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