(* 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 = {
FREP[t], Fus3[t], Fus3PP[t], Gbg[t], Kss1[t], Kss1PP[t], PREP[t], Ste11[t], Ste11P[t], Ste11Ubi[t], Ste12[t], Ste12Kss1[t], Ste12P[t], Ste12TeSte5[t], Ste12TeSte5Kss1[t], Ste12TeSte5P[t], Ste5[t], Ste5Ste11[t], Ste5Ste11Gbg[t], Ste5Ste11GbgFus3[t], Ste5Ste11GbgFus3P[t], Ste5Ste11GbgKss1[t], Ste5Ste11GbgKss1P[t], Ste5Ste11GbgP[t]
};

initialValues = {
FREP[0] == 0.0, Fus3[0] == 217.0, Fus3PP[0] == 0.0, Gbg[0] == 53.0, Kss1[0] == 54.4, Kss1PP[0] == 0.0, PREP[0] == 0.0, Ste11[0] == 13.3, Ste11P[0] == 0.0, Ste11Ubi[0] == 0.0, Ste12[0] == 0.07, Ste12Kss1[0] == 35.9, Ste12P[0] == 0.0, Ste12TeSte5[0] == 0.25, Ste12TeSte5Kss1[0] == 13.7, Ste12TeSte5P[0] == 0.0, Ste5[0] == 42.3, Ste5Ste11[0] == 5.6, Ste5Ste11Gbg[0] == 0.0, Ste5Ste11GbgFus3[0] == 0.0, Ste5Ste11GbgFus3P[0] == 0.0, Ste5Ste11GbgKss1[0] == 0.0, Ste5Ste11GbgKss1P[0] == 0.0, Ste5Ste11GbgP[0] == 0.0
};

rates = {
v1, v10, v11, v12, v13, v14, v15, v16, v17, v18, v19, v2, v20, v21, v22, v23, v24, v25, v26, v27, v28, v29, v3, v30, v31, v4, v5, v6, v7, v8, v9
};

rateEquations = {
v1 -> compartment*k1*Ste11[t]*Ste5[t], v10 -> compartment*k10*Ste5Ste11GbgKss1[t], v11 -> compartment*k11*Ste5Ste11GbgKss1P[t], v12 -> compartment*k12*Kss1[t]*Ste5Ste11GbgP[t], v13 -> beta*compartment*k13*Ste11[t], v14 -> compartment*k14*Ste11P[t], v15 -> compartment*(k15*Kss1[t]*Ste11P[t] + k30*Kss1[t]*Ste11Ubi[t]), v16 -> compartment*(k16*Kss1PP[t] + k28*Fus3PP[t]*Kss1PP[t]), v17 -> compartment*k17*Ste12Kss1[t], v18 -> compartment*k18*Kss1[t]*Ste12[t], v19 -> compartment*(k19*Fus3PP[t]*Ste12[t] + k29*Kss1PP[t]*Ste12[t]), v2 -> alpha*compartment*k2*Gbg[t]*Ste5Ste11[t], v20 -> compartment*k20*Ste12P[t], v21 -> compartment*k21*Ste12TeSte5Kss1[t], v22 -> compartment*k22*Kss1[t]*Ste12TeSte5[t], v23 -> compartment*k23*Kss1PP[t]*Ste12TeSte5[t], v24 -> compartment*k24*Fus3PP[t]*Ste12TeSte5[t], v25 -> compartment*k25*Ste12TeSte5P[t], v26 -> compartment*k26*Fus3PP[t], v27 -> compartment*k27*Ste5Ste11[t], v28 -> compartment*k31*Ste12P[t], v29 -> compartment*k32*PREP[t], v3 -> compartment*k3*Fus3[t]*Ste5Ste11Gbg[t], v30 -> compartment*k33*Ste12TeSte5P[t], v31 -> compartment*k34*FREP[t], v4 -> compartment*k4*Ste5Ste11GbgFus3[t], v5 -> compartment*k5*Ste5Ste11GbgFus3P[t], v6 -> compartment*k6*Fus3[t]*Ste5Ste11GbgP[t], v7 -> compartment*k7*Ste5Ste11GbgP[t], v8 -> compartment*k8*Ste11Ubi[t], v9 -> compartment*k9*Kss1[t]*Ste5Ste11Gbg[t]
};

parameters = {
alphaA -> 1.0, alphae -> 10.0, alphas -> 2.0, alphastim -> 1.0, alphat -> 0.0, betaA -> 1.0, betae -> 360.0, betas -> 20.0, betastim -> 1.0, betat -> 0.0, k1 -> 0.01, k10 -> 1.0, k11 -> 1.0, k12 -> 1.0, k13 -> 1.0, k14 -> 0.1, k15 -> 0.1, k16 -> 0.1, k17 -> 1.0, k18 -> 10.0, k19 -> 1.0, k2 -> 0.01, k20 -> 1.0, k21 -> 1.0, k22 -> 1.0, k23 -> 1.0, k24 -> 0.01, k25 -> 1.0, k26 -> 0.1, k27 -> 1.0, k28 -> 0.01, k29 -> 0.01, k3 -> 1.0, k30 -> 0.1, k31 -> 1.0, k32 -> 1.0, k33 -> 1.0, k34 -> 1.0, k4 -> 1.0, k5 -> 1.0, k6 -> 1.0, k7 -> 10.0, k8 -> 0.1, k9 -> 1.0, p -> 0.0, s -> 0.0, compartment -> 1.0
};

assignments = {
beta -> betaA*betastim*Piecewise[{{1 - E^(-((-betat + t)/betas)), t >= betat && t <= betae}}, Piecewise[{{E^(-((-betae + t)/betas)), t > betae}}, 0]], alpha -> alphastim*Piecewise[{{alphaA*(1 - E^(-((-alphat + t)/alphas))), t >= alphat && t <= alphae}}, Piecewise[{{alphaA/E^((-alphat + t)/alphas), t >= alphae}}, 0]]
};

events = {

};

speciesAnnotations = {

};

reactionAnnotations = {

};

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

(* Time evolution *)
odes = {
FREP'[t] == 1.0*v25 -1.0*v31, Fus3'[t] == 1.0*v26 -1.0*v3 -1.0*v6, Fus3PP'[t] == 1.0*v5 -1.0*v26, Gbg'[t] == 1.0*v7 -1.0*v2, Kss1'[t] == 1.0*v16 +2.0*v17 +1.0*v21 -1.0*v9 -1.0*v12 -1.0*v15 -2.0*v18 -1.0*v22, Kss1PP'[t] == 1.0*v11 +1.0*v15 -1.0*v16, PREP'[t] == 1.0*v20 -1.0*v29, Ste11'[t] == 1.0*v14 +1.0*v27 -1.0*v1 -1.0*v13, Ste11P'[t] == 1.0*v13 -1.0*v14, Ste11Ubi'[t] == 1.0*v7 -1.0*v8, Ste12'[t] == 1.0*v17 +1.0*v28 -1.0*v18 -1.0*v19, Ste12Kss1'[t] == 1.0*v18 -1.0*v17, Ste12P'[t] == 1.0*v19 -1.0*v28, Ste12TeSte5'[t] == 1.0*v21 +1.0*v30 -1.0*v22 -1.0*v23 -1.0*v24, Ste12TeSte5Kss1'[t] == 1.0*v22 -1.0*v21, Ste12TeSte5P'[t] == 1.0*v23 -1.0*v30, Ste5'[t] == 1.0*v27 -1.0*v1 -1.0*v7, Ste5Ste11'[t] == 1.0*v1 -1.0*v2 -1.0*v27, Ste5Ste11Gbg'[t] == 1.0*v2 -1.0*v3 -1.0*v9, Ste5Ste11GbgFus3'[t] == 1.0*v3 -1.0*v4, Ste5Ste11GbgFus3P'[t] == 1.0*v4 +1.0*v6 -1.0*v5, Ste5Ste11GbgKss1'[t] == 1.0*v9 -1.0*v10, Ste5Ste11GbgKss1P'[t] == 1.0*v10 +1.0*v12 -1.0*v11, Ste5Ste11GbgP'[t] == 1.0*v5 +1.0*v11 -1.0*v6 -1.0*v7 -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]}]