(* 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 = {
T[t], T1star[t], Tstar[t], VI[t], VNI[t]
};

initialValues = {
T[0] == 600.0, T1star[0] == 0.0, Tstar[0] == 0.0, VI[0] == 0.1, VNI[0] == 0.0
};

rates = {
v1, v10, v11, v12, v2, v3, v4, v5, v6, v7, v8, v9
};

rateEquations = {
v1 -> s, v10 -> delta*epsilon*NN*Tstar[t], v11 -> c*VI[t], v12 -> c*VNI[t], v2 -> mu*T[t], v3 -> k*T[t]*VI[t], v4 -> alpha*eta*T1star[t], v5 -> b*T1star[t], v6 -> mu1*T1star[t], v7 -> alpha*T1star[t], v8 -> delta*Tstar[t], v9 -> delta*NN*Tstar[t]
};

parameters = {
NN -> 500.0, alpha -> 4.0, b -> 0.05, c -> 4.0, delta -> 0.26, epsilon -> 0.5, eta -> 0.6, k -> 2.4*^-05, mu -> 0.01, mu1 -> 0.015, s -> 10.0, default -> 1.0
};

assignments = {
V -> VI[t] + VNI[t]
};

events = {

};

speciesAnnotations = {

};

reactionAnnotations = {

};

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

(* Time evolution *)
odes = {
T'[t] == 1.0*v1 +1.0*v5 +1.0*v4 -1.0*v3 -1.0*v2, T1star'[t] == 1.0*v3 -1.0*v5 -1.0*v6 -1.0*v7, Tstar'[t] == 1.0*v7 -1.0*v8 -1.0*v4, VI'[t] == 1.0*v9 -1.0*v11 -1.0*v10, VNI'[t] == 1.0*v10 -1.0*v12
};
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]}]