EnsembleProblem with timepoint_meanvar errors due to internal mutation

[CharlesRSmith44]

Hi,

Is there a way to combine the ensembleproblem command to solve SDEs in combination with Flux Neural Nets. Right now, when I try to combine them, I get the error when I try to train the Neural Net. "Info: Epoch 1 └ @ Main /home/ec2-user/.julia/packages/Flux/Fj3bt/src/optimise/train.jl:121 Mutating arrays is not supported

Stacktrace: [1] error(::String) at ./error.jl:33 [2] (::Zygote.var"#459#460")(::Nothing) at /home/ec2-user/.julia/packages/Zygote/1GXzF/src/lib/array.jl:67 [3] (::Zygote.var"#1009#back#461"{Zygote.var"#459#460"})(::Nothing) at /home/ec2-user/.julia/packages/ZygoteRules/6nssF/src/adjoint.jl:49 [4] materialize! at ./broadcast.jl:826 [inlined]"

Here is the code:

### Packages
import Pkg; Pkg.build("DifferentialEquations")
import Pkg; Pkg.add("DifferentialEquations")

using DifferentialEquations
using Flux
using DifferentialEquations.EnsembleAnalysis
using IterTools: ncycle
using Flux: @epochs
using DiffEqSensitivity

# Input parameters
T = 1.0f0
tspan = (0.0f0,T)
m=Float32[1.0]
v=Float32[1.0]
true_y0 = exp(T)*m[1] + (exp(T)-1)*( sqrt(  2*v[1]/(1-exp(-2*T)) )+1 )
true_Z = sqrt(2*v[1]/(1-exp(-2*T)))
u0 = Float32[true_y0 + 0.25] # initial guess
Z = Float32[true_Z + 0.25]
ps = Flux.params(Z,u0) # or Flux.params(p1,u0) if you want to also optimize over all u0 parameters

function drift_nn(u,p,t)
    [-(u[1] + p[1] + 1.0f0)]
end

function stoch_nn(u,p,t)
    [p[1]]
end

probSDE_nn = SDEProblem{false}(drift_nn,stoch_nn,u0,tspan)
ensemble_prob = EnsembleProblem(probSDE_nn)
function yT_nn(p)
    sim = solve(ensemble_prob,EM(),trajectories=1000,p = p[1][1],u0=p[2],dt = 0.005)
end

function  loss_nn(m,v)
    m_val,v_val = timepoint_meanvar(yT_nn(ps),1.0)
    loss = (m_val[1]-m[1])^2 + (v_val[1]-v[1])^2
end

yT_nn(ps)

cb2 = function() #callback function to observe training
  display(loss_nn(m,v))
end

cb2()

Z_pre = deepcopy(Z)
u0_pre = deepcopy(u0)

# train model on the same data num_cycle times
num_cycles = 1
data = ncycle([(m, v)], num_cycles)

opt = ADAM(0.01)
@epochs 5 Flux.train!(loss_nn, ps , data,  opt, cb=cb2);

Thank you!

[CharlesRSmith44]

Alternatively, I can try to parallelize the SDE paths by using a pmap or map loop, but that seems to run into similar issues:

Example code:

### Using Packages
using Tables, DataFrames, Debugger
using Zygote, Statistics, Test, Tracker
using ModelingToolkit
using Flux, DifferentialEquations
using Flux: @epochs
using Random
using IterTools: ncycle
using DiffEqSensitivity
using DiffEqFlux
using DiffEqSensitivity
using Distributed

### User inputs
T = 0.01f0
tspan = (0.0f0,T)
m=Float32[1.0]
v=Float32[50.0]
true_y0 = exp(T)*m[1] + (exp(T)-1)*( sqrt(  2*v[1]/(1-exp(-2*T)) )+1 )
true_Z = sqrt(2*v[1]/(1-exp(-2*T)))
u0 = Float32[true_y0 + 0.25] # initial guess
Z = Float32[true_Z + 0.25]
ps = Flux.params(Z,u0) |> gpu # or Flux.params(p1,u0) if you want to also optimize over all u0 parameters

function drift_nn(u,p,t)
    [-(u[1] + p[1] + 1.0f0)]
end

function stoch_nn(u,p,t)
    [p[1]]
end

probSDE_nn = SDEProblem{false}(drift_nn,stoch_nn,u0,tspan,ps)

num_sim = 100 # number of paths to draw

function yT_nn(u0,p)
    #sensealg=TrackerAdjoint()
    #sensealg = ReverseDiffAdjoint()
    [Array(solve(probSDE_nn,EM(),dt=0.005,p=Z,u0=u0,save_start=false,saveat=T,save_noise=false))[end] for j=1:num_sim]
end

### using pmap
@everywhere  function yT_nn2(u0,Z)
   (solve(probSDE_nn,EM(),dt=0.005,p=Z,u0=u0,save_start=false,saveat=T,save_noise=false))[end]
end

function compute_paths(u0,Z)
    u0_vals = fill(u0, num_sim) #u0_vals = repeat(u0,num_sim)
    p_vals = fill(Z, num_sim)
    paths = map(yT_nn2, u0_vals,p_vals) #pmap(yT_nn2,u0_vals,p_vals)
end

function loss_nn(m,v)
    paths = compute_paths(u0,Z)
    loss = (mean(paths)[1]-m[1])^2 + (var(paths)[1]-v[1])^2
end

compute_paths(u0, Z)

cb2 = function() #callback function to observe training
  display(loss_nn(m,v))
end
cb2()
Z_pre = deepcopy(Z)
u0_pre = deepcopy(u0)

# train model on the same data num_cycle times
num_cycles = 1
data = ncycle([(m, v)], num_cycles)

# train
num_sim = 1000
opt = ADAM(0.01)
@epochs 5 Flux.train!(loss_nn, ps , data,  opt, cb=cb2);

The exact error is: MethodError: Cannot convert an object of type Float64 to an object of type Array{Float32,1}

[ChrisRackauckas]

https://diffeqflux.sciml.ai/dev/examples/optimization_sde/#Example-1:-Fitting-Data-with-SDEs-1

That example uses EnsembleThreads without a problem, so we know it's not a problem. What your example points to is that timepoint_meanvar internally does mutation, and that's where the adjoint is erroring. If you don't use that function it works.

[CharlesRSmith44]

I copied the example you gave and it works just fine, but when I apply it to my problem I still seem to get errors: MethodError: no method matching (::var"#46#47")(::Array{Float64,1}, ::Float64)

### Packages
import Pkg; Pkg.build("DifferentialEquations")
import Pkg; Pkg.add("DifferentialEquations")
import Pkg; Pkg.add("IterTools")

using DifferentialEquations
using Flux
using DifferentialEquations.EnsembleAnalysis
using IterTools: ncycle
using Flux: @epochs
using DiffEqSensitivity
using Statistics
using DiffEqFlux

# Input parameters
T = 1.0f0
tspan = (0.0f0,T)
m=1.0
v=1.0
true_y0 = exp(T)*m + (exp(T)-1)*( sqrt(  2*v/(1-exp(-2*T)) )+1 )
true_Z = sqrt(2*v/(1-exp(-2*T)))
u0 = [true_y0 + 0.25] # initial guess
Z = true_Z + 0.25
p = [Z]

function drift_nn!(du,u,p,t)
    du[1] = - u[1] - p[1] - 1.0f0
end

function stoch_nn!(du,u,p,t)
    du[1] = p[1]
end

probSDE_nn = SDEProblem(drift_nn!,stoch_nn!,u0,tspan,p)
ensemble_prob = EnsembleProblem(probSDE_nn)
sol = solve(ensemble_prob,EM(),saveat = T,trajectories=1000, dt=0.005)

function loss_2(p)
    tmp_prob = remake(probSDE_nn,p=p)
    ensemble_prob = EnsembleProblem(tmp_prob)
    sim = solve(ensemble_prob,EM(),saveat = T, trajectories=1000, dt=0.005)
    arraysol = Array(sim)
    loss = (m - mean(arrsol,dims=3)[2])^2 + (v - var(arrsol,dims=3)[2])^2
end

cb2 = function() #callback function to observe training
  display(loss_2(p))
end

cb2()

Z_pre = deepcopy(Z)
u0_pre = deepcopy(u0)

# train model on the same data num_cycle times
opt = ADAM(0.01)
@time res = DiffEqFlux.sciml_train(loss_2,ps,opt, maxiters = 5, cb=cb2)

[ChrisRackauckas]

The error message was telling you that you didn't have enough arguments in your callback:

using DifferentialEquations
using Flux
using DifferentialEquations.EnsembleAnalysis
using IterTools: ncycle
using Flux: @epochs
using DiffEqSensitivity
using Statistics
using DiffEqFlux

# Input parameters
T = 1.0f0
tspan = (0.0f0,T)
m=1.0
v=1.0
true_y0 = exp(T)*m + (exp(T)-1)*( sqrt(  2*v/(1-exp(-2*T)) )+1 )
true_Z = sqrt(2*v/(1-exp(-2*T)))
u0 = [true_y0 + 0.25] # initial guess
Z = true_Z + 0.25
p = [Z]

function drift_nn!(du,u,p,t)
    du[1] = - u[1] - p[1] - 1.0f0
end

function stoch_nn!(du,u,p,t)
    du[1] = p[1]
end

probSDE_nn = SDEProblem(drift_nn!,stoch_nn!,u0,tspan,p)
ensemble_prob = EnsembleProblem(probSDE_nn)
sol = solve(ensemble_prob,EM(),saveat = T,trajectories=1000, dt=0.005)

function loss_2(p)
    tmp_prob = remake(probSDE_nn,p=p)
    ensemble_prob = EnsembleProblem(tmp_prob)
    sim = solve(ensemble_prob,EM(),saveat = T, trajectories=1000, dt=0.005)
    arraysol = Array(sim)
    loss = (m - mean(arraysol,dims=3)[2])^2 + (v - var(arraysol,dims=3)[2])^2
end

cb2 = function(l,p) #callback function to observe training
  display(loss_2(p))
  false
end

Z_pre = deepcopy(Z)
u0_pre = deepcopy(u0)

# train model on the same data num_cycle times
opt = ADAM(0.01)
@time res = DiffEqFlux.sciml_train(loss_2,p,opt, maxiters = 5, cb=cb2)

[CharlesRSmith44]

Awesome, thank you so much!

One last question: How do I get the schiml_train function to update the intial position of the SDE (u0 in the example). My first guess trains, but the u0/p[2] parameter doesn't update.

### Packages
import Pkg; Pkg.build("DifferentialEquations")
import Pkg; Pkg.add("DifferentialEquations")
import Pkg; Pkg.add("IterTools")

using DifferentialEquations
using Flux
using DifferentialEquations.EnsembleAnalysis
using IterTools: ncycle
using Flux: @epochs
using DiffEqSensitivity
using Statistics
using DiffEqFlux

# Input parameters
T = 1.0f0
tspan = (0.0f0,T)
m=1.0
v=1.0
true_y0 = exp(T)*m + (exp(T)-1)*( sqrt(  2*v/(1-exp(-2*T)) )+1 )
true_Z = sqrt(2*v/(1-exp(-2*T)))
u0 = true_y0 + 0.25 # initial guess
Z = true_Z + 0.25
p = [Z, u0]

function drift_nn!(du,u,p,t)
    du[1] = - u[1] - p[1] - 1.0f0
end

function stoch_nn!(du,u,p,t)
    du[1] = p[1]
end

probSDE_nn = SDEProblem(drift_nn!,stoch_nn!,[p[2]],tspan,p)
ensemble_prob = EnsembleProblem(probSDE_nn)
sol = solve(ensemble_prob,EM(),saveat = T,trajectories=1000, dt=0.005)

function loss_2(p)
    tmp_prob = remake(probSDE_nn,p=p)
    ensemble_prob = EnsembleProblem(tmp_prob)
    sim = solve(ensemble_prob,EM(),saveat = T, trajectories=1000, dt=0.005)
    arrsol = Array(sim)
    loss = (m - mean(arrsol,dims=3)[2])^2 + (v - var(arrsol,dims=3)[2])^2
end

Z_pre = deepcopy(Z)
u0_pre = deepcopy(u0)

# train model on the same data num_cycle times
opt = ADAM(0.01)
@time res = DiffEqFlux.sciml_train(loss_2,p,opt, maxiters = 5)

[ChrisRackauckas]

It's because you're not using p[2] from the loss function. You're fixing the value outside the loss function.

function loss_2(p)
    tmp_prob = remake(probSDE_nn,p=p,u0=[[p[2]]))
    ...