Package evaluation of PiecewiseDeterministicMarkovProcesses on Julia 1.10.9 (96dc2d8c45*) started at 2025-06-06T20:44:36.461 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 5.19s ################################################################################ # Installation # Installing PiecewiseDeterministicMarkovProcesses... Resolving package versions... Updating `~/.julia/environments/v1.10/Project.toml` [86206cdf] + PiecewiseDeterministicMarkovProcesses v0.0.10 Updating `~/.julia/environments/v1.10/Manifest.toml` [47edcb42] + ADTypes v1.14.0 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.3.0 [ec485272] + ArnoldiMethod v0.4.0 [4fba245c] + ArrayInterface v7.19.0 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [fa961155] + CEnum v0.5.0 [2a0fbf3d] + CPUSummary v0.2.6 [fb6a15b2] + CloseOpenIntervals v0.1.13 [38540f10] + CommonSolve v0.2.4 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.16.0 [a33af91c] + CompositionsBase v0.1.2 [2569d6c7] + ConcreteStructs v0.2.3 [187b0558] + ConstructionBase v1.5.8 [adafc99b] + CpuId v0.3.1 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [2b5f629d] + DiffEqBase v6.175.0 [459566f4] + DiffEqCallbacks v4.6.0 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [a0c0ee7d] + DifferentiationInterface v0.7.0 [ffbed154] + DocStringExtensions v0.9.4 [4e289a0a] + EnumX v1.0.5 [f151be2c] + EnzymeCore v0.8.11 [e2ba6199] + ExprTools v0.1.10 [55351af7] + ExproniconLite v0.10.14 [7034ab61] + FastBroadcast v0.3.5 [9aa1b823] + FastClosures v0.3.2 [a4df4552] + FastPower v1.1.2 [f6369f11] + ForwardDiff v1.0.1 [069b7b12] + FunctionWrappers v1.1.3 [77dc65aa] + FunctionWrappersWrappers v0.1.3 [d9f16b24] + Functors v0.5.2 [46192b85] + GPUArraysCore v0.2.0 [86223c79] + Graphs v1.13.0 [615f187c] + IfElse v0.1.1 [d25df0c9] + Inflate v0.1.5 [3587e190] + InverseFunctions v0.1.17 [92d709cd] + IrrationalConstants v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.0 [ae98c720] + Jieko v0.2.1 [ccbc3e58] + JumpProcesses v9.15.0 [7f56f5a3] + LSODA v0.7.5 [b964fa9f] + LaTeXStrings v1.4.0 [10f19ff3] + LayoutPointers v0.1.17 [2ab3a3ac] + LogExpFunctions v0.3.29 [1914dd2f] + MacroTools v0.5.16 [d125e4d3] + ManualMemory v0.1.8 [2e0e35c7] + Moshi v0.3.5 [46d2c3a1] + MuladdMacro v0.2.4 [77ba4419] + NaNMath v1.1.3 [bac558e1] + OrderedCollections v1.8.1 [d96e819e] + Parameters v0.12.3 [86206cdf] + PiecewiseDeterministicMarkovProcesses v0.0.10 [e409e4f3] + PoissonRandom v0.4.4 [f517fe37] + Polyester v0.7.18 [1d0040c9] + PolyesterWeave v0.2.2 [d236fae5] + PreallocationTools v0.4.27 ⌅ [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.4.3 [08abe8d2] + PrettyTables v2.4.0 [e6cf234a] + RandomNumbers v1.6.0 [3cdcf5f2] + RecipesBase v1.3.4 [731186ca] + RecursiveArrayTools v3.33.0 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [7e49a35a] + RuntimeGeneratedFunctions v0.5.15 [94e857df] + SIMDTypes v0.1.0 [0bca4576] + SciMLBase v2.97.0 [c0aeaf25] + SciMLOperators v1.3.1 [53ae85a6] + SciMLStructures v1.7.0 [efcf1570] + Setfield v1.1.2 [699a6c99] + SimpleTraits v0.9.4 [276daf66] + SpecialFunctions v2.5.1 [aedffcd0] + Static v1.2.0 [0d7ed370] + StaticArrayInterface v1.8.0 [90137ffa] + StaticArrays v1.9.13 [1e83bf80] + StaticArraysCore v1.4.3 [7792a7ef] + StrideArraysCore v0.5.7 [892a3eda] + StringManipulation v0.4.1 [c3572dad] + Sundials v4.28.0 [2efcf032] + SymbolicIndexingInterface v0.3.40 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [8290d209] + ThreadingUtilities v0.5.4 [781d530d] + TruncatedStacktraces v1.4.0 [3a884ed6] + UnPack v1.0.2 [aae0fff6] + LSODA_jll v0.1.2+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 ⌅ [fb77eaff] + Sundials_jll v5.2.2+0 [56f22d72] + Artifacts [2a0f44e3] + Base64 [ade2ca70] + Dates [8ba89e20] + Distributed [9fa8497b] + Future [b77e0a4c] + InteractiveUtils [8f399da3] + Libdl [37e2e46d] + LinearAlgebra [56ddb016] + Logging [d6f4376e] + Markdown [a63ad114] + Mmap [de0858da] + Printf [9a3f8284] + Random [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization [1a1011a3] + SharedArrays [6462fe0b] + Sockets [2f01184e] + SparseArrays v1.10.0 [10745b16] + Statistics v1.10.0 [fa267f1f] + TOML v1.0.3 [8dfed614] + Test [cf7118a7] + UUIDs [4ec0a83e] + Unicode [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0 [4536629a] + OpenBLAS_jll v0.3.23+4 [05823500] + OpenLibm_jll v0.8.5+0 [bea87d4a] + SuiteSparse_jll v7.2.1+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 8.99s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... ┌ Warning: Could not use exact versions of packages in manifest, re-resolving └ @ TestEnv ~/.julia/packages/TestEnv/iS95e/src/julia-1.9/activate_set.jl:63 Precompiling package dependencies... Precompilation completed after 184.03s ################################################################################ # Testing # Testing PiecewiseDeterministicMarkovProcesses ┌ Warning: Could not use exact versions of packages in manifest, re-resolving └ @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1829 Status `/tmp/jl_B692zP/Project.toml` [f6369f11] ForwardDiff v1.0.1 [ccbc3e58] JumpProcesses v9.15.0 [7f56f5a3] LSODA v0.7.5 [1dea7af3] OrdinaryDiffEq v6.98.0 [d96e819e] Parameters v0.12.3 [86206cdf] PiecewiseDeterministicMarkovProcesses v0.0.10 [d236fae5] PreallocationTools v0.4.27 [731186ca] RecursiveArrayTools v3.33.0 [0bca4576] SciMLBase v2.97.0 [c3572dad] Sundials v4.28.0 [37e2e46d] LinearAlgebra [9a3f8284] Random [2f01184e] SparseArrays v1.10.0 [8dfed614] Test Status `/tmp/jl_B692zP/Manifest.toml` [47edcb42] ADTypes v1.14.0 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.3.0 [ec485272] ArnoldiMethod v0.4.0 [4fba245c] ArrayInterface v7.19.0 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Testing Running tests... 0.069448 seconds (16.41 k allocations: 1012.016 KiB, 99.94% compilation time) Comparison of solvers ┌ Warning: Using a `Bool` for keyword argument `autodiff` is deprecated. Please use an `ADType` specifier. │ caller = _process_AD_choice at misc_utils.jl:158 [inlined] └ @ Core ~/.julia/packages/OrdinaryDiffEqCore/UVwdM/src/misc_utils.jl:158 5.882993 seconds (2.64 M allocations: 183.967 MiB, 2.66% gc time, 99.89% compilation time) --> norm difference = 0.00020895427984513049 - solver = cvode 3.140381 seconds (964.39 k allocations: 64.955 MiB, 1.07% gc time, 99.97% compilation time) --> norm difference = 4.562246893158317e-6 - solver = lsoda 2.514899 seconds (1.37 M allocations: 95.444 MiB, 1.62% gc time, 99.87% compilation time) --> norm difference = 0.00020895427882905437 - solver = CVODEBDF 1.901105 seconds (1.17 M allocations: 81.770 MiB, 2.54% gc time, 99.87% compilation time) --> norm difference = 9.164040960740749e-6 - solver = CVODEAdams 33.162475 seconds (2.29 M allocations: 138.961 MiB, 0.14% gc time, 99.99% compilation time) --> norm difference = 0.00021445406171594072 - solver = RS23 3.941345 seconds (2.29 M allocations: 157.165 MiB, 2.95% gc time, 99.93% compilation time) --> norm difference = 1.413279093753772e-8 - solver = tsit5 8.486334 seconds (2.15 M allocations: 146.455 MiB, 10.37% gc time, 99.96% compilation time) --> norm difference = 1.5885276383187374e-7 - solver = rodas4P-AutoDiff 7.223853 seconds (2.09 M allocations: 142.609 MiB, 1.04% gc time, 99.95% compilation time) --> norm difference = 3.1827500635017714e-8 - solver = rodas5 5.846174 seconds (3.07 M allocations: 209.196 MiB, 2.64% gc time, 99.95% compilation time) --> norm difference = 1.413279093753772e-8 - solver = AutoTsit5RS23 0.024438 seconds (2.42 k allocations: 171.508 KiB, 93.10% compilation time) Test Summary: | Pass Total Time Example TCP | 1 1 1m17.7s WARNING: Method definition AnalyticalSample(Any, Any, Any, Int64) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp.jl:5 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/pdmpExplosion.jl:5. Comparison of solvers ┌ Warning: Assignment to `problem` in soft scope is ambiguous because a global variable by the same name exists: `problem` will be treated as a new local. Disambiguate by using `local problem` to suppress this warning or `global problem` to assign to the existing global variable. └ @ ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/pdmpExplosion.jl:74 ┌ Warning: Assignment to `res` in soft scope is ambiguous because a global variable by the same name exists: `res` will be treated as a new local. Disambiguate by using `local res` to suppress this warning or `global res` to assign to the existing global variable. └ @ ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/pdmpExplosion.jl:75 ┌ Warning: Using a `Bool` for keyword argument `autodiff` is deprecated. Please use an `ADType` specifier. │ caller = _process_AD_choice at misc_utils.jl:158 [inlined] └ @ Core ~/.julia/packages/OrdinaryDiffEqCore/UVwdM/src/misc_utils.jl:158 --> norm difference = 9.985930109479568e-7 - solver = lsoda --> norm difference = 1.2362318864367339e-5 - solver = cvode --> norm difference = 1.2362287630685032e-5 - solver = CVODEBDF --> norm difference = 1.534517703571936e-6 - solver = CVODEAdams --> norm difference = 3.4168914364585135e-9 - solver = tsit5 --> norm difference = 1.6708951999788724e-8 - solver = rodas4P-AutoDiff --> norm difference = 0.0065577534809497795 - solver = rodas5 --> norm difference = 2.2784790345120598e-5 - solver = RS23 --> norm difference = 4.12005027650153e-7 - solver = AutoTsit5-RS23 Test Summary: | Pass Total Time Example explosion of jump times | 1 1 27.2s WARNING: Method definition F!(Any, Any, Any, Any, Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/pdmpExplosion.jl:29 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/pdmpStiff.jl:71. WARNING: Method definition R(Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/pdmpExplosion.jl:33 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/pdmpStiff.jl:79. WARNING: Method definition R!(Any, Any, Any, Any, Any, Bool) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/pdmpExplosion.jl:35 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/pdmpStiff.jl:81. ┌ Warning: Using a `Bool` for keyword argument `autodiff` is deprecated. Please use an `ADType` specifier. │ caller = _process_AD_choice(ad_alg::Bool, ::Val{0}, ::Val{:forward}) at misc_utils.jl:158 └ @ OrdinaryDiffEqCore ~/.julia/packages/OrdinaryDiffEqCore/UVwdM/src/misc_utils.jl:158 Comparison of solvers - CHV ┌ Warning: Assignment to `res` in soft scope is ambiguous because a global variable by the same name exists: `res` will be treated as a new local. Disambiguate by using `local res` to suppress this warning or `global res` to assign to the existing global variable. └ @ ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/pdmpStiff.jl:121 --> norm difference = 0.0023436667727310123 - solver = cvode ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: `Base.getindex(VA::AbstractVectorOfArray{T, N, A}, I::Int) where {T, N, A <: Union{AbstractArray, AbstractVectorOfArray}}` is deprecated, use `VA.u[I]` instead. │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 --> norm difference = 0.0021281768231347087 - solver = lsoda --> norm difference = 0.0023436725223291432 - solver = CVODEBDF --> norm difference = 0.002069344401206763 - solver = CVODEAdams --> norm difference = 0.0003403468526812503 - solver = tsit5 --> norm difference = 5.704655495719635e-5 - solver = rodas4P-noAutoDiff --> norm difference = 1.0002506769524189e-5 - solver = rodas4P-AutoDiff --> norm difference = 0.0003403468526812503 - solver = AutoTsit5-RS23 Comparison of solvers - CHV (without saving solution) ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: `Base.getindex(VA::AbstractVectorOfArray{T, N, A}, I::Int) where {T, N, A <: Union{AbstractArray, AbstractVectorOfArray}}` is deprecated, use `VA.u[I]` instead. │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: `Base.getindex(VA::AbstractVectorOfArray{T, N, A}, I::Int) where {T, N, A <: Union{AbstractArray, AbstractVectorOfArray}}` is deprecated, use `VA.u[I]` instead. │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: `Base.getindex(VA::AbstractVectorOfArray{T, N, A}, I::Int) where {T, N, A <: Union{AbstractArray, AbstractVectorOfArray}}` is deprecated, use `VA.u[I]` instead. │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: `Base.getindex(VA::AbstractVectorOfArray{T, N, A}, I::Int) where {T, N, A <: Union{AbstractArray, AbstractVectorOfArray}}` is deprecated, use `VA.u[I]` instead. │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 Comparison of solvers - CHV (limited by simulation time) ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = solve(problem::PDMPProblem{Float64, Int64, Vector{Float64}, Vector{Int64}, PiecewiseDeterministicMarkovProcesses.PDMPCaracteristics{typeof(F!), VariableRate{typeof(R!)}, PiecewiseDeterministicMarkovProcesses.Jump{Int64, Matrix{Int64}, typeof(PiecewiseDeterministicMarkovProcesses.Delta_dummy)}, Vector{Float64}, Vector{Int64}, PreallocationTools.DiffCache{Vector{Float64}, Vector{Float64}}, Vector{Float64}}, TaskLocalRNG}, algo::CHV{Symbol}; verbose::Bool, ind_save_d::UnitRange{Int64}, ind_save_c::UnitRange{Int64}, n_jumps::Int64, reltol::Float64, abstol::Float64, save_positions::Tuple{Bool, Bool}, save_rate::Bool, finalizer::typeof(PiecewiseDeterministicMarkovProcesses.finalize_dummy), kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, @NamedTuple{}}) at chv.jl:131 └ @ PiecewiseDeterministicMarkovProcesses ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/src/chv.jl:131 ┌ Warning: `Base.getindex(VA::AbstractDiffEqArray{T, N, A}, i::Int) where {T, N, A <: Union{AbstractArray, AbstractVectorOfArray}}` is deprecated, use `VA.u[i]` instead. │ caller = solve(problem::PDMPProblem{Float64, Int64, Vector{Float64}, Vector{Int64}, PiecewiseDeterministicMarkovProcesses.PDMPCaracteristics{typeof(F!), VariableRate{typeof(R!)}, PiecewiseDeterministicMarkovProcesses.Jump{Int64, Matrix{Int64}, typeof(PiecewiseDeterministicMarkovProcesses.Delta_dummy)}, Vector{Float64}, Vector{Int64}, PreallocationTools.DiffCache{Vector{Float64}, Vector{Float64}}, Vector{Float64}}, TaskLocalRNG}, algo::CHV{Symbol}; verbose::Bool, ind_save_d::UnitRange{Int64}, ind_save_c::UnitRange{Int64}, n_jumps::Int64, reltol::Float64, abstol::Float64, save_positions::Tuple{Bool, Bool}, save_rate::Bool, finalizer::typeof(PiecewiseDeterministicMarkovProcesses.finalize_dummy), kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, @NamedTuple{}}) at chv.jl:131 └ @ PiecewiseDeterministicMarkovProcesses ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/src/chv.jl:131 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: `Base.getindex(VA::AbstractVectorOfArray{T, N, A}, I::Int) where {T, N, A <: Union{AbstractArray, AbstractVectorOfArray}}` is deprecated, use `VA.u[I]` instead. │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: `Base.getindex(VA::AbstractVectorOfArray{T, N, A}, I::Int) where {T, N, A <: Union{AbstractArray, AbstractVectorOfArray}}` is deprecated, use `VA.u[I]` instead. │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: `Base.getindex(VA::AbstractVectorOfArray{T, N, A}, I::Int) where {T, N, A <: Union{AbstractArray, AbstractVectorOfArray}}` is deprecated, use `VA.u[I]` instead. │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: `Base.getindex(VA::AbstractVectorOfArray{T, N, A}, I::Int) where {T, N, A <: Union{AbstractArray, AbstractVectorOfArray}}` is deprecated, use `VA.u[I]` instead. │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 0.039991 seconds (4.18 k allocations: 240.703 KiB) 0.047740 seconds (4.14 k allocations: 237.453 KiB) ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: `Base.getindex(VA::AbstractVectorOfArray{T, N, A}, I::Int) where {T, N, A <: Union{AbstractArray, AbstractVectorOfArray}}` is deprecated, use `VA.u[I]` instead. │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 ┌ Warning: `Base.getindex(VA::AbstractVectorOfArray{T, N, A}, I::Int) where {T, N, A <: Union{AbstractArray, AbstractVectorOfArray}}` is deprecated, use `VA.u[I]` instead. │ caller = macro expansion at Test.jl:669 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:669 Comparison of solvers - rejection ┌ Warning: Assignment to `res` in soft scope is ambiguous because a global variable by the same name exists: `res` will be treated as a new local. Disambiguate by using `local res` to suppress this warning or `global res` to assign to the existing global variable. └ @ ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/pdmpStiff.jl:176 --> norm difference = 0.001893487349736045 - solver = cvode --> norm difference = 0.001893487349736045 - solver = lsoda --> norm difference = 0.001893487349736045 - solver = CVODEBDF --> norm difference = 0.001893487349736045 - solver = CVODEAdams --> norm difference = 0.001893487349736045 - solver = tsit5 --> norm difference = 0.001893487349736045 - solver = rodas4P-noAutoDiff --> norm difference = 0.001893487349736045 - solver = rodas4P-AutoDiff --> norm difference = 0.001893487349736045 - solver = AutoTsit5-RS23 Alternate between calls CHV - Rej --> norm diff (CHV) = 0.00014644591919932282 --> norm diff (Rej) = 0.001893487349736045 Comparison of solvers, with function Delta ┌ Warning: Assignment to `res` in soft scope is ambiguous because a global variable by the same name exists: `res` will be treated as a new local. Disambiguate by using `local res` to suppress this warning or `global res` to assign to the existing global variable. └ @ ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/pdmpStiff.jl:212 --> norm difference = 0.005069408256076713 - solver = cvode --> norm difference = 0.0072302110738746705 - solver = lsoda --> norm difference = 0.005070017916750658 - solver = CVODEBDF --> norm difference = 0.010638187483436923 - solver = CVODEAdams --> norm difference = 0.0124972433432049 - solver = tsit5 --> norm difference = 7.266276497830404e-5 - solver = rodas4P-noAutoDiff --> norm difference = 8.647983008813753e-5 - solver = rodas4P-AutoDiff --> norm difference = 0.0124972433432049 - solver = AutoTsit5-RS23 --> allocations = (549776, 1099120, 1635792) Test Summary: | Pass Total Time Example with stiff ODE part | 74 74 1m29.7s Test Summary: |Time Controlling allocations | None 0.0s WARNING: Method definition F!(Any, Any, Any, Any, Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/pdmpStiff.jl:71 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/testRatesCst.jl:5. WARNING: Method definition R(Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/pdmpStiff.jl:79 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/testRatesCst.jl:13. WARNING: Method definition R!(Any, Any, Any, Any, Any, Bool) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/pdmpStiff.jl:81 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/testRatesCst.jl:15. Test Summary: | Pass Total Time Test Rate structures 1/2 | 10 10 6.5s WARNING: Method definition F!(Any, Any, Any, Any, Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/testRatesCst.jl:5 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/testRatesComposite.jl:5. WARNING: Method definition R(Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/testRatesCst.jl:13 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/testRatesComposite.jl:13. WARNING: Method definition R!(Any, Any, Any, Any, Any, Bool) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/testRatesCst.jl:15 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/testRatesComposite.jl:15. --> Allocations with Composite struct 0.000375 seconds (165 allocations: 9.359 KiB) 0.000478 seconds (184 allocations: 9.594 KiB) 0.000605 seconds (204 allocations: 9.906 KiB) --> Allocations with Composite struct made of VariableRates 0.013974 seconds (1.51 k allocations: 110.672 KiB, 96.09% compilation time) 0.000482 seconds (184 allocations: 9.391 KiB) 0.000576 seconds (204 allocations: 9.703 KiB) Test Summary: | Pass Total Time Test Rate structures 2/2 | 9 9 9.9s WARNING: Method definition F_tcp!(Any, Any, Any, Any, Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp.jl:25 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp2d.jl:4. WARNING: Method definition R(Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/test/testRatesComposite.jl:13 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp2d.jl:15. WARNING: Method definition R_tcp!(Any, Any, Any, Any, Any, Bool) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp.jl:37 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp2d.jl:17. 0.429261 seconds (150.06 k allocations: 9.089 MiB, 99.20% compilation time: 100% of which was recompilation) 0.526720 seconds (324.28 k allocations: 16.796 MiB, 4.23% gc time, 82.39% compilation time: 13% of which was recompilation) 0.017539 seconds (142.57 k allocations: 8.219 MiB) 7.088499 seconds (1.71 M allocations: 115.879 MiB, 1.22% gc time, 99.77% compilation time) Test Summary: |Time Example with 2d example, for autodiff | None 8.3s WARNING: Method definition F_tcp!(Any, Any, Any, Any, Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp2d.jl:4 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp_rejection.jl:5. WARNING: Method definition rate_tcp(Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp.jl:35 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp_rejection.jl:15. WARNING: Method definition R_tcp!(Any, Any, Any, Any, Any, Bool) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp2d.jl:17 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp_rejection.jl:17. WARNING: Method definition AnalyticalSample(Any, Any, Any, Int64) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/pdmpExplosion.jl:5 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp_rejection.jl:27. Comparison of solvers ┌ Warning: Assignment to `problem` in soft scope is ambiguous because a global variable by the same name exists: `problem` will be treated as a new local. Disambiguate by using `local problem` to suppress this warning or `global problem` to assign to the existing global variable. └ @ ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp_rejection.jl:90 ┌ Warning: Assignment to `res` in soft scope is ambiguous because a global variable by the same name exists: `res` will be treated as a new local. Disambiguate by using `local res` to suppress this warning or `global res` to assign to the existing global variable. └ @ ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp_rejection.jl:91 ┌ Warning: Using a `Bool` for keyword argument `autodiff` is deprecated. Please use an `ADType` specifier. │ caller = _process_AD_choice at misc_utils.jl:158 [inlined] └ @ Core ~/.julia/packages/OrdinaryDiffEqCore/UVwdM/src/misc_utils.jl:158 --> norm difference = 0.0 - solver = cvode --> norm difference = 0.0 - solver = lsoda --> norm difference = 0.0 - solver = CVODEBDF --> norm difference = 0.0 - solver = CVODEAdams --> norm difference = 0.0 - solver = tsit5 --> norm difference = 0.0 - solver = rodas4P-AutoDiff --> norm difference = 0.0 - solver = rodas4P-AutoDiff --> norm difference = 0.0 - solver = RS23 --> norm difference = 0.0 - solver = AutoTsit5RS23 test for allocations, should not depend on 0.001067 seconds (199 allocations: 9.094 KiB) 0.001784 seconds (278 allocations: 10.328 KiB) 0.002729 seconds (351 allocations: 11.469 KiB) test for multiple calls, the result should not depend on Test Summary: | Pass Total Time Rejection method | 1 1 22.3s Test Summary: | Pass Total Time Test number of fictitious jumps | 2 2 0.0s WARNING: Method definition R(Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/tcp2d.jl:15 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/examples/pdmp_example_eva.jl:11. --> Case simple chv: 4.281388 seconds (2.72 M allocations: 187.958 MiB, 1.61% gc time, 99.84% compilation time) --> For simulations rejection (Tsit5): 0.436746 seconds (142.87 k allocations: 8.203 MiB, 98.17% compilation time) --> Simulation using save_at to see sampling behaviour 0.014428 seconds (2.10 k allocations: 168.969 KiB, 94.19% compilation time) Test Summary: | Pass Total Time Neuron model | 2 2 5.2s ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = solve(problem::PDMPProblem{Float64, Int64, Vector{Float64}, Vector{Int64}, PiecewiseDeterministicMarkovProcesses.PDMPCaracteristics{typeof(F_sir!), VariableRate{typeof(R_sir!)}, PiecewiseDeterministicMarkovProcesses.Jump{Int64, Matrix{Int64}, typeof(PiecewiseDeterministicMarkovProcesses.Delta_dummy)}, Vector{Float64}, Vector{Int64}, PreallocationTools.DiffCache{Vector{Float64}, Vector{Float64}}, Vector{Float64}}, TaskLocalRNG}, algo::CHV{Symbol}; verbose::Bool, ind_save_d::UnitRange{Int64}, ind_save_c::UnitRange{Int64}, n_jumps::Int64, reltol::Float64, abstol::Float64, save_positions::Tuple{Bool, Bool}, save_rate::Bool, finalizer::typeof(PiecewiseDeterministicMarkovProcesses.finalize_dummy), kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, @NamedTuple{}}) at chv.jl:131 └ @ PiecewiseDeterministicMarkovProcesses ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/src/chv.jl:131 ┌ Warning: `Base.getindex(VA::AbstractDiffEqArray{T, N, A}, i::Int) where {T, N, A <: Union{AbstractArray, AbstractVectorOfArray}}` is deprecated, use `VA.u[i]` instead. │ caller = solve(problem::PDMPProblem{Float64, Int64, Vector{Float64}, Vector{Int64}, PiecewiseDeterministicMarkovProcesses.PDMPCaracteristics{typeof(F_sir!), VariableRate{typeof(R_sir!)}, PiecewiseDeterministicMarkovProcesses.Jump{Int64, Matrix{Int64}, typeof(PiecewiseDeterministicMarkovProcesses.Delta_dummy)}, Vector{Float64}, Vector{Int64}, PreallocationTools.DiffCache{Vector{Float64}, Vector{Float64}}, Vector{Float64}}, TaskLocalRNG}, algo::CHV{Symbol}; verbose::Bool, ind_save_d::UnitRange{Int64}, ind_save_c::UnitRange{Int64}, n_jumps::Int64, reltol::Float64, abstol::Float64, save_positions::Tuple{Bool, Bool}, save_rate::Bool, finalizer::typeof(PiecewiseDeterministicMarkovProcesses.finalize_dummy), kwargs::Base.Pairs{Symbol, Union{}, Tuple{}, @NamedTuple{}}) at chv.jl:131 └ @ PiecewiseDeterministicMarkovProcesses ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/WPz0W/src/chv.jl:131 Test Summary: | Pass Total Time Example SIR | 3 3 8.1s --> rejection algorithm for SSA Test Summary: | Pass Total Time Example SIR(rejection) | 3 3 4.5s Test Summary: | Pass Total Time Neural network | 2 2 2.7s Test Summary: |Time JumpProcesses Wrap | None 0.0s Testing PiecewiseDeterministicMarkovProcesses tests passed Testing completed after 645.98s PkgEval succeeded after 874.83s