Package evaluation of PiecewiseDeterministicMarkovProcesses on Julia 1.12.0-DEV.1805 (a080deafdd*) started at 2025-03-24T21:34:12.476 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.98s ################################################################################ # Installation # Installing PiecewiseDeterministicMarkovProcesses... Resolving package versions... Updating `~/.julia/environments/v1.12/Project.toml` [86206cdf] + PiecewiseDeterministicMarkovProcesses v0.0.9 Updating `~/.julia/environments/v1.12/Manifest.toml` [47edcb42] + ADTypes v1.14.0 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.3.0 [ec485272] + ArnoldiMethod v0.4.0 [4fba245c] + ArrayInterface v7.18.0 [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 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [2b5f629d] + DiffEqBase v6.167.0 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [ffbed154] + DocStringExtensions v0.9.3 [4e289a0a] + EnumX v1.0.4 [f151be2c] + EnzymeCore v0.8.8 [e2ba6199] + ExprTools v0.1.10 [55351af7] + ExproniconLite v0.10.14 [7034ab61] + FastBroadcast v0.3.5 [9aa1b823] + FastClosures v0.3.2 [a4df4552] + FastPower v1.1.1 [f6369f11] + ForwardDiff v0.10.38 [069b7b12] + FunctionWrappers v1.1.3 [77dc65aa] + FunctionWrappersWrappers v0.1.3 [46192b85] + GPUArraysCore v0.2.0 [86223c79] + Graphs v1.12.0 [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 v9.14.2 [7f56f5a3] + LSODA v0.7.5 [10f19ff3] + LayoutPointers v0.1.17 [2ab3a3ac] + LogExpFunctions v0.3.29 [1914dd2f] + MacroTools v0.5.15 [d125e4d3] + ManualMemory v0.1.8 [2e0e35c7] + Moshi v0.3.5 [46d2c3a1] + MuladdMacro v0.2.4 [77ba4419] + NaNMath v1.1.2 [bac558e1] + OrderedCollections v1.8.0 [d96e819e] + Parameters v0.12.3 [86206cdf] + PiecewiseDeterministicMarkovProcesses v0.0.9 [e409e4f3] + PoissonRandom v0.4.4 [f517fe37] + Polyester v0.7.16 [1d0040c9] + PolyesterWeave v0.2.2 [d236fae5] + PreallocationTools v0.4.25 [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.4.3 [e6cf234a] + RandomNumbers v1.6.0 [3cdcf5f2] + RecipesBase v1.3.4 [731186ca] + RecursiveArrayTools v3.31.1 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [7e49a35a] + RuntimeGeneratedFunctions v0.5.13 [94e857df] + SIMDTypes v0.1.0 [0bca4576] + SciMLBase v2.79.0 [c0aeaf25] + SciMLOperators v0.3.13 [53ae85a6] + SciMLStructures v1.7.0 [efcf1570] + Setfield v1.1.2 [699a6c99] + SimpleTraits v0.9.4 [276daf66] + SpecialFunctions v2.5.0 [aedffcd0] + Static v1.2.0 [0d7ed370] + StaticArrayInterface v1.8.0 [90137ffa] + StaticArrays v1.9.13 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [7792a7ef] + StrideArraysCore v0.5.7 [c3572dad] + Sundials v4.27.0 [2efcf032] + SymbolicIndexingInterface v0.3.38 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.0 [8290d209] + ThreadingUtilities v0.5.2 [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 v5.2.3+0 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [dc6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.11.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.2.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.12.0 [f489334b] + StyledStrings v1.11.0 [fa267f1f] + TOML v1.0.3 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.2.0+0 [e37daf67] + LibGit2_jll v1.8.0+0 [29816b5a] + LibSSH2_jll v1.11.0+1 [c8ffd9c3] + MbedTLS_jll v2.28.6+1 [4536629a] + OpenBLAS_jll v0.3.28+3 [05823500] + OpenLibm_jll v0.8.1+3 [bea87d4a] + SuiteSparse_jll v7.8.0+1 [8e850b90] + libblastrampoline_jll v5.11.2+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 5.67s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 69.32s ################################################################################ # Testing # Testing PiecewiseDeterministicMarkovProcesses Status `/tmp/jl_CBtakR/Project.toml` [f6369f11] ForwardDiff v0.10.38 [ccbc3e58] JumpProcesses v9.14.2 [7f56f5a3] LSODA v0.7.5 [1dea7af3] OrdinaryDiffEq v6.93.0 [d96e819e] Parameters v0.12.3 [86206cdf] PiecewiseDeterministicMarkovProcesses v0.0.9 [d236fae5] PreallocationTools v0.4.25 [731186ca] RecursiveArrayTools v3.31.1 [0bca4576] SciMLBase v2.79.0 [c3572dad] Sundials v4.27.0 [37e2e46d] LinearAlgebra v1.11.0 [9a3f8284] Random v1.11.0 [2f01184e] SparseArrays v1.12.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_CBtakR/Manifest.toml` [47edcb42] ADTypes v1.14.0 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.3.0 [ec485272] ArnoldiMethod v0.4.0 [4fba245c] ArrayInterface v7.18.0 [4c555306] ArrayLayouts v1.11.1 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [70df07ce] BracketingNonlinearSolve v1.1.1 [fa961155] CEnum 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UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.2.0+0 [deac9b47] LibCURL_jll v8.6.0+0 [e37daf67] LibGit2_jll v1.8.0+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.6+1 [14a3606d] MozillaCACerts_jll v2024.11.26 [4536629a] OpenBLAS_jll v0.3.28+3 [05823500] OpenLibm_jll v0.8.1+3 [bea87d4a] SuiteSparse_jll v7.8.0+1 [83775a58] Zlib_jll v1.3.1+1 [8e850b90] libblastrampoline_jll v5.11.2+0 [8e850ede] nghttp2_jll v1.63.0+1 [3f19e933] p7zip_jll v17.5.0+1 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... 0.118879 seconds (16.70 k allocations: 805.078 KiB, 99.97% 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:155 [inlined] └ @ Core ~/.julia/packages/OrdinaryDiffEqCore/CNpVk/src/misc_utils.jl:155 9.863846 seconds (4.14 M allocations: 217.290 MiB, 0.93% gc time, 99.95% compilation time: 7% of which was recompilation) --> norm difference = 0.00020895427984513049 - solver = cvode 6.540717 seconds (2.03 M allocations: 102.558 MiB, 0.45% gc time, 99.99% compilation time: 1% of which was recompilation) --> norm difference = 4.562246893158317e-6 - solver = lsoda 3.600936 seconds (2.19 M allocations: 114.314 MiB, 0.81% gc time, 99.93% compilation time: <1% of which was recompilation) --> norm difference = 0.00020895427882905437 - solver = CVODEBDF 3.212333 seconds (1.59 M allocations: 85.649 MiB, 1.00% gc time, 99.93% compilation time: <1% of which was recompilation) --> norm difference = 9.164040960740749e-6 - solver = CVODEAdams 15.751226 seconds (3.11 M allocations: 166.296 MiB, 0.37% gc time, 99.98% compilation time: 1% of which was recompilation) --> norm difference = 0.00021445406171594072 - solver = RS23 6.965769 seconds (5.40 M allocations: 294.216 MiB, 1.45% gc time, 99.97% compilation time: <1% of which was recompilation) --> norm difference = 1.4133114234482491e-8 - solver = tsit5 15.027854 seconds (5.17 M allocations: 268.273 MiB, 0.93% gc time, 99.79% compilation time: 2% of which was recompilation) --> norm difference = 1.5885276383187374e-7 - solver = rodas4P-AutoDiff 12.243248 seconds (3.53 M allocations: 186.504 MiB, 0.85% gc time, 99.97% compilation time: 3% of which was recompilation) --> norm difference = 3.1827500635017714e-8 - solver = rodas5 8.664692 seconds (5.50 M allocations: 296.108 MiB, 1.04% gc time, 99.98% compilation time: <1% of which was recompilation) --> norm difference = 1.4133114234482491e-8 - solver = AutoTsit5RS23 0.065949 seconds (15.24 k allocations: 808.719 KiB, 95.84% compilation time) Test Summary: | Pass Total Time Example TCP | 1 1 1m30.6s WARNING: Method definition AnalyticalSample(Any, Any, Any, Int64) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/tcp.jl:5 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/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/ekCSn/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/ekCSn/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:155 [inlined] └ @ Core ~/.julia/packages/OrdinaryDiffEqCore/CNpVk/src/misc_utils.jl:155 --> 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 = 3.4168918805477233e-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 = 4.120051351197418e-7 - solver = AutoTsit5-RS23 Test Summary: | Pass Total Time Example explosion of jump times | 1 1 44.5s WARNING: Method definition F!(Any, Any, Any, Any, Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/pdmpExplosion.jl:29 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/pdmpStiff.jl:71. WARNING: Method definition R(Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/pdmpExplosion.jl:33 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/pdmpStiff.jl:79. WARNING: Method definition R!(Any, Any, Any, Any, Any, Bool) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/pdmpExplosion.jl:35 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/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:155 └ @ Core ~/.julia/packages/OrdinaryDiffEqCore/CNpVk/src/misc_utils.jl:155 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/ekCSn/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:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: `Base.getindex(A::AbstractVectorOfArray, I::Int)` is deprecated, use `Base.getindex(A, :, I)` instead. │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 --> norm difference = 0.0021281768231347087 - solver = lsoda --> norm difference = 0.0023436725223291432 - solver = CVODEBDF --> norm difference = 0.002069344401206763 - solver = CVODEAdams --> norm difference = 0.0003403548339520057 - solver = tsit5 --> norm difference = 5.704655495719635e-5 - solver = rodas4P-noAutoDiff --> norm difference = 1.0002506769524189e-5 - solver = rodas4P-AutoDiff --> norm difference = 0.0003403548339520057 - 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:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: `Base.getindex(A::AbstractVectorOfArray, I::Int)` is deprecated, use `Base.getindex(A, :, I)` instead. │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: `Base.getindex(A::AbstractVectorOfArray, I::Int)` is deprecated, use `Base.getindex(A, :, I)` instead. │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: `Base.getindex(A::AbstractVectorOfArray, I::Int)` is deprecated, use `Base.getindex(A, :, I)` instead. │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: `Base.getindex(A::AbstractVectorOfArray, I::Int)` is deprecated, use `Base.getindex(A, :, I)` instead. │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 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 └ @ Core ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/src/chv.jl:131 ┌ Warning: `Base.getindex(A::AbstractDiffEqArray, i::Int)` is deprecated, use `Base.getindex(A, :, 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 └ @ Core ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/src/chv.jl:131 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: `Base.getindex(A::AbstractVectorOfArray, I::Int)` is deprecated, use `Base.getindex(A, :, I)` instead. │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: `Base.getindex(A::AbstractVectorOfArray, I::Int)` is deprecated, use `Base.getindex(A, :, I)` instead. │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: `Base.getindex(A::AbstractVectorOfArray, I::Int)` is deprecated, use `Base.getindex(A, :, I)` instead. │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 ┌ Warning: `Base.getindex(A::AbstractVectorOfArray, I::Int)` is deprecated, use `Base.getindex(A, :, I)` instead. │ caller = macro expansion at Test.jl:676 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:676 0.147571 seconds (5.95 k allocations: 257.438 KiB) 0.144906 seconds (5.88 k allocations: 254.125 KiB) ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = top-level scope at pdmpStiff.jl:515 └ @ Core ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/pdmpStiff.jl:515 ┌ Warning: `Base.getindex(A::AbstractVectorOfArray, I::Int)` is deprecated, use `Base.getindex(A, :, I)` instead. │ caller = top-level scope at pdmpStiff.jl:515 └ @ Core ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/pdmpStiff.jl:515 ┌ Warning: Linear indexing of `AbstractVectorOfArray` is deprecated. Change `A[i]` to `A.u[i]` │ caller = top-level scope at pdmpStiff.jl:515 └ @ Core ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/pdmpStiff.jl:515 ┌ Warning: `Base.getindex(A::AbstractVectorOfArray, I::Int)` is deprecated, use `Base.getindex(A, :, I)` instead. │ caller = top-level scope at pdmpStiff.jl:515 └ @ Core ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/pdmpStiff.jl:515 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/ekCSn/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/ekCSn/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 = 0.011875623333708063 - solver = tsit5 --> norm difference = 7.266276497830404e-5 - solver = rodas4P-noAutoDiff --> norm difference = 8.647983008813753e-5 - solver = rodas4P-AutoDiff --> norm difference = 0.011875623333708063 - solver = AutoTsit5-RS23 --> allocations = (549296, 1098640, 1635312) Test Summary: | Pass Total Time Example with stiff ODE part | 74 74 2m27.5s Test Summary: | Total Time Controlling allocations | 0 0.0s WARNING: Method definition F!(Any, Any, Any, Any, Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/pdmpStiff.jl:71 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/testRatesCst.jl:5. WARNING: Method definition R(Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/pdmpStiff.jl:79 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/testRatesCst.jl:13. WARNING: Method definition R!(Any, Any, Any, Any, Any, Bool) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/pdmpStiff.jl:81 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/testRatesCst.jl:15. Test Summary: | Pass Total Time Test Rate structures 1/2 | 10 10 11.8s WARNING: Method definition F!(Any, Any, Any, Any, Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/testRatesCst.jl:5 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/testRatesComposite.jl:5. WARNING: Method definition R(Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/testRatesCst.jl:13 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/testRatesComposite.jl:13. WARNING: Method definition R!(Any, Any, Any, Any, Any, Bool) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/testRatesCst.jl:15 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/testRatesComposite.jl:15. --> Allocations with Composite struct 0.000359 seconds (173 allocations: 8.234 KiB) 0.000527 seconds (192 allocations: 8.453 KiB) 0.000700 seconds (212 allocations: 8.766 KiB) --> Allocations with Composite struct made of VariableRates 0.049010 seconds (14.24 k allocations: 762.141 KiB, 98.97% compilation time) 0.000502 seconds (192 allocations: 8.359 KiB) 0.000681 seconds (212 allocations: 8.672 KiB) Test Summary: | Pass Total Time Test Rate structures 2/2 | 9 9 15.5s WARNING: Method definition F_tcp!(Any, Any, Any, Any, Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/tcp.jl:25 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/tcp2d.jl:4. WARNING: Method definition R(Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/test/testRatesComposite.jl:13 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/tcp2d.jl:15. WARNING: Method definition R_tcp!(Any, Any, Any, Any, Any, Bool) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/tcp.jl:37 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/tcp2d.jl:17. 0.892287 seconds (286.70 k allocations: 14.503 MiB, 99.59% compilation time: 100% of which was recompilation) 1.600041 seconds (624.27 k allocations: 28.287 MiB, 96.61% compilation time: 9% of which was recompilation) 0.014186 seconds (190.83 k allocations: 7.948 MiB) 13.213964 seconds (2.65 M allocations: 139.986 MiB, 0.38% gc time, 99.85% compilation time: <1% of which was recompilation) Test Summary: | Total Time Example with 2d example, for autodiff | 0 16.0s WARNING: Method definition F_tcp!(Any, Any, Any, Any, Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/tcp2d.jl:4 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/tcp_rejection.jl:5. WARNING: Method definition rate_tcp(Any) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/tcp.jl:35 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/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/ekCSn/examples/tcp2d.jl:17 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/tcp_rejection.jl:17. WARNING: Method definition AnalyticalSample(Any, Any, Any, Int64) in module Main at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/pdmpExplosion.jl:5 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/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/ekCSn/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/ekCSn/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:155 [inlined] └ @ Core ~/.julia/packages/OrdinaryDiffEqCore/CNpVk/src/misc_utils.jl:155 --> 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 0.001147 seconds (219 allocations: 8.469 KiB) 0.002052 seconds (298 allocations: 9.703 KiB) 0.003020 seconds (371 allocations: 10.844 KiB) test for multiple calls, the result should not depend on Test Summary: | Pass Total Time Rejection method | 1 1 34.6s 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/ekCSn/examples/tcp2d.jl:15 overwritten at /home/pkgeval/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/examples/pdmp_example_eva.jl:11. --> Case simple chv: 6.294505 seconds (4.56 M allocations: 247.809 MiB, 1.43% gc time, 99.91% compilation time: 1% of which was recompilation) --> For simulations rejection (Tsit5): 0.948795 seconds (291.40 k allocations: 12.996 MiB, 99.43% compilation time) --> Simulation using save_at to see sampling behaviour 0.049228 seconds (15.23 k allocations: 819.961 KiB, 98.36% compilation time) Test Summary: | Pass Total Time Neuron model | 2 2 7.8s ┌ 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 └ @ Core ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/src/chv.jl:131 ┌ Warning: `Base.getindex(A::AbstractDiffEqArray, i::Int)` is deprecated, use `Base.getindex(A, :, 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 └ @ Core ~/.julia/packages/PiecewiseDeterministicMarkovProcesses/ekCSn/src/chv.jl:131 Test Summary: | Pass Total Time Example SIR | 3 3 11.9s --> rejection algorithm for SSA Test Summary: | Pass Total Time Example SIR(rejection) | 3 3 6.5s Test Summary: | Pass Total Time Neural network | 2 2 4.7s Test Summary: | Total Time JumpProcesses Wrap | 0 0.0s Testing PiecewiseDeterministicMarkovProcesses tests passed Testing completed after 896.88s PkgEval succeeded after 995.13s