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 =2;
end
% There are a total of 34 entries in each of the rate and state variable arrays.
% There are a total of 55 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('v_c in component v_c (nanomolar)');
    LEGEND_ALGEBRAIC(:,1) = strpad('dv_c_dt in component dv_c_dt (flux)');
    LEGEND_CONSTANTS(:,1) = strpad('k_growth in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,2) = strpad('v_n in component v_n (nanomolar)');
    LEGEND_ALGEBRAIC(:,2) = strpad('k_volume in component k_volume (dimensionless)');
    LEGEND_STATES(:,3) = strpad('mcln2_c in component mcln2_c (nanomolar)');
    LEGEND_CONSTANTS(:,2) = strpad('k_50 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,3) = strpad('k_10 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,4) = strpad('mcln2_n in component mcln2_n (nanomolar)');
    LEGEND_STATES(:,5) = strpad('mclb5_c in component mclb5_c (nanomolar)');
    LEGEND_CONSTANTS(:,4) = strpad('k_51 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,5) = strpad('k_11 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,6) = strpad('mclb5_n in component mclb5_n (nanomolar)');
    LEGEND_CONSTANTS(:,6) = strpad('k_1 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,7) = strpad('sbf_n in component sbf_n (nanomolar)');
    LEGEND_CONSTANTS(:,7) = strpad('k_2 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,8) = strpad('k_39 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,9) = strpad('k_34 in component rate_constants (second_order_rate_constant)');
    LEGEND_CONSTANTS(:,10) = strpad('k_35 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,8) = strpad('sbfwhi5p_n in component sbfwhi5p_n (nanomolar)');
    LEGEND_STATES(:,9) = strpad('whi5_n in component whi5_n (nanomolar)');
    LEGEND_STATES(:,10) = strpad('sbfwhi5_n in component sbfwhi5_n (nanomolar)');
    LEGEND_STATES(:,11) = strpad('cln3_c in component cln3_c (nanomolar)');
    LEGEND_CONSTANTS(:,11) = strpad('k_6 in component rate_constants (flux)');
    LEGEND_CONSTANTS(:,12) = strpad('k_43 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,13) = strpad('k_15 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,12) = strpad('cln2_c in component cln2_c (nanomolar)');
    LEGEND_CONSTANTS(:,14) = strpad('k_3 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,15) = strpad('k_26 in component rate_constants (second_order_rate_constant)');
    LEGEND_CONSTANTS(:,16) = strpad('k_27 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,17) = strpad('k_12 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,13) = strpad('cdk1_c in component cdk1_c (nanomolar)');
    LEGEND_STATES(:,14) = strpad('cdk1cln2_c in component cdk1cln2_c (nanomolar)');
    LEGEND_STATES(:,15) = strpad('clb5_c in component clb5_c (nanomolar)');
    LEGEND_CONSTANTS(:,18) = strpad('k_4 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,19) = strpad('k_28 in component rate_constants (second_order_rate_constant)');
    LEGEND_CONSTANTS(:,20) = strpad('k_29 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,21) = strpad('k_13 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,16) = strpad('cdk1clb5_c in component cdk1clb5_c (nanomolar)');
    LEGEND_CONSTANTS(:,22) = strpad('k_7 in component rate_constants (flux)');
    LEGEND_CONSTANTS(:,23) = strpad('k_44 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,24) = strpad('k_49 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,25) = strpad('k_16 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,17) = strpad('cdk1_n in component cdk1_n (nanomolar)');
    LEGEND_STATES(:,18) = strpad('cln3_n in component cln3_n (nanomolar)');
    LEGEND_CONSTANTS(:,26) = strpad('k_24 in component rate_constants (second_order_rate_constant)');
    LEGEND_CONSTANTS(:,27) = strpad('k_25 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,28) = strpad('k_20 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,19) = strpad('cdk1cln3_n in component cdk1cln3_n (nanomolar)');
    LEGEND_CONSTANTS(:,29) = strpad('k_21 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,30) = strpad('k_46 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,31) = strpad('k_53 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,20) = strpad('cdk1cln2_n in component cdk1cln2_n (nanomolar)');
    LEGEND_CONSTANTS(:,32) = strpad('k_33 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,33) = strpad('k_32 in component rate_constants (second_order_rate_constant)');
    LEGEND_CONSTANTS(:,34) = strpad('k_48 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,21) = strpad('cdk1clb5sic1_c in component cdk1clb5sic1_c (nanomolar)');
    LEGEND_STATES(:,22) = strpad('sic1_c in component sic1_c (nanomolar)');
    LEGEND_STATES(:,23) = strpad('cdk1clb5_n in component cdk1clb5_n (nanomolar)');
    LEGEND_CONSTANTS(:,35) = strpad('k_41 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,24) = strpad('cdk1clb5sic1p_n in component cdk1clb5sic1p_n (nanomolar)');
    LEGEND_CONSTANTS(:,36) = strpad('k_31 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,37) = strpad('k_30 in component rate_constants (second_order_rate_constant)');
    LEGEND_CONSTANTS(:,38) = strpad('k_40 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,25) = strpad('cdk1cln3far1_n in component cdk1cln3far1_n (nanomolar)');
    LEGEND_STATES(:,26) = strpad('far1_n in component far1_n (nanomolar)');
    LEGEND_STATES(:,27) = strpad('cdk1cln3far1p_n in component cdk1cln3far1p_n (nanomolar)');
    LEGEND_CONSTANTS(:,39) = strpad('k_36 in component rate_constants (second_order_rate_constant)');
    LEGEND_CONSTANTS(:,40) = strpad('k_37 in component rate_constants (second_order_rate_constant)');
    LEGEND_STATES(:,28) = strpad('cdk1clb5sic1_n in component cdk1clb5sic1_n (nanomolar)');
    LEGEND_CONSTANTS(:,41) = strpad('k_47 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,42) = strpad('k_38 in component rate_constants (second_order_rate_constant)');
    LEGEND_CONSTANTS(:,43) = strpad('k_9 in component rate_constants (flux)');
    LEGEND_CONSTANTS(:,44) = strpad('k_18 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,29) = strpad('whi5_c in component whi5_c (nanomolar)');
    LEGEND_CONSTANTS(:,45) = strpad('k_8 in component rate_constants (flux)');
    LEGEND_CONSTANTS(:,46) = strpad('k_45 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,47) = strpad('k_17 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,30) = strpad('far1_c in component far1_c (nanomolar)');
    LEGEND_CONSTANTS(:,48) = strpad('k_5 in component rate_constants (flux)');
    LEGEND_CONSTANTS(:,49) = strpad('k_42 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,50) = strpad('k_14 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,31) = strpad('whi5p_c in component whi5p_c (nanomolar)');
    LEGEND_CONSTANTS(:,51) = strpad('k_52 in component rate_constants (first_order_rate_constant)');
    LEGEND_STATES(:,32) = strpad('whi5p_n in component whi5p_n (nanomolar)');
    LEGEND_STATES(:,33) = strpad('sic1P_n in component sic1P_n (nanomolar)');
    LEGEND_STATES(:,34) = strpad('far1P_n in component far1P_n (nanomolar)');
    LEGEND_CONSTANTS(:,52) = strpad('k_22 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,53) = strpad('k_19 in component rate_constants (first_order_rate_constant)');
    LEGEND_CONSTANTS(:,54) = strpad('k_23 in component rate_constants (first_order_rate_constant)');
    LEGEND_RATES(:,1) = strpad('d/dt v_c in component v_c (nanomolar)');
    LEGEND_RATES(:,2) = strpad('d/dt v_n in component v_n (nanomolar)');
    LEGEND_RATES(:,3) = strpad('d/dt mcln2_c in component mcln2_c (nanomolar)');
    LEGEND_RATES(:,5) = strpad('d/dt mclb5_c in component mclb5_c (nanomolar)');
    LEGEND_RATES(:,4) = strpad('d/dt mcln2_n in component mcln2_n (nanomolar)');
    LEGEND_RATES(:,6) = strpad('d/dt mclb5_n in component mclb5_n (nanomolar)');
    LEGEND_RATES(:,7) = strpad('d/dt sbf_n in component sbf_n (nanomolar)');
    LEGEND_RATES(:,11) = strpad('d/dt cln3_c in component cln3_c (nanomolar)');
    LEGEND_RATES(:,12) = strpad('d/dt cln2_c in component cln2_c (nanomolar)');
    LEGEND_RATES(:,15) = strpad('d/dt clb5_c in component clb5_c (nanomolar)');
    LEGEND_RATES(:,13) = strpad('d/dt cdk1_c in component cdk1_c (nanomolar)');
    LEGEND_RATES(:,18) = strpad('d/dt cln3_n in component cln3_n (nanomolar)');
    LEGEND_RATES(:,17) = strpad('d/dt cdk1_n in component cdk1_n (nanomolar)');
    LEGEND_RATES(:,14) = strpad('d/dt cdk1cln2_c in component cdk1cln2_c (nanomolar)');
    LEGEND_RATES(:,16) = strpad('d/dt cdk1clb5_c in component cdk1clb5_c (nanomolar)');
    LEGEND_RATES(:,20) = strpad('d/dt cdk1cln2_n in component cdk1cln2_n (nanomolar)');
    LEGEND_RATES(:,23) = strpad('d/dt cdk1clb5_n in component cdk1clb5_n (nanomolar)');
    LEGEND_RATES(:,19) = strpad('d/dt cdk1cln3_n in component cdk1cln3_n (nanomolar)');
    LEGEND_RATES(:,10) = strpad('d/dt sbfwhi5_n in component sbfwhi5_n (nanomolar)');
    LEGEND_RATES(:,8) = strpad('d/dt sbfwhi5p_n in component sbfwhi5p_n (nanomolar)');
    LEGEND_RATES(:,25) = strpad('d/dt cdk1cln3far1_n in component cdk1cln3far1_n (nanomolar)');
    LEGEND_RATES(:,28) = strpad('d/dt cdk1clb5sic1_n in component cdk1clb5sic1_n (nanomolar)');
    LEGEND_RATES(:,24) = strpad('d/dt cdk1clb5sic1p_n in component cdk1clb5sic1p_n (nanomolar)');
    LEGEND_RATES(:,27) = strpad('d/dt cdk1cln3far1p_n in component cdk1cln3far1p_n (nanomolar)');
    LEGEND_RATES(:,21) = strpad('d/dt cdk1clb5sic1_c in component cdk1clb5sic1_c (nanomolar)');
    LEGEND_RATES(:,22) = strpad('d/dt sic1_c in component sic1_c (nanomolar)');
    LEGEND_RATES(:,29) = strpad('d/dt whi5_c in component whi5_c (nanomolar)');
    LEGEND_RATES(:,30) = strpad('d/dt far1_c in component far1_c (nanomolar)');
    LEGEND_RATES(:,31) = strpad('d/dt whi5p_c in component whi5p_c (nanomolar)');
    LEGEND_RATES(:,33) = strpad('d/dt sic1P_n in component sic1P_n (nanomolar)');
    LEGEND_RATES(:,34) = strpad('d/dt far1P_n in component far1P_n (nanomolar)');
    LEGEND_RATES(:,9) = strpad('d/dt whi5_n in component whi5_n (nanomolar)');
    LEGEND_RATES(:,26) = strpad('d/dt far1_n in component far1_n (nanomolar)');
    LEGEND_RATES(:,32) = strpad('d/dt whi5p_n in component whi5p_n (nanomolar)');
    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) = 0.5;
    CONSTANTS(:,1) = 0.0051;
    STATES(:,2) = 0.5;
    STATES(:,3) = 0;
    CONSTANTS(:,2) = 0.6;
    CONSTANTS(:,3) = 0.12;
    STATES(:,4) = 0;
    STATES(:,5) = 0;
    CONSTANTS(:,4) = 0.6;
    CONSTANTS(:,5) = 0.12;
    STATES(:,6) = 0;
    CONSTANTS(:,6) = 0.03523;
    STATES(:,7) = 0;
    CONSTANTS(:,7) = 0.03523;
    CONSTANTS(:,8) = 1;
    CONSTANTS(:,9) = 8.46;
    CONSTANTS(:,10) = 0.0005;
    STATES(:,8) = 0;
    STATES(:,9) = 0;
    STATES(:,10) = 0.025544;
    STATES(:,11) = 0.000485;
    CONSTANTS(:,11) = 0.00001;
    CONSTANTS(:,12) = 0.005;
    CONSTANTS(:,13) = 0.01;
    STATES(:,12) = 0;
    CONSTANTS(:,14) = 0.32;
    CONSTANTS(:,15) = 2.82;
    CONSTANTS(:,16) = 0.55;
    CONSTANTS(:,17) = 0.1;
    STATES(:,13) = 0.333333;
    STATES(:,14) = 0;
    STATES(:,15) = 0;
    CONSTANTS(:,18) = 0.32;
    CONSTANTS(:,19) = 2.82;
    CONSTANTS(:,20) = 0.55;
    CONSTANTS(:,21) = 0.35;
    STATES(:,16) = 0;
    CONSTANTS(:,22) = 0.01;
    CONSTANTS(:,23) = 0.005;
    CONSTANTS(:,24) = 0.001;
    CONSTANTS(:,25) = 0.03;
    STATES(:,17) = 0.0074127;
    STATES(:,18) = 0;
    CONSTANTS(:,26) = 2.82;
    CONSTANTS(:,27) = 0.55;
    CONSTANTS(:,28) = 0.01;
    STATES(:,19) = 0;
    CONSTANTS(:,29) = 0;
    CONSTANTS(:,30) = 0.1;
    CONSTANTS(:,31) = 0.001;
    STATES(:,20) = 0;
    CONSTANTS(:,32) = 0.55;
    CONSTANTS(:,33) = 84.6;
    CONSTANTS(:,34) = 0.012;
    STATES(:,21) = 0;
    STATES(:,22) = 0.039234;
    STATES(:,23) = 0;
    CONSTANTS(:,35) = 1;
    STATES(:,24) = 0;
    CONSTANTS(:,36) = 0.55;
    CONSTANTS(:,37) = 42300;
    CONSTANTS(:,38) = 1;
    STATES(:,25) = 0;
    STATES(:,26) = 0;
    STATES(:,27) = 0;
    CONSTANTS(:,39) = 4363.6;
    CONSTANTS(:,40) = 4363.6;
    STATES(:,28) = 0;
    CONSTANTS(:,41) = 1;
    CONSTANTS(:,42) = 4363.6;
    CONSTANTS(:,43) = 0.00005;
    CONSTANTS(:,44) = 0.0008;
    STATES(:,29) = 0.073564;
    CONSTANTS(:,45) = 0.00004;
    CONSTANTS(:,46) = 0.005;
    CONSTANTS(:,47) = 0.01;
    STATES(:,30) = 0.0037926;
    CONSTANTS(:,48) = 0.000042;
    CONSTANTS(:,49) = 0.005;
    CONSTANTS(:,50) = 0.01;
    STATES(:,31) = 0;
    CONSTANTS(:,51) = 0.005;
    STATES(:,32) = 0;
    STATES(:,33) = 0;
    STATES(:,34) = 0;
    CONSTANTS(:,52) = 0.01;
    CONSTANTS(:,53) = 0.01;
    CONSTANTS(:,54) = 0.01;
    CONSTANTS(:,54) = 0.00000;
    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(:,2) = CONSTANTS(:,54);
    RATES(:,4) =  CONSTANTS(:,6).*STATES(:,7) -  CONSTANTS(:,2).*STATES(:,4);
    RATES(:,6) =  CONSTANTS(:,7).*STATES(:,7) -  CONSTANTS(:,4).*STATES(:,6);
    RATES(:,7) = ( CONSTANTS(:,8).*STATES(:,8) -  CONSTANTS(:,9).*STATES(:,7).*STATES(:,9))+ CONSTANTS(:,10).*STATES(:,10);
    RATES(:,19) = ((( CONSTANTS(:,26).*STATES(:,18).*STATES(:,17) -  CONSTANTS(:,27).*STATES(:,19))+ CONSTANTS(:,36).*STATES(:,25)) -  CONSTANTS(:,37).*STATES(:,26).*STATES(:,19))+ CONSTANTS(:,38).*STATES(:,27);
    RATES(:,10) = ( CONSTANTS(:,9).*STATES(:,7).*STATES(:,9) -  CONSTANTS(:,10).*STATES(:,10)) -  CONSTANTS(:,39).*STATES(:,10).*STATES(:,19);
    RATES(:,8) =  CONSTANTS(:,39).*STATES(:,10).*STATES(:,19) -  CONSTANTS(:,8).*STATES(:,8);
    RATES(:,25) = ( CONSTANTS(:,37).*STATES(:,26).*STATES(:,19) -  CONSTANTS(:,36).*STATES(:,25)) -  CONSTANTS(:,40).*STATES(:,25).*STATES(:,20);
    RATES(:,24) =  CONSTANTS(:,42).*STATES(:,28).*STATES(:,20) -  CONSTANTS(:,35).*STATES(:,24);
    RATES(:,27) =  CONSTANTS(:,40).*STATES(:,25).*STATES(:,20) -  CONSTANTS(:,38).*STATES(:,27);
    RATES(:,33) =  CONSTANTS(:,35).*STATES(:,24);
    RATES(:,34) =  CONSTANTS(:,38).*STATES(:,27);
    RATES(:,32) = ( CONSTANTS(:,8).*STATES(:,8) -  CONSTANTS(:,51).*STATES(:,32)) -  CONSTANTS(:,54).*STATES(:,32);
    ALGEBRAIC(:,1) =  CONSTANTS(:,1).*STATES(:,1);
    RATES(:,1) = ALGEBRAIC(:,1);
    RATES(:,11) = ((CONSTANTS(:,11) -  CONSTANTS(:,12).*STATES(:,11)) -  CONSTANTS(:,13).*STATES(:,11)) -  (ALGEBRAIC(:,1)./STATES(:,1)).*STATES(:,11);
    RATES(:,12) = ((( CONSTANTS(:,14).*STATES(:,3) -  CONSTANTS(:,15).*STATES(:,13).*STATES(:,12))+ CONSTANTS(:,16).*STATES(:,14)) -  CONSTANTS(:,17).*STATES(:,12)) -  (ALGEBRAIC(:,1)./STATES(:,1)).*STATES(:,12);
    RATES(:,15) = ((( CONSTANTS(:,18).*STATES(:,5) -  CONSTANTS(:,19).*STATES(:,15).*STATES(:,13))+ CONSTANTS(:,20).*STATES(:,16)) -  CONSTANTS(:,21).*STATES(:,15)) -  (ALGEBRAIC(:,1)./STATES(:,1)).*STATES(:,15);
    RATES(:,13) = ((((((CONSTANTS(:,22) -  CONSTANTS(:,23).*STATES(:,13))+ CONSTANTS(:,24).*STATES(:,17)+ CONSTANTS(:,16).*STATES(:,14)) -  CONSTANTS(:,15).*STATES(:,13).*STATES(:,12)) -  CONSTANTS(:,19).*STATES(:,13).*STATES(:,15))+ CONSTANTS(:,20).*STATES(:,16)) -  CONSTANTS(:,25).*STATES(:,13)) -  (ALGEBRAIC(:,1)./STATES(:,1)).*STATES(:,13);
    RATES(:,16) = (((( CONSTANTS(:,19).*STATES(:,13).*STATES(:,15) -  CONSTANTS(:,20).*STATES(:,16))+ CONSTANTS(:,32).*STATES(:,21)) -  CONSTANTS(:,33).*STATES(:,22).*STATES(:,16)) -  CONSTANTS(:,34).*STATES(:,16)) -  (ALGEBRAIC(:,1)./STATES(:,1)).*STATES(:,16);
    RATES(:,21) = (( CONSTANTS(:,33).*STATES(:,22).*STATES(:,16) -  CONSTANTS(:,32).*STATES(:,21)) -  CONSTANTS(:,41).*STATES(:,21)) -  (ALGEBRAIC(:,1)./STATES(:,1)).*STATES(:,21);
    RATES(:,22) = (((CONSTANTS(:,43) -  CONSTANTS(:,33).*STATES(:,22).*STATES(:,16))+ CONSTANTS(:,32).*STATES(:,21)) -  CONSTANTS(:,44).*STATES(:,22)) -  (ALGEBRAIC(:,1)./STATES(:,1)).*STATES(:,22);
    RATES(:,29) = ((CONSTANTS(:,45) -  CONSTANTS(:,46).*STATES(:,29)) -  CONSTANTS(:,47).*STATES(:,29)) -  (ALGEBRAIC(:,1)./STATES(:,1)).*STATES(:,29);
    RATES(:,30) = ((CONSTANTS(:,48) -  CONSTANTS(:,49).*STATES(:,30)) -  CONSTANTS(:,50).*STATES(:,30)) -  (ALGEBRAIC(:,1)./STATES(:,1)).*STATES(:,30);
    ALGEBRAIC(:,2) = STATES(:,2)./STATES(:,1);
    RATES(:,3) = ( CONSTANTS(:,2).*STATES(:,4).*ALGEBRAIC(:,2) -  CONSTANTS(:,3).*STATES(:,3)) -  (ALGEBRAIC(:,1)./STATES(:,1)).*STATES(:,3);
    RATES(:,5) = ( CONSTANTS(:,4).*STATES(:,6).*ALGEBRAIC(:,2) -  CONSTANTS(:,5).*STATES(:,5)) -  (ALGEBRAIC(:,1)./STATES(:,1)).*STATES(:,5);
    RATES(:,18) = ((( CONSTANTS(:,12).*STATES(:,11))./ALGEBRAIC(:,2) -  CONSTANTS(:,26).*STATES(:,18).*STATES(:,17))+ CONSTANTS(:,27).*STATES(:,19)) -  CONSTANTS(:,28).*STATES(:,18);
    RATES(:,17) = (((( CONSTANTS(:,23).*STATES(:,13))./ALGEBRAIC(:,2) -  CONSTANTS(:,24).*STATES(:,17)) -  CONSTANTS(:,26).*STATES(:,18).*STATES(:,17))+ CONSTANTS(:,27).*STATES(:,19)) -  CONSTANTS(:,29).*STATES(:,17);
    RATES(:,14) = ((( CONSTANTS(:,15).*STATES(:,13).*STATES(:,12) -  CONSTANTS(:,16).*STATES(:,14)) -  CONSTANTS(:,30).*STATES(:,14))+ CONSTANTS(:,31).*STATES(:,20).*ALGEBRAIC(:,2)) -  (ALGEBRAIC(:,1)./STATES(:,1)).*STATES(:,14);
    RATES(:,20) = ( CONSTANTS(:,30).*STATES(:,14))./ALGEBRAIC(:,2) -  CONSTANTS(:,31).*STATES(:,20);
    RATES(:,23) =  CONSTANTS(:,35).*STATES(:,24)+( CONSTANTS(:,34).*STATES(:,16))./ALGEBRAIC(:,2);
    RATES(:,28) = ( CONSTANTS(:,41).*STATES(:,21))./ALGEBRAIC(:,2) -  CONSTANTS(:,42).*STATES(:,28).*STATES(:,20);
    RATES(:,31) =  CONSTANTS(:,51).*STATES(:,32).*ALGEBRAIC(:,2);
    RATES(:,9) = (( CONSTANTS(:,46).*STATES(:,29))./ALGEBRAIC(:,2) -  CONSTANTS(:,9).*STATES(:,9).*STATES(:,7)) -  CONSTANTS(:,52).*STATES(:,9);
    RATES(:,26) = ((( CONSTANTS(:,49).*STATES(:,30))./ALGEBRAIC(:,2) -  CONSTANTS(:,37).*STATES(:,26).*STATES(:,19))+ CONSTANTS(:,36).*STATES(:,25)) -  CONSTANTS(:,53).*STATES(:,26);
   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);
    ALGEBRAIC(:,2) = STATES(:,2)./STATES(:,1);
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