(* 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 = {
ADP[t], ATP[t], BPG[t], P3G[t], pep[t], phos[t], pyr[t]
};

initialValues = {
ADP[0] == 0.0, ATP[0] == 10.0, BPG[0] == 0.0, P3G[0] == 4.5, pep[0] == 5.0, phos[0] == 0.0, pyr[0] == 0.1
};

rates = {
v1, v2, v3
};

rateEquations = {
v1 -> (protPGK*(-((VmrPGK*ADP[t]*BPG[t])/(KpgkADP*KpgkBPG)) + (VmfPGK*ATP[t]*P3G[t])/(KpgkATP*KpgkP3G)))/((1 + ADP[t]/KiADP)*(1 + ((1 + ADP[t]/KpgkADP)*BPG[t])/KpgkBPG + ((1 + ATP[t]/KpgkATP)*P3G[t])/KpgkP3G)), v2 -> kPK*ADP[t]*pep[t], v3 -> kd*BPG[t]
};

parameters = {
KiADP -> 1.01661161972841, KpgkADP -> 0.374683891073216, KpgkATP -> 9.30939957007288, KpgkBPG -> 0.00824346710166223, KpgkP3G -> 0.567800672197298, VmfPGK -> 17.2125572084323, VmrPGK -> 37.9602642543915, kPK -> 10.0, kd -> 0.736416, protPGK -> 0.0034, default -> 1.0
};

assignments = {

};

events = {

};

speciesAnnotations = {

};

reactionAnnotations = {
v2->"http://identifiers.org/ec-code/2.7.1.40"
};

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

(* Time evolution *)
odes = {
ADP'[t] == 1.0*v1 -1.0*v2, ATP'[t] == 1.0*v2 -1.0*v1, BPG'[t] == 1.0*v1 -1.0*v3, P3G'[t] == 1.0*v3 -1.0*v1, pep'[t] ==  -1.0*v2, phos'[t] == 1.0*v3 , pyr'[t] == 1.0*v2 
};
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]}]