTANTS(:,35) = 0.061;
CONSTANTS(:,36) = 0.25;
CONSTANTS(:,37) = 0.1;
CONSTANTS(:,38) = 0;
CONSTANTS(:,39) = 1.5;
CONSTANTS(:,40) = 0.05;
STATES(:,18) = 0.989986;
CONSTANTS(:,41) = 0.05;
CONSTANTS(:,42) = 0;
CONSTANTS(:,43) = 0.6;
CONSTANTS(:,44) = 2.5;
CONSTANTS(:,45) = 20;
CONSTANTS(:,46) = 10;
CONSTANTS(:,47) = 0.3;
CONSTANTS(:,48) = 0.35;
CONSTANTS(:,49) = 0.6;
CONSTANTS(:,50) = 0.1;
CONSTANTS(:,51) = 0.1;
STATES(:,19) = 0.000190871;
STATES(:,20) = 9.97574;
CONSTANTS(:,52) = 20;
CONSTANTS(:,53) = 0;
CONSTANTS(:,54) = 1;
CONSTANTS(:,55) = 200;
CONSTANTS(:,56) = 0.005;
CONSTANTS(:,57) = 1;
STATES(:,21) = 3.98594;
CONSTANTS(:,58) = 1;
CONSTANTS(:,59) = 10000;
CONSTANTS(:,60) = 1;
CONSTANTS(:,61) = 1;
CONSTANTS(:,62) = 25;
CONSTANTS(:,63) = 2;
CONSTANTS(:,64) = 1;
CONSTANTS(:,65) = 0.05;
CONSTANTS(:,66) = 20;
CONSTANTS(:,67) = 40;
CONSTANTS(:,68) = 0.3;
CONSTANTS(:,69) = 1;
CONSTANTS(:,70) = 0;
CONSTANTS(:,71) = 10;
CONSTANTS(:,72) = 100;
CONSTANTS(:,73) = 0.5;
CONSTANTS(:,74) = 1;
CONSTANTS(:,75) = 0.5;
CONSTANTS(:,76) = 0.1;
CONSTANTS(:,77) = 2;
CONSTANTS(:,78) = 0.1;
CONSTANTS(:,79) = 1;
CONSTANTS(:,80) = 0.05;
CONSTANTS(:,81) = 0.000542587;
STATES(:,22) = 0.0356927;
CONSTANTS(:,82) = CONSTANTS(:,7).*CONSTANTS(:,8).*CONSTANTS(:,9);
CONSTANTS(:,83) = ( CONSTANTS(:,23).*CONSTANTS(:,8))./(CONSTANTS(:,24)+CONSTANTS(:,8));
CONSTANTS(:,84) = CONSTANTS(:,20).*CONSTANTS(:,8);
CONSTANTS(:,85) = CONSTANTS(:,34).*CONSTANTS(:,41);
CONSTANTS(:,86) = CONSTANTS(:,10).*CONSTANTS(:,9);
CONSTANTS(:,87) = CONSTANTS(:,34).*CONSTANTS(:,45);
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(:,8) = CONSTANTS(:,34).*CONSTANTS(:,35).*STATES(:,17);
RATES(:,16) = ALGEBRAIC(:,8);
ALGEBRAIC(:,4) = CONSTANTS(:,15).*STATES(:,11);
RATES(:,11) = CONSTANTS(:,85) - ALGEBRAIC(:,4);
ALGEBRAIC(:,10) = CONSTANTS(:,20).*STATES(:,13);
ALGEBRAIC(:,19) = CONSTANTS(:,34).*CONSTANTS(:,38)+ CONSTANTS(:,39).*STATES(:,9);
RATES(:,13) = ALGEBRAIC(:,19) - ALGEBRAIC(:,10);
ALGEBRAIC(:,11) = CONSTANTS(:,2).*STATES(:,2);
ALGEBRAIC(:,20) = CONSTANTS(:,34).*(( CONSTANTS(:,46).*power(STATES(:,2)./CONSTANTS(:,47), 2.00000))./(power(STATES(:,2)./CONSTANTS(:,47), 2.00000)+1.00000)+ CONSTANTS(:,48).*STATES(:,1));
RATES(:,2) = ALGEBRAIC(:,20) - ALGEBRAIC(:,11);
ALGEBRAIC(:,9) = CONSTANTS(:,1).*STATES(:,1);
ALGEBRAIC(:,18) = ( CONSTANTS(:,34).*CONSTANTS(:,36))./(power(STATES(:,2)./CONSTANTS(:,37), 2.00000)+1.00000);
RATES(:,1) = ALGEBRAIC(:,18) - ALGEBRAIC(:,9);
ALGEBRAIC(:,7) = CONSTANTS(:,31).*STATES(:,16).*CONSTANTS(:,32);
ALGEBRAIC(:,17) = CONSTANTS(:,33).*STATES(:,17);
RATES(:,17) = ALGEBRAIC(:,7) - ALGEBRAIC(:,17);
ALGEBRAIC(:,5) = ( CONSTANTS(:,16).*STATES(:,9).*(1.00000 - STATES(:,12)))./((CONSTANTS(:,17) - STATES(:,12))+1.00000);
ALGEBRAIC(:,16) = ( CONSTANTS(:,18).*STATES(:,11).*STATES(:,12))./(CONSTANTS(:,19)+STATES(:,12));
RATES(:,12) = ALGEBRAIC(:,5) - ALGEBRAIC(:,16);
ALGEBRAIC(:,3) = ( (CONSTANTS(:,11)+ CONSTANTS(:,12).*CONSTANTS(:,8)).*(1.00000 - STATES(:,10)))./((CONSTANTS(:,13) - STATES(:,10))+1.00000);
ALGEBRAIC(:,15) = CONSTANTS(:,67).*( CONSTANTS(:,68).*STATES(:,7)+ CONSTANTS(:,69).*STATES(:,9)+ CONSTANTS(:,70).*STATES(:,6));
ALGEBRAIC(:,24) = ( ALGEBRAIC(:,15).*STATES(:,10))./(CONSTANTS(:,14)+STATES(:,10));
RATES(:,10) = ALGEBRAIC(:,3) - ALGEBRAIC(:,24);
ALGEBRAIC(:,14) = CONSTANTS(:,64).*CONSTANTS(:,8)+ CONSTANTS(:,65).*(1.00000 - STATES(:,10))+ CONSTANTS(:,66).*STATES(:,10);
ALGEBRAIC(:,23) = ALGEBRAIC(:,14).*STATES(:,9);
ALGEBRAIC(:,2) = CONSTANTS(:,34).*(( CONSTANTS(:,49).*power(STATES(:,9)./CONSTANTS(:,50), 2.00000))./(power(STATES(:,9)./CONSTANTS(:,50), 2.00000)+1.00000)+CONSTANTS(:,51));
RATES(:,9) = ALGEBRAIC(:,2) - ALGEBRAIC(:,23);
ALGEBRAIC(:,12) = STATES(:,14).*CONSTANTS(:,25).*( CONSTANTS(:,26).*CONSTANTS(:,27)+ CONSTANTS(:,28).*STATES(:,7)+ CONSTANTS(:,29).*STATES(:,9)+ CONSTANTS(:,30).*STATES(:,6));
ALGEBRAIC(:,27) = STATES(:,14).*CONSTANTS(:,55);
ALGEBRAIC(:,29) = STATES(:,18).*(CONSTANTS(:,56)+ CONSTANTS(:,57).*(STATES(:,7)+STATES(:,9)));
ALGEBRAIC(:,31) = STATES(:,21).*CONSTANTS(:,58);
ALGEBRAIC(:,33) = STATES(:,18).*STATES(:,19).*CONSTANTS(:,59);
RATES(:,18) = ((ALGEBRAIC(:,12)+ALGEBRAIC(:,27)+ALGEBRAIC(:,31)) - ALGEBRAIC(:,29)) - ALGEBRAIC(:,33);
ALGEBRAIC(:,21) = STATES(:,15).*CONSTANTS(:,25).*( CONSTANTS(:,26).*CONSTANTS(:,27)+ CONSTANTS(:,28).*STATES(:,7)+ CONSTANTS(:,29).*STATES(:,9)+ CONSTANTS(:,30).*STATES(:,6));
ALGEBRAIC(:,35) = STATES(:,15).*CONSTANTS(:,55);
ALGEBRAIC(:,37) = STATES(:,19).*STATES(:,21).*CONSTANTS(:,59);
RATES(:,21) = ((ALGEBRAIC(:,21)+ALGEBRAIC(:,35)+ALGEBRAIC(:,29)) - ALGEBRAIC(:,31)) - ALGEBRAIC(:,37);
ALGEBRAIC(:,25) = STATES(:,19).*CONSTANTS(:,25).*( CONSTANTS(:,26).*CONSTANTS(:,27)+ CONSTANTS(:,28).*STATES(:,7)+ CONSTANTS(:,29).*STATES(:,9)+ CONSTANTS(:,30).*STATES(:,6));
ALGEBRAIC(:,39) = CONSTANTS(:,60)./( CONSTANTS(:,61).*CONSTANTS(:,62).*(STATES(:,7)+STATES(:,6)+ CONSTANTS(:,63).*STATES(:,9))+1.00000);
ALGEBRAIC(:,42) = STATES(:,20).*( CONSTANTS(:,53).*(CONSTANTS(:,54) - ALGEBRAIC(:,39))+ CONSTANTS(:,52).*ALGEBRAIC(:,39));
RATES(:,20) = (ALGEBRAIC(:,12)+ALGEBRAIC(:,21)+ALGEBRAIC(:,25)) - ALGEBRAIC(:,42);
RATES(:,19) = (((ALGEBRAIC(:,42)+ALGEBRAIC(:,27)+ALGEBRAIC(:,35)) - ALGEBRAIC(:,33)) - ALGEBRAIC(:,37)) - ALGEBRAIC(:,25);
ALGEBRAIC(:,40) = STATES(:,15).*CONSTANTS(:,58);
ALGEBRAIC(:,43) = STATES(:,14).*(CONSTANTS(:,56)+ CONSTANTS(:,57).*(STATES(:,7)+STATES(:,9)));
RATES(:,14) = (((ALGEBRAIC(:,40)+ALGEBRAIC(:,33)) - ALGEBRAIC(:,43)) - ALGEBRAIC(:,12)) - ALGEBRAIC(:,27);
RATES(:,15) = (((ALGEBRAIC(:,43)+ALGEBRAIC(:,37)) - ALGEBRAIC(:,40)) - ALGEBRAIC(:,21)) - ALGEBRAIC(:,35);
ALGEBRAIC(:,26) = CONSTANTS(:,4).*STATES(:,5).*STATES(:,7);
ALGEBRAIC(:,44) = CONSTANTS(:,71)+ CONSTANTS(:,72).*( CONSTANTS(:,73).*STATES(:,7)+ CONSTANTS(:,74).*STATES(:,9)+ CONSTANTS(:,75).*STATES(:,6));
ALGEBRAIC(:,47) = ALGEBRAIC(:,44).*CONSTANTS(:,9);
RATES(:,22) = ((ALGEBRAIC(:,26) - CONSTANTS(:,86)) - ALGEBRAIC(:,47)) - CONSTANTS(:,82);
ALGEBRAIC(:,1) = CONSTANTS(:,3).*STATES(:,3);
ALGEBRAIC(:,28) = CONSTANTS(:,5).*STATES(:,5).*STATES(:,4);
ALGEBRAIC(:,30) = CONSTANTS(:,6).*STATES(:,3);
ALGEBRAIC(:,46) = ALGEBRAIC(:,44).*STATES(:,3);
RATES(:,3) = ((ALGEBRAIC(:,28) - ALGEBRAIC(:,30)) - ALGEBRAIC(:,46)) - ALGEBRAIC(:,1);
ALGEBRAIC(:,32) = CONSTANTS(:,7).*CONSTANTS(:,8).*STATES(:,7);
ALGEBRAIC(:,36) = CONSTANTS(:,34).*CONSTANTS(:,40).*STATES(:,18).*STATES(:,16);
RATES(:,7) = ((ALGEBRAIC(:,36) - ALGEBRAIC(:,32)) - ALGEBRAIC(:,26))+CONSTANTS(:,86)+ALGEBRAIC(:,47);
ALGEBRAIC(:,13) = CONSTANTS(:,3).*STATES(:,4);
ALGEBRAIC(:,41) = CONSTANTS(:,34).*CONSTANTS(:,44).*STATES(:,2);
RATES(:,4) = ((ALGEBRAIC(:,41)+ALGEBRAIC(:,46)+ALGEBRAIC(:,30)) - ALGEBRAIC(:,28)) - ALGEBRAIC(:,13);
ALGEBRAIC(:,22) = CONSTANTS(:,4).*STATES(:,5).*STATES(:,6);
ALGEBRAIC(:,34) = CONSTANTS(:,10).*STATES(:,8);
ALGEBRAIC(:,49) = ( CONSTANTS(:,77).*( CONSTANTS(:,79).*(STATES(:,7)+STATES(:,6))+ CONSTANTS(:,80).*STATES(:,9)))./(CONSTANTS(:,81)+CONSTANTS(:,78))+CONSTANTS(:,76);
ALGEBRAIC(:,50) = ALGEBRAIC(:,49).*STATES(:,8);
ALGEBRAIC(:,48) = ALGEBRAIC(:,44).*STATES(:,8);
RATES(:,8) = ((ALGEBRAIC(:,22) - ALGEBRAIC(:,34)) - ALGEBRAIC(:,50)) - ALGEBRAIC(:,48);
ALGEBRAIC(:,51) = ALGEBRAIC(:,49).*STATES(:,6);
ALGEBRAIC(:,38) = CONSTANTS(:,34).*(CONSTANTS(:,42)+ CONSTANTS(:,43).*STATES(:,18));
RATES(:,6) = ((ALGEBRAIC(:,38) - ALGEBRAIC(:,51)) - ALGEBRAIC(:,22))+ALGEBRAIC(:,34)+ALGEBRAIC(:,48);
ALGEBRAIC(:,45) = ALGEBRAIC(:,44).*STATES(:,5);
RATES(:,5) = (((((CONSTANTS(:,87)+ALGEBRAIC(:,1)+ALGEBRAIC(:,30)) - ALGEBRAIC(:,45)) - ALGEBRAIC(:,22)) - ALGEBRAIC(:,26)) - ALGEBRAIC(:,28))+ALGEBRAIC(:,34)+CONSTANTS(:,86)+ALGEBRAIC(:,50)+CONSTANTS(:,82);
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(:,8) = CONSTANTS(:,34).*CONSTANTS(:,35).*STATES(:,17);
ALGEBRAIC(:,4) = CONSTANTS(:,15).*STATES(:,11);
ALGEBRAIC(:,10) = CONSTANTS(:,20).*STATES(:,13);
ALGEBRAIC(:,19) = CONSTANTS(:,34).*CONSTANTS(:,38)+ CONSTANTS(:,39).*STATES(:,9);
ALGEBRAIC(:,11) = CONSTANTS(:,2).*STATES(:,2);
ALGEBRAIC(:,20) = CONSTANTS(:,34).*(( CONSTANTS(:,46).*power(STATES(:,2)./CONSTANTS(:,47), 2.00000))./(power(STATES(:,2)./CONSTANTS(:,47), 2.00000)+1.00000)+ CONSTANTS(:,48).*STATES(:,1));
ALGEBRAIC(:,9) = CONSTANTS(:,1).*STATES(:,1);
ALGEBRAIC(:,18) = ( CONSTANTS(:,34).*CONSTANTS(:,36))./(power(STATES(:,2)./CONSTANTS(:,37), 2.00000)+1.00000);
ALGEBRAIC(:,7) = CONSTANTS(:,31).*STATES(:,16).*CONSTANTS(:,32);
ALGEBRAIC(:,17) = CONSTANTS(:,33).*STATES(:,17);
ALGEBRAIC(:,5) = ( CONSTANTS(:,16).*STATES(:,9).*(1.00000 - STATES(:,12)))./((CONSTANTS(:,17) - STATES(:,12))+1.00000);
ALGEBRAIC(:,16) = ( CONSTANTS(:,18).*STATES(:,11).*STATES(:,12))./(CONSTANTS(:,19)+STATES(:,12));
ALGEBRAIC(:,3) = ( (CONSTANTS(:,11)+ CONSTANTS(:,12).*CONSTANTS(:,8)).*(1.00000 - STATES(:,10)))./((CONSTANTS(:,13) - STATES(:,10))+1.00000);
ALGEBRAIC(:,15) = CONSTANTS(:,67).*( CONSTANTS(:,68).*STATES(:,7)+ CONSTANTS(:,69).*STATES(:,9)+ CONSTANTS(:,70).*STATES(:,6));
ALGEBRAIC(:,24) = ( ALGEBRAIC(:,15).*STATES(:,10))./(CONSTANTS(:,14)+STATES(:,10));
ALGEBRAIC(:,14) = CONSTANTS(:,64).*CONSTANTS(:,8)+ CONSTANTS(:,65).*(1.00000 - STATES(:,10))+ CONSTANTS(:,66).*STATES(:,10);
ALGEBRAIC(:,23) = ALGEBRAIC(:,14).*STATES(:,9);
ALGEBRAIC(:,2) = CONSTANTS(:,34).*(( CONSTANTS(:,49).*power(STATES(:,9)./CONSTANTS(:,50), 2.00000))./(power(STATES(:,9)./CONSTANTS(:,50), 2.00000)+1.00000)+CONSTANTS(:,51));
ALGEBRAIC(:,12) = STATES(:,14).*CONSTANTS(:,25).*( CONSTANTS(:,26).*CONSTANTS(:,27)+ CONSTANTS(:,28).*STATES(:,7)+ CONSTANTS(:,29).*STATES(:,9)+ CONSTANTS(:,30).*STATES(:,6));
ALGEBRAIC(:,27) = STATES(:,14).*CONSTANTS(:,55);
ALGEBRAIC(:,29) = STATES(:,18).*(CONSTANTS(:,56)+ CONSTANTS(:,57).*(STATES(:,7)+STATES(:,9)));
ALGEBRAIC(:,31) = STATES(:,21).*CONSTANTS(:,58);
ALGEBRAIC(:,33) = STATES(:,18).*STATES(:,19).*CONSTANTS(:,59);
ALGEBRAIC(:,21) = STATES(:,15).*CONSTANTS(:,25).*( CONSTANTS(:,26).*CONSTANTS(:,27)+ CONSTANTS(:,28).*STATES(:,7)+ CONSTANTS(:,29).*STATES(:,9)+ CONSTANTS(:,30).*STATES(:,6));
ALGEBRAIC(:,35) = STATES(:,15).*CONSTANTS(:,55);
ALGEBRAIC(:,37) = STATES(:,19).*STATES(:,21).*CONSTANTS(:,59);
ALGEBRAIC(:,25) = STATES(:,19).*CONSTANTS(:,25).*( CONSTANTS(:,26).*CONSTANTS(:,27)+ CONSTANTS(:,28).*STATES(:,7)+ CONSTANTS(:,29).*STATES(:,9)+ CONSTANTS(:,30).*STATES(:,6));
ALGEBRAIC(:,39) = CONSTANTS(:,60)./( CONSTANTS(:,61).*CONSTANTS(:,62).*(STATES(:,7)+STATES(:,6)+ CONSTANTS(:,63).*STATES(:,9))+1.00000);
ALGEBRAIC(:,42) = STATES(:,20).*( CONSTANTS(:,53).*(CONSTANTS(:,54) - ALGEBRAIC(:,39))+ CONSTANTS(:,52).*ALGEBRAIC(:,39));
ALGEBRAIC(:,40) = STATES(:,15).*CONSTANTS(:,58);
ALGEBRAIC(:,43) = STATES(:,14).*(CONSTANTS(:,56)+ CONSTANTS(:,57).*(STATES(:,7)+STATES(:,9)));
ALGEBRAIC(:,26) = CONSTANTS(:,4).*STATES(:,5).*STATES(:,7);
ALGEBRAIC(:,44) = CONSTANTS(:,71)+ CONSTANTS(:,72).*( CONSTANTS(:,73).*STATES(:,7)+ CONSTANTS(:,74).*STATES(:,9)+ CONSTANTS(:,75).*STATES(:,6));
ALGEBRAIC(:,47) = ALGEBRAIC(:,44).*CONSTANTS(:,9);
ALGEBRAIC(:,1) = CONSTANTS(:,3).*STATES(:,3);
ALGEBRAIC(:,28) = CONSTANTS(:,5).*STATES(:,5).*STATES(:,4);
ALGEBRAIC(:,30) = CONSTANTS(:,6).*STATES(:,3);
ALGEBRAIC(:,46) = ALGEBRAIC(:,44).*STATES(:,3);
ALGEBRAIC(:,32) = CONSTANTS(:,7).*CONSTANTS(:,8).*STATES(:,7);
ALGEBRAIC(:,36) = CONSTANTS(:,34).*CONSTANTS(:,40).*STATES(:,18).*STATES(:,16);
ALGEBRAIC(:,13) = CONSTANTS(:,3).*STATES(:,4);
ALGEBRAIC(:,41) = CONSTANTS(:,34).*CONSTANTS(:,44).*STATES(:,2);
ALGEBRAIC(:,22) = CONSTANTS(:,4).*STATES(:,5).*STATES(:,6);
ALGEBRAIC(:,34) = CONSTANTS(:,10).*STATES(:,8);
ALGEBRAIC(:,49) = ( CONSTANTS(:,77).*( CONSTANTS(:,79).*(STATES(:,7)+STATES(:,6))+ CONSTANTS(:,80).*STATES(:,9)))./(CONSTANTS(:,81)+CONSTANTS(:,78))+CONSTANTS(:,76);
ALGEBRAIC(:,50) = ALGEBRAIC(:,49).*STATES(:,8);
ALGEBRAIC(:,48) = ALGEBRAIC(:,44).*STATES(:,8);
ALGEBRAIC(:,51) = ALGEBRAIC(:,49).*STATES(:,6);
ALGEBRAIC(:,38) = CONSTANTS(:,34).*(CONSTANTS(:,42)+ CONSTANTS(:,43).*STATES(:,18));
ALGEBRAIC(:,45) = ALGEBRAIC(:,44).*STATES(:,5);
ALGEBRAIC(:,6) = ( CONSTANTS(:,21).*STATES(:,12).*(STATES(:,13) - CONSTANTS(:,8)))./((CONSTANTS(:,22) - CONSTANTS(:,8))+STATES(:,13));
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