(* 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 = {
B[t], II[t], T[t], V[t]
};

initialValues = {
B[0] == 50.0, II[0] == 0.0, T[0] == 560000.0, V[0] == 0.04
};

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

rateEquations = {
v1 -> lambda, v2 -> beta*T[t]*V[t], v3 -> delta*T[t], v4 -> gamma*II[t], v5 -> c*gamma*II[t], v6 -> phi*V[t], v7 -> k*B[t]*V[t], v8 -> a*B[t]*V[t], v9 -> mu*B[t]
};

parameters = {
a -> 2.22*^-07, beta -> 1*^-07, c -> 4000.0, delta -> 0.0025, gamma -> 0.25, k -> 0.025, lambda -> 1400.0, mu -> 0.0, phi -> 32.0, default -> 1.0
};

assignments = {

};

events = {

};

speciesAnnotations = {

};

reactionAnnotations = {

};

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

(* Time evolution *)
odes = {
B'[t] == 1.0*v8 -1.0*v9, II'[t] == 1.0*v2 -1.0*v4, T'[t] == 1.0*v1 -1.0*v3 -1.0*v2, V'[t] == 1.0*v5 -1.0*v7 -1.0*v6
};
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]}]