(* Generated by JWS Online *)

(* This is an experimental feature of JWS Online. Please report any mistakes.*)

(* Note that the following notable SBML entities or features are not supported in notebook outputyet: *)
    (* Events *)
    (* Constraints *)
    (* Units and UnitDefinitions *)
    (* AlgebraicRules *)
    (* conversionFactors *)

variables = {
x[t], y[t], y0[t]
};

initialValues = {
x[0] == 0.02, y[0] == 0.2, y0[0] == 0.5
};

rates = {
R1, R3, R4, R5, R6
};

rateEquations = {
R1 -> compartment*psi*Theta*x[t], R3 -> alpha\[LetterSpace]xy*compartment*x[t]*y[t], R4 -> beta\[LetterSpace]y*compartment*psi*x[t], R5 -> alpha\[LetterSpace]0*compartment*y0[t], R6 -> alpha\[LetterSpace]y*compartment*y[t]
};

parameters = {
Theta -> 2.0, alpha\[LetterSpace]0 -> 1.1, alpha\[LetterSpace]x -> 0.0, alpha\[LetterSpace]xy -> 3.7, alpha\[LetterSpace]y -> 0.9, beta\[LetterSpace]y -> 1.5, psi -> 1.0, compartment -> 1.0
};

assignments = {

};

events = {

};

speciesAnnotations = {
y[t]->"http://identifiers.org/uniprot/Q00987"
};

reactionAnnotations = {

};

units = {
{"time" -> "", "metabolite" -> "", "extent" -> ""}
};

(* Time evolution *)
odes = {
x'[t] == 1.0*R1 -1.0*R3, y'[t] == 1.0*R5 -1.0*R6, y0'[t] == 1.0*R4 -1.0*R5
};
timeCourse = NDSolve[Join[odes, initialValues]//.rateEquations//.assignments//.parameters, variables, {t, 0, 100}];

(* Steady-state solution initialized with result of time evolution *)
findRootEquations = odes /.D[_[t],t]->0;
findRootVariables = Partition[Flatten[{#, #/.timeCourse/.t->100} &/@variables],2];
steadyStateVariables = FindRoot[findRootEquations//.rateEquations//.assignments//.parameters, findRootVariables, MaxIterations->100]
fluxes = #//.assignments//.parameters/.steadyStateVariables&/@rateEquations

(* Plot the time evolution of the variables *)
plotTable=Table[Plot[variables[[i]]/.parameters/.timeCourse,{t,0,100},PlotLegends->variables[[i]],PlotRange->Full],{i,Length[variables]}]