Package evaluation to test StochasticGene on Julia 1.13.0-DEV.1342 (4ff19f0352*) started at 2025-10-22T01:31:52.745 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 9.5s ################################################################################ # Installation # Installing StochasticGene... Resolving package versions... Installed MKL_jll ───────────────────────────── v2025.2.0+0 Installed FastPower ─────────────────────────── v1.1.3 Installed OrderedCollections ────────────────── v1.8.1 Installed SIMDTypes ─────────────────────────── v0.1.0 Installed OrdinaryDiffEqRosenbrock ──────────── v1.18.1 Installed InlineStrings ─────────────────────── v1.4.5 Installed CommonWorldInvalidations ──────────── v1.0.0 Installed MultivariateStats ─────────────────── v0.10.3 Installed Optim ─────────────────────────────── v1.13.2 Installed EnzymeCore ────────────────────────── v0.8.14 Installed OrdinaryDiffEqExponentialRK ───────── v1.8.0 Installed NonlinearSolveSpectralMethods ─────── v1.5.0 Installed PreallocationTools ────────────────── v0.4.34 Installed CpuId ─────────────────────────────── v0.3.1 Installed OrdinaryDiffEqFIRK ────────────────── v1.16.0 Installed SentinelArrays ────────────────────── v1.4.8 Installed OpenSpecFun_jll ───────────────────── v0.5.6+0 Installed NaNMath ───────────────────────────── v1.1.3 Installed StaticArrayInterface ──────────────── v1.8.0 Installed QuadGK ────────────────────────────── v2.11.2 Installed Revise ────────────────────────────── v3.10.0 Installed LoweredCodeUtils ──────────────────── v3.4.4 Installed Compiler ──────────────────────────── v0.1.1 Installed OrdinaryDiffEqQPRK ────────────────── v1.4.0 Installed FastBroadcast ─────────────────────── v0.3.5 Installed NonlinearSolveBase ────────────────── v2.0.0 Installed Tables ────────────────────────────── v1.12.1 Installed EnumX ─────────────────────────────── v1.0.5 Installed Arpack ────────────────────────────── v0.5.4 Installed LinearSolve ───────────────────────── v3.44.0 Installed NLSolversBase ─────────────────────── v7.10.0 Installed OrdinaryDiffEqLowOrderRK ──────────── v1.6.0 Installed BracketingNonlinearSolve ──────────── v1.5.0 Installed DiffEqBase ────────────────────────── v6.190.2 Installed Reexport ──────────────────────────── v1.2.2 Installed InverseFunctions ──────────────────── v0.1.17 Installed Jieko ─────────────────────────────── v0.2.1 Installed Preferences ───────────────────────── v1.5.0 Installed Missings ──────────────────────────── v1.2.0 Installed NonlinearSolve ────────────────────── v4.12.0 Installed Static ────────────────────────────── v1.3.0 Installed MaybeInplace ──────────────────────── v0.1.4 Installed TableTraits ───────────────────────── v1.0.1 Installed OrdinaryDiffEqNordsieck ───────────── v1.4.0 Installed LaTeXStrings ──────────────────────── v1.4.0 Installed SortingAlgorithms ─────────────────── v1.2.2 Installed OrdinaryDiffEqAdamsBashforthMoulton ─ v1.5.0 Installed Crayons ───────────────────────────── v4.1.1 Installed RegistryInstances ─────────────────── v0.1.0 Installed OrdinaryDiffEqLinear ──────────────── v1.6.0 Installed UnPack ────────────────────────────── v1.0.2 Installed ADTypes ───────────────────────────── v1.18.0 Installed RecursiveArrayTools ───────────────── v3.39.0 Installed MacroTools ────────────────────────── v0.5.16 Installed GenericSchur ──────────────────────── v0.5.6 Installed DataStructures ────────────────────── v0.19.1 Installed DiffResults ───────────────────────── v1.1.0 Installed OpenSSH_jll ───────────────────────── v10.2.1+0 Installed ManualMemory ──────────────────────── v0.1.8 Installed FillArrays ────────────────────────── v1.14.0 Installed AbstractTrees ─────────────────────── v0.4.5 Installed oneTBB_jll ────────────────────────── v2022.0.0+1 Installed CodecZlib ─────────────────────────── v0.7.8 Installed ExprTools ─────────────────────────── v0.1.10 Installed DelimitedFiles ────────────────────── v1.9.1 Installed ArrayInterface ────────────────────── v7.21.0 Installed SparseMatrixColorings ─────────────── v0.4.22 Installed StatsBase ─────────────────────────── v0.34.6 Installed SciMLJacobianOperators ────────────── v0.1.11 Installed IntelOpenMP_jll ───────────────────── v2025.2.0+0 Installed DataValueInterfaces ───────────────── v1.0.0 Installed Expat_jll ─────────────────────────── v2.7.3+0 Installed IrrationalConstants ───────────────── v0.2.6 Installed CommonSubexpressions ──────────────── v0.3.1 Installed LayoutPointers ────────────────────── v0.1.17 Installed ConcreteStructs ───────────────────── v0.2.3 Installed GPUArraysCore ─────────────────────── v0.2.0 Installed TruncatedStacktraces ──────────────── v1.4.0 Installed ArrayLayouts ──────────────────────── v1.12.0 Installed OrdinaryDiffEqStabilizedIRK ───────── v1.6.0 Installed OrdinaryDiffEqExtrapolation ───────── v1.9.0 Installed OrdinaryDiffEqRKN ─────────────────── v1.5.0 Installed Setfield ──────────────────────────── v1.1.2 Installed IOCapture ─────────────────────────── v0.2.5 Installed LSODA_jll ─────────────────────────── v0.1.2+0 Installed OrdinaryDiffEqPRK ─────────────────── v1.4.0 Installed PooledArrays ──────────────────────── v1.4.3 Installed WorkerUtilities ───────────────────── v1.6.1 Installed PDMats ────────────────────────────── v0.11.35 Installed NonlinearSolveQuasiNewton ─────────── v1.10.0 Installed OrdinaryDiffEqHighOrderRK ─────────── v1.5.0 Installed DocStringExtensions ───────────────── v0.9.5 Installed CompositionsBase ──────────────────── v0.1.2 Installed Moshi ─────────────────────────────── v0.3.7 Installed ForwardDiff ───────────────────────── v1.2.2 Installed CommonSolve ───────────────────────── v0.2.4 Installed DifferentiationInterface ──────────── v0.7.9 Installed Rmath_jll ─────────────────────────── v0.5.1+0 Installed ZMQ ───────────────────────────────── v1.5.0 Installed SimpleUnPack ──────────────────────── v1.1.0 Installed AliasTables ───────────────────────── v1.1.3 Installed VersionParsing ────────────────────── v1.3.0 Installed BitTwiddlingConvenienceFunctions ──── v0.1.6 Installed OrdinaryDiffEqStabilizedRK ────────── v1.4.0 Installed LineSearch ────────────────────────── v0.1.4 Installed OrdinaryDiffEq ────────────────────── v6.102.1 Installed IteratorInterfaceExtensions ───────── v1.0.0 Installed Krylov ────────────────────────────── v0.10.2 Installed RecipesBase ───────────────────────── v1.3.4 Installed DataAPI ───────────────────────────── v1.16.0 Installed FunctionWrappersWrappers ──────────── v0.1.3 Installed SciMLOperators ────────────────────── v1.9.0 Installed InvertedIndices ───────────────────── v1.3.1 Installed OrdinaryDiffEqBDF ─────────────────── v1.10.1 Installed OrdinaryDiffEqSymplecticRK ────────── v1.7.0 Installed Conda ─────────────────────────────── v1.10.2 Installed SciMLStructures ───────────────────── v1.7.0 Installed Git_LFS_jll ───────────────────────── v3.7.0+0 Installed OrdinaryDiffEqLowStorageRK ────────── v1.7.0 Installed StaticArraysCore ──────────────────── v1.4.3 Installed FastGaussQuadrature ───────────────── v1.1.0 Installed CodeTracking ──────────────────────── v2.0.1 Installed StaticArrays ──────────────────────── v1.9.15 Installed LSODA ─────────────────────────────── v0.7.5 Installed AbstractFFTs ──────────────────────── v1.5.0 Installed StringManipulation ────────────────── v0.4.1 Installed SciMLPublic ───────────────────────── v1.0.0 Installed OrdinaryDiffEqDifferentiation ─────── v1.16.1 Installed FunctionWrappers ──────────────────── v1.1.3 Installed Requires ──────────────────────────── v1.3.1 Installed Documenter ────────────────────────── v1.14.1 Installed OrdinaryDiffEqNonlinearSolve ──────── v1.15.0 Installed DiffRules ─────────────────────────── v1.15.1 Installed LogExpFunctions ───────────────────── v0.3.29 Installed JuliaInterpreter ──────────────────── v0.10.6 Installed CSV ───────────────────────────────── v0.10.15 Installed Git_jll ───────────────────────────── v2.51.1+0 Installed SciMLBase ─────────────────────────── v2.121.1 Installed OrdinaryDiffEqCore ────────────────── v1.36.0 Installed PrettyTables ──────────────────────── v3.1.0 Installed JSON ──────────────────────────────── v0.21.4 Installed Distributions ─────────────────────── v0.25.122 Installed Parsers ───────────────────────────── v2.8.3 Installed NonlinearSolveFirstOrder ──────────── v1.9.0 Installed OrdinaryDiffEqExplicitRK ──────────── v1.4.0 Installed Rmath ─────────────────────────────── v0.8.1 Installed FastClosures ──────────────────────── v0.3.2 Installed FiniteDiff ────────────────────────── v2.29.0 Installed Arpack_jll ────────────────────────── v3.5.1+1 Installed CloseOpenIntervals ────────────────── v0.1.13 Installed Polyester ─────────────────────────── v0.7.18 Installed libsodium_jll ─────────────────────── v1.0.21+0 Installed StatsFuns ─────────────────────────── v1.5.0 Installed OrdinaryDiffEqFeagin ──────────────── v1.4.0 Installed OrdinaryDiffEqIMEXMultistep ───────── v1.7.0 Installed WeakRefStrings ────────────────────── v1.4.2 Installed JLLWrappers ───────────────────────── v1.7.1 Installed IJulia ────────────────────────────── v1.31.1 Installed DataFrames ────────────────────────── v1.8.1 Installed ZeroMQ_jll ────────────────────────── v4.3.6+0 Installed OrdinaryDiffEqSSPRK ───────────────── v1.7.0 Installed OrdinaryDiffEqSDIRK ───────────────── v1.7.0 Installed ThreadingUtilities ────────────────── v0.5.5 Installed OrdinaryDiffEqPDIRK ───────────────── v1.6.0 Installed Accessors ─────────────────────────── v0.1.42 Installed OrdinaryDiffEqDefault ─────────────── v1.8.0 Installed FilePathsBase ─────────────────────── v0.9.24 Installed Adapt ─────────────────────────────── v4.4.0 Installed ExponentialUtilities ──────────────── v1.27.0 Installed HypergeometricFunctions ───────────── v0.3.28 Installed ConstructionBase ──────────────────── v1.6.0 Installed RuntimeGeneratedFunctions ─────────── v0.5.15 Installed OrdinaryDiffEqVerner ──────────────── v1.6.0 Installed SymbolicIndexingInterface ─────────── v0.3.46 Installed StrideArraysCore ──────────────────── v0.5.8 Installed Compat ────────────────────────────── v4.18.1 Installed PositiveFactorizations ────────────── v0.2.4 Installed Statistics ────────────────────────── v1.11.1 Installed TranscodingStreams ────────────────── v0.11.3 Installed PrecompileTools ───────────────────── v1.3.3 Installed StatsAPI ──────────────────────────── v1.7.1 Installed LazyArrays ────────────────────────── v2.8.0 Installed TimerOutputs ──────────────────────── v0.5.29 Installed ExproniconLite ────────────────────── v0.10.14 Installed ChainRulesCore ────────────────────── v1.26.0 Installed CPUSummary ────────────────────────── v0.2.7 Installed IfElse ────────────────────────────── v0.1.1 Installed Parameters ────────────────────────── v0.12.3 Installed MuladdMacro ───────────────────────── v0.2.4 Installed PtrArrays ─────────────────────────── v1.3.0 Installed MarkdownAST ───────────────────────── v0.1.2 Installed LazilyInitializedFields ───────────── v1.3.0 Installed SimpleNonlinearSolve ──────────────── v2.9.0 Installed Libiconv_jll ──────────────────────── v1.18.0+0 Installed FFTW_jll ──────────────────────────── v3.3.11+0 Installed FFTW ──────────────────────────────── v1.10.0 Installed SpecialFunctions ──────────────────── v2.6.1 Installed LineSearches ──────────────────────── v7.4.0 Installed Git ───────────────────────────────── v1.5.0 Installed StochasticGene ────────────────────── v1.5.10 Installed OrdinaryDiffEqFunctionMap ─────────── v1.5.0 Installed OrdinaryDiffEqTsit5 ───────────────── v1.5.0 Installed PolyesterWeave ────────────────────── v0.2.2 Installed ANSIColoredPrinters ───────────────── v0.0.1 Installing 12 artifacts Installed artifact Rmath 121.9 KiB Installed artifact ZeroMQ 316.1 KiB Installed artifact Expat 283.3 KiB Installed artifact libsodium 1.6 MiB Installed artifact FFTW 2.2 MiB Installed artifact LSODA 24.9 KiB Installed artifact Arpack 147.2 KiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact OpenSSH 4.3 MiB Installed artifact Libiconv 1.9 MiB Installed artifact Git_LFS 9.6 MiB Installed artifact Git 48.9 MiB Updating `~/.julia/environments/v1.13/Project.toml` [a2598c62] + StochasticGene v1.5.10 Updating `~/.julia/environments/v1.13/Manifest.toml` [47edcb42] + ADTypes v1.18.0 [a4c015fc] + ANSIColoredPrinters v0.0.1 [621f4979] + AbstractFFTs v1.5.0 [1520ce14] + AbstractTrees v0.4.5 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.4.0 [66dad0bd] + AliasTables v1.1.3 [7d9fca2a] + Arpack v0.5.4 [4fba245c] + ArrayInterface v7.21.0 [4c555306] + ArrayLayouts v1.12.0 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [70df07ce] + BracketingNonlinearSolve v1.5.0 [2a0fbf3d] + CPUSummary v0.2.7 [336ed68f] + CSV v0.10.15 [d360d2e6] + ChainRulesCore v1.26.0 [fb6a15b2] + CloseOpenIntervals v0.1.13 [da1fd8a2] + CodeTracking v2.0.1 [944b1d66] + CodecZlib v0.7.8 [38540f10] + CommonSolve v0.2.4 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.18.1 [807dbc54] + Compiler v0.1.1 [a33af91c] + CompositionsBase v0.1.2 [2569d6c7] + ConcreteStructs v0.2.3 [8f4d0f93] + Conda v1.10.2 [187b0558] + ConstructionBase v1.6.0 [adafc99b] + CpuId v0.3.1 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.8.1 [864edb3b] + DataStructures v0.19.1 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [2b5f629d] + DiffEqBase v6.190.2 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [a0c0ee7d] + DifferentiationInterface v0.7.9 [31c24e10] + Distributions v0.25.122 [ffbed154] + DocStringExtensions v0.9.5 [e30172f5] + Documenter v1.14.1 [4e289a0a] + EnumX v1.0.5 [f151be2c] + EnzymeCore v0.8.14 [d4d017d3] + ExponentialUtilities v1.27.0 [e2ba6199] + ExprTools v0.1.10 [55351af7] + ExproniconLite v0.10.14 [7a1cc6ca] + FFTW v1.10.0 [7034ab61] + FastBroadcast v0.3.5 [9aa1b823] + FastClosures v0.3.2 [442a2c76] + FastGaussQuadrature v1.1.0 [a4df4552] + FastPower v1.1.3 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.14.0 [6a86dc24] + FiniteDiff v2.29.0 [f6369f11] + ForwardDiff v1.2.2 [069b7b12] + FunctionWrappers v1.1.3 [77dc65aa] + FunctionWrappersWrappers v0.1.3 [46192b85] + GPUArraysCore v0.2.0 [c145ed77] + GenericSchur v0.5.6 [d7ba0133] + Git v1.5.0 [34004b35] + HypergeometricFunctions v0.3.28 [7073ff75] + IJulia v1.31.1 [b5f81e59] + IOCapture v0.2.5 [615f187c] + IfElse v0.1.1 [842dd82b] + InlineStrings v1.4.5 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.6 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 ⌅ [682c06a0] + JSON v0.21.4 [ae98c720] + Jieko v0.2.1 [aa1ae85d] + JuliaInterpreter v0.10.6 [ba0b0d4f] + Krylov v0.10.2 [7f56f5a3] + LSODA v0.7.5 [b964fa9f] + LaTeXStrings v1.4.0 [10f19ff3] + LayoutPointers v0.1.17 [0e77f7df] + LazilyInitializedFields v1.3.0 [5078a376] + LazyArrays v2.8.0 [87fe0de2] + LineSearch v0.1.4 [d3d80556] + LineSearches v7.4.0 [7ed4a6bd] + LinearSolve v3.44.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [6f1432cf] + LoweredCodeUtils v3.4.4 [1914dd2f] + MacroTools v0.5.16 [d125e4d3] + ManualMemory v0.1.8 [d0879d2d] + MarkdownAST v0.1.2 [bb5d69b7] + MaybeInplace v0.1.4 [e1d29d7a] + Missings v1.2.0 [2e0e35c7] + Moshi v0.3.7 [46d2c3a1] + MuladdMacro v0.2.4 [6f286f6a] + MultivariateStats v0.10.3 [d41bc354] + NLSolversBase v7.10.0 [77ba4419] + NaNMath v1.1.3 [8913a72c] + NonlinearSolve v4.12.0 [be0214bd] + NonlinearSolveBase v2.0.0 [5959db7a] + NonlinearSolveFirstOrder v1.9.0 [9a2c21bd] + NonlinearSolveQuasiNewton v1.10.0 [26075421] + NonlinearSolveSpectralMethods v1.5.0 [429524aa] + Optim v1.13.2 [bac558e1] + OrderedCollections v1.8.1 [1dea7af3] + OrdinaryDiffEq v6.102.1 [89bda076] + OrdinaryDiffEqAdamsBashforthMoulton v1.5.0 [6ad6398a] + OrdinaryDiffEqBDF v1.10.1 [bbf590c4] + OrdinaryDiffEqCore v1.36.0 [50262376] + OrdinaryDiffEqDefault v1.8.0 [4302a76b] + OrdinaryDiffEqDifferentiation v1.16.1 [9286f039] + OrdinaryDiffEqExplicitRK v1.4.0 [e0540318] + OrdinaryDiffEqExponentialRK v1.8.0 [becaefa8] + OrdinaryDiffEqExtrapolation v1.9.0 [5960d6e9] + OrdinaryDiffEqFIRK v1.16.0 [101fe9f7] + OrdinaryDiffEqFeagin v1.4.0 [d3585ca7] + OrdinaryDiffEqFunctionMap v1.5.0 [d28bc4f8] + OrdinaryDiffEqHighOrderRK v1.5.0 [9f002381] + OrdinaryDiffEqIMEXMultistep v1.7.0 [521117fe] + OrdinaryDiffEqLinear v1.6.0 [1344f307] + OrdinaryDiffEqLowOrderRK v1.6.0 [b0944070] + OrdinaryDiffEqLowStorageRK v1.7.0 [127b3ac7] + OrdinaryDiffEqNonlinearSolve v1.15.0 [c9986a66] + OrdinaryDiffEqNordsieck v1.4.0 [5dd0a6cf] + OrdinaryDiffEqPDIRK v1.6.0 [5b33eab2] + OrdinaryDiffEqPRK v1.4.0 [04162be5] + OrdinaryDiffEqQPRK v1.4.0 [af6ede74] + OrdinaryDiffEqRKN v1.5.0 [43230ef6] + OrdinaryDiffEqRosenbrock v1.18.1 [2d112036] + OrdinaryDiffEqSDIRK v1.7.0 [669c94d9] + OrdinaryDiffEqSSPRK v1.7.0 [e3e12d00] + OrdinaryDiffEqStabilizedIRK v1.6.0 [358294b1] + OrdinaryDiffEqStabilizedRK v1.4.0 [fa646aed] + OrdinaryDiffEqSymplecticRK v1.7.0 [b1df2697] + OrdinaryDiffEqTsit5 v1.5.0 [79d7bb75] + OrdinaryDiffEqVerner v1.6.0 [90014a1f] + PDMats v0.11.35 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.8.3 [f517fe37] + Polyester v0.7.18 [1d0040c9] + PolyesterWeave v0.2.2 [2dfb63ee] + PooledArrays v1.4.3 [85a6dd25] + PositiveFactorizations v0.2.4 [d236fae5] + PreallocationTools v0.4.34 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.0 [08abe8d2] + PrettyTables v3.1.0 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [3cdcf5f2] + RecipesBase v1.3.4 [731186ca] + RecursiveArrayTools v3.39.0 [189a3867] + Reexport v1.2.2 [2792f1a3] + RegistryInstances v0.1.0 [ae029012] + Requires v1.3.1 [295af30f] + Revise v3.10.0 [79098fc4] + Rmath v0.8.1 [7e49a35a] + RuntimeGeneratedFunctions v0.5.15 [94e857df] + SIMDTypes v0.1.0 [0bca4576] + SciMLBase v2.121.1 [19f34311] + SciMLJacobianOperators v0.1.11 [c0aeaf25] + SciMLOperators v1.9.0 [431bcebd] + SciMLPublic v1.0.0 [53ae85a6] + SciMLStructures v1.7.0 [91c51154] + SentinelArrays v1.4.8 [efcf1570] + Setfield v1.1.2 [727e6d20] + SimpleNonlinearSolve v2.9.0 [ce78b400] + SimpleUnPack v1.1.0 [a2af1166] + SortingAlgorithms v1.2.2 [0a514795] + SparseMatrixColorings v0.4.22 [276daf66] + SpecialFunctions v2.6.1 [aedffcd0] + Static v1.3.0 [0d7ed370] + StaticArrayInterface v1.8.0 [90137ffa] + StaticArrays v1.9.15 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.6 [4c63d2b9] + StatsFuns v1.5.0 [a2598c62] + StochasticGene v1.5.10 [7792a7ef] + StrideArraysCore v0.5.8 [892a3eda] + StringManipulation v0.4.1 [2efcf032] + SymbolicIndexingInterface v0.3.46 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [8290d209] + ThreadingUtilities v0.5.5 [a759f4b9] + TimerOutputs v0.5.29 [3bb67fe8] + TranscodingStreams v0.11.3 [781d530d] + TruncatedStacktraces v1.4.0 [3a884ed6] + UnPack v1.0.2 [81def892] + VersionParsing v1.3.0 [ea10d353] + WeakRefStrings v1.4.2 [76eceee3] + WorkerUtilities v1.6.1 [c2297ded] + ZMQ v1.5.0 ⌅ [68821587] + Arpack_jll v3.5.1+1 [2e619515] + Expat_jll v2.7.3+0 [f5851436] + FFTW_jll v3.3.11+0 [020c3dae] + Git_LFS_jll v3.7.0+0 [f8c6e375] + Git_jll v2.51.1+0 [1d5cc7b8] + IntelOpenMP_jll v2025.2.0+0 [aae0fff6] + LSODA_jll v0.1.2+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [856f044c] + MKL_jll v2025.2.0+0 [9bd350c2] + OpenSSH_jll v10.2.1+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [8f1865be] + ZeroMQ_jll v4.3.6+0 [a9144af2] + libsodium_jll v1.0.21+0 [1317d2d5] + oneTBB_jll v2022.0.0+1 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [f43a241f] + Downloads v1.7.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.13.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.13.0 [de0858da] + Printf v1.11.0 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.13.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.16.0+0 [e37daf67] + LibGit2_jll v1.9.1+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.9.9 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.4+0 [efcefdf7] + PCRE2_jll v10.46.0+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.1+2 [3161d3a3] + Zstd_jll v1.5.7+1 [8e850b90] + libblastrampoline_jll v5.15.0+0 [8e850ede] + nghttp2_jll v1.67.1+0 [3f19e933] + p7zip_jll v17.6.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Building Conda ─→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/b19db3927f0db4151cb86d073689f2428e524576/build.log` Building IJulia → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/cdda5c1e16dace665ea5481460a3b6728f24a825/build.log` Installation completed after 75.93s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 3142.3 ms ✓ TestEnv 1 dependency successfully precompiled in 3 seconds. 27 already precompiled. Precompiling package dependencies... Precompilation completed after 1675.7s ################################################################################ # Testing # Testing StochasticGene Status `/tmp/jl_afFgm0/Project.toml` [336ed68f] CSV v0.10.15 [a93c6f00] DataFrames v1.8.1 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.122 [e30172f5] Documenter v1.14.1 [7a1cc6ca] FFTW v1.10.0 [7073ff75] IJulia v1.31.1 ⌅ [682c06a0] JSON v0.21.4 [7f56f5a3] LSODA v0.7.5 [6f286f6a] MultivariateStats v0.10.3 [429524aa] Optim v1.13.2 [1dea7af3] OrdinaryDiffEq v6.102.1 [295af30f] Revise v3.10.0 [10745b16] Statistics v1.11.1 [2913bbd2] StatsBase v0.34.6 [a2598c62] StochasticGene v1.5.10 [ade2ca70] Dates v1.11.0 [8ba89e20] Distributed v1.11.0 [f43a241f] Downloads v1.7.0 [37e2e46d] LinearAlgebra v1.13.0 [2f01184e] SparseArrays v1.13.0 [f489334b] StyledStrings v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_afFgm0/Manifest.toml` [47edcb42] ADTypes v1.18.0 [a4c015fc] ANSIColoredPrinters v0.0.1 [621f4979] AbstractFFTs v1.5.0 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.4.0 [66dad0bd] AliasTables v1.1.3 [7d9fca2a] Arpack v0.5.4 [4fba245c] ArrayInterface v7.21.0 [4c555306] ArrayLayouts v1.12.0 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [70df07ce] BracketingNonlinearSolve v1.5.0 [2a0fbf3d] CPUSummary v0.2.7 [336ed68f] CSV v0.10.15 [d360d2e6] ChainRulesCore v1.26.0 [fb6a15b2] CloseOpenIntervals v0.1.13 [da1fd8a2] CodeTracking v2.0.1 [944b1d66] CodecZlib v0.7.8 [38540f10] CommonSolve v0.2.4 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.18.1 [807dbc54] Compiler v0.1.1 [a33af91c] CompositionsBase v0.1.2 [2569d6c7] ConcreteStructs v0.2.3 [8f4d0f93] Conda v1.10.2 [187b0558] ConstructionBase v1.6.0 [adafc99b] CpuId v0.3.1 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.8.1 [864edb3b] DataStructures v0.19.1 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [2b5f629d] DiffEqBase v6.190.2 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 [a0c0ee7d] DifferentiationInterface v0.7.9 [31c24e10] Distributions v0.25.122 [ffbed154] DocStringExtensions v0.9.5 [e30172f5] Documenter v1.14.1 [4e289a0a] EnumX v1.0.5 [f151be2c] EnzymeCore v0.8.14 [d4d017d3] ExponentialUtilities v1.27.0 [e2ba6199] ExprTools v0.1.10 [55351af7] ExproniconLite v0.10.14 [7a1cc6ca] FFTW v1.10.0 [7034ab61] FastBroadcast v0.3.5 [9aa1b823] FastClosures v0.3.2 [442a2c76] FastGaussQuadrature v1.1.0 [a4df4552] FastPower v1.1.3 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.14.0 [6a86dc24] FiniteDiff v2.29.0 [f6369f11] ForwardDiff v1.2.2 [069b7b12] FunctionWrappers v1.1.3 [77dc65aa] FunctionWrappersWrappers v0.1.3 [46192b85] GPUArraysCore v0.2.0 [c145ed77] GenericSchur v0.5.6 [d7ba0133] Git v1.5.0 [34004b35] HypergeometricFunctions v0.3.28 [7073ff75] IJulia v1.31.1 [b5f81e59] IOCapture v0.2.5 [615f187c] IfElse v0.1.1 [842dd82b] InlineStrings v1.4.5 [3587e190] InverseFunctions v0.1.17 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.6 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.1 ⌅ [682c06a0] JSON v0.21.4 [ae98c720] Jieko v0.2.1 [aa1ae85d] JuliaInterpreter v0.10.6 [ba0b0d4f] Krylov v0.10.2 [7f56f5a3] LSODA v0.7.5 [b964fa9f] LaTeXStrings v1.4.0 [10f19ff3] LayoutPointers v0.1.17 [0e77f7df] LazilyInitializedFields v1.3.0 [5078a376] LazyArrays v2.8.0 [87fe0de2] LineSearch v0.1.4 [d3d80556] LineSearches v7.4.0 [7ed4a6bd] LinearSolve v3.44.0 [2ab3a3ac] LogExpFunctions v0.3.29 [6f1432cf] LoweredCodeUtils v3.4.4 [1914dd2f] MacroTools v0.5.16 [d125e4d3] ManualMemory v0.1.8 [d0879d2d] MarkdownAST v0.1.2 [bb5d69b7] MaybeInplace v0.1.4 [e1d29d7a] Missings v1.2.0 [2e0e35c7] Moshi v0.3.7 [46d2c3a1] MuladdMacro v0.2.4 [6f286f6a] MultivariateStats v0.10.3 [d41bc354] NLSolversBase v7.10.0 [77ba4419] NaNMath v1.1.3 [8913a72c] NonlinearSolve v4.12.0 [be0214bd] NonlinearSolveBase v2.0.0 [5959db7a] NonlinearSolveFirstOrder v1.9.0 [9a2c21bd] NonlinearSolveQuasiNewton v1.10.0 [26075421] NonlinearSolveSpectralMethods v1.5.0 [429524aa] Optim v1.13.2 [bac558e1] OrderedCollections v1.8.1 [1dea7af3] OrdinaryDiffEq v6.102.1 [89bda076] OrdinaryDiffEqAdamsBashforthMoulton v1.5.0 [6ad6398a] OrdinaryDiffEqBDF v1.10.1 [bbf590c4] OrdinaryDiffEqCore v1.36.0 [50262376] OrdinaryDiffEqDefault v1.8.0 [4302a76b] OrdinaryDiffEqDifferentiation v1.16.1 [9286f039] OrdinaryDiffEqExplicitRK v1.4.0 [e0540318] OrdinaryDiffEqExponentialRK v1.8.0 [becaefa8] OrdinaryDiffEqExtrapolation v1.9.0 [5960d6e9] OrdinaryDiffEqFIRK v1.16.0 [101fe9f7] OrdinaryDiffEqFeagin v1.4.0 [d3585ca7] OrdinaryDiffEqFunctionMap v1.5.0 [d28bc4f8] OrdinaryDiffEqHighOrderRK v1.5.0 [9f002381] OrdinaryDiffEqIMEXMultistep v1.7.0 [521117fe] OrdinaryDiffEqLinear v1.6.0 [1344f307] OrdinaryDiffEqLowOrderRK v1.6.0 [b0944070] OrdinaryDiffEqLowStorageRK v1.7.0 [127b3ac7] OrdinaryDiffEqNonlinearSolve v1.15.0 [c9986a66] OrdinaryDiffEqNordsieck v1.4.0 [5dd0a6cf] OrdinaryDiffEqPDIRK v1.6.0 [5b33eab2] OrdinaryDiffEqPRK v1.4.0 [04162be5] OrdinaryDiffEqQPRK v1.4.0 [af6ede74] OrdinaryDiffEqRKN v1.5.0 [43230ef6] OrdinaryDiffEqRosenbrock v1.18.1 [2d112036] OrdinaryDiffEqSDIRK v1.7.0 [669c94d9] OrdinaryDiffEqSSPRK v1.7.0 [e3e12d00] OrdinaryDiffEqStabilizedIRK v1.6.0 [358294b1] OrdinaryDiffEqStabilizedRK v1.4.0 [fa646aed] OrdinaryDiffEqSymplecticRK v1.7.0 [b1df2697] OrdinaryDiffEqTsit5 v1.5.0 [79d7bb75] OrdinaryDiffEqVerner v1.6.0 [90014a1f] PDMats v0.11.35 [d96e819e] Parameters v0.12.3 [69de0a69] Parsers v2.8.3 [f517fe37] Polyester v0.7.18 [1d0040c9] PolyesterWeave v0.2.2 [2dfb63ee] PooledArrays v1.4.3 [85a6dd25] PositiveFactorizations v0.2.4 [d236fae5] PreallocationTools v0.4.34 [aea7be01] PrecompileTools v1.3.3 [21216c6a] Preferences v1.5.0 [08abe8d2] PrettyTables v3.1.0 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [3cdcf5f2] RecipesBase v1.3.4 [731186ca] RecursiveArrayTools v3.39.0 [189a3867] Reexport v1.2.2 [2792f1a3] RegistryInstances v0.1.0 [ae029012] Requires v1.3.1 [295af30f] Revise v3.10.0 [79098fc4] Rmath v0.8.1 [7e49a35a] RuntimeGeneratedFunctions v0.5.15 [94e857df] SIMDTypes v0.1.0 [0bca4576] SciMLBase v2.121.1 [19f34311] SciMLJacobianOperators v0.1.11 [c0aeaf25] SciMLOperators v1.9.0 [431bcebd] SciMLPublic v1.0.0 [53ae85a6] SciMLStructures v1.7.0 [91c51154] SentinelArrays v1.4.8 [efcf1570] Setfield v1.1.2 [727e6d20] SimpleNonlinearSolve v2.9.0 [ce78b400] SimpleUnPack v1.1.0 [a2af1166] SortingAlgorithms v1.2.2 [0a514795] SparseMatrixColorings v0.4.22 [276daf66] SpecialFunctions v2.6.1 [aedffcd0] Static v1.3.0 [0d7ed370] StaticArrayInterface v1.8.0 [90137ffa] StaticArrays v1.9.15 [1e83bf80] StaticArraysCore v1.4.3 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.1 [2913bbd2] StatsBase v0.34.6 [4c63d2b9] StatsFuns v1.5.0 [a2598c62] StochasticGene v1.5.10 [7792a7ef] StrideArraysCore v0.5.8 [892a3eda] StringManipulation v0.4.1 [2efcf032] SymbolicIndexingInterface v0.3.46 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [8290d209] ThreadingUtilities v0.5.5 [a759f4b9] TimerOutputs v0.5.29 [3bb67fe8] TranscodingStreams v0.11.3 [781d530d] TruncatedStacktraces v1.4.0 [3a884ed6] UnPack v1.0.2 [81def892] VersionParsing v1.3.0 [ea10d353] WeakRefStrings v1.4.2 [76eceee3] WorkerUtilities v1.6.1 [c2297ded] ZMQ v1.5.0 ⌅ [68821587] Arpack_jll v3.5.1+1 [2e619515] Expat_jll v2.7.3+0 [f5851436] FFTW_jll v3.3.11+0 [020c3dae] Git_LFS_jll v3.7.0+0 [f8c6e375] Git_jll v2.51.1+0 [1d5cc7b8] IntelOpenMP_jll v2025.2.0+0 [aae0fff6] LSODA_jll v0.1.2+0 [94ce4f54] Libiconv_jll v1.18.0+0 [856f044c] MKL_jll v2025.2.0+0 [9bd350c2] OpenSSH_jll v10.2.1+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [8f1865be] ZeroMQ_jll v4.3.6+0 [a9144af2] libsodium_jll v1.0.21+0 [1317d2d5] oneTBB_jll v2022.0.0+1 [0dad84c5] ArgTools v1.1.2 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [8ba89e20] Distributed v1.11.0 [f43a241f] Downloads v1.7.0 [7b1f6079] FileWatching v1.11.0 [9fa8497b] Future v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [ac6e5ff7] JuliaSyntaxHighlighting v1.12.0 [4af54fe1] LazyArtifacts v1.11.0 [b27032c2] LibCURL v0.6.4 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.13.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.3.0 [44cfe95a] Pkg v1.13.0 [de0858da] Printf v1.11.0 [3fa0cd96] REPL v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.13.0 [f489334b] StyledStrings v1.11.0 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] LibCURL_jll v8.16.0+0 [e37daf67] LibGit2_jll v1.9.1+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.9.9 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.4+0 [efcefdf7] PCRE2_jll v10.46.0+0 [bea87d4a] SuiteSparse_jll v7.10.1+0 [83775a58] Zlib_jll v1.3.1+2 [3161d3a3] Zstd_jll v1.5.7+1 [8e850b90] libblastrampoline_jll v5.15.0+0 [8e850ede] nghttp2_jll v1.67.1+0 [3f19e933] p7zip_jll v17.6.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... Sampling StochasticGene: Test Failed at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/test/runtests.jl:20 Expression: isapprox(h1, h2, rtol = 0.05) Evaluated: isapprox([0.2659175902939906, 0.13329606063400207, 2.3837842734186934, 1.0], [0.33, 0.19, 2.5, 1.0]; rtol = 0.05) Stacktrace: [1] top-level scope @ ~/.julia/packages/StochasticGene/iWmSF/test/runtests.jl:13 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1961 [inlined] [3] macro expansion @ ~/.julia/packages/StochasticGene/iWmSF/test/runtests.jl:20 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:753 [inlined] Histogram count: 6774.0 Sampling Sampling Sampling StochasticGene: Test Failed at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/test/runtests.jl:29 Expression: isapprox(h1, h2, rtol = 0.2) Evaluated: isapprox([1.0059785586440887e-30, 4.5376721443195315e-29, 1.0399539975616905e-27, 1.615972178699291e-26, 1.9157923993683867e-25, 1.8482270561268546e-24, 1.5110690229131236e-23, 1.0765587568722715e-22, 6.820609695915877e-22, 3.9023572872327044e-21 … 0.004695135379243725, 0.004691913407061587, 0.004688693645248843, 0.004685476092236476, 0.004682260746477975, 0.004679047606390473, 0.004675836670417938, 0.004672627936995682, 0.004669421404558148, 0.004666217071541516], [2.787536187066125e-6, 2.0166583813712374e-6, 1.3467545123656069e-6, 3.950722728366858e-7, 6.545588643995836e-7, 1.6511001416080838e-7, 1.283788088758926e-6, 1.8631956219400413e-6, 4.984153783471979e-7, 1.946354694361505e-6 … 0.003466990274898451, 0.0033945155146550706, 0.0034846876000741603, 0.0033591208643036522, 0.0033582781345333807, 0.0033726045406280024, 0.0033397380795873997, 0.003403785542128061, 0.0033346817009657684, 0.0033844027574118085]; rtol = 0.2) Stacktrace: [1] top-level scope @ ~/.julia/packages/StochasticGene/iWmSF/test/runtests.jl:13 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1961 [inlined] [3] macro expansion @ ~/.julia/packages/StochasticGene/iWmSF/test/runtests.jl:29 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:753 [inlined] No rate file, set rate to prior initial: [0.01, 0.01, 0.1, 0.12, 0.12, 1.0, 0.0, 0.1, 1.0, 0.1] Sampling ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile. --trace-compile is enabled during profile collection. ====================================================================================== cmd: /opt/julia/bin/julia 1464 running 1 of 1 signal (10): User defined signal 1 macro expansion at ./simdloop.jl:0 [inlined] copyto! at ./broadcast.jl:993 [inlined] copyto! at ./broadcast.jl:946 [inlined] copy at ./broadcast.jl:918 [inlined] materialize at ./broadcast.jl:893 [inlined] broadcast_preserving_zero_d at ./broadcast.jl:882 [inlined] * at ./arraymath.jl:24 forward at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/hmm.jl:974 forward at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/hmm.jl:1059 [inlined] _ll_hmm at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/hmm.jl:1647 unknown function (ip: 0x7f6e6694ae9c) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 ll_hmm at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/hmm.jl:1832 unknown function (ip: 0x7f6e66dff46e) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 ll_hmm_trace at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/likelihoods.jl:486 loglikelihood at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/likelihoods.jl:491 [inlined] mhstep at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:552 unknown function (ip: 0x7f6e669557c6) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 sample at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:459 sample at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:450 unknown function (ip: 0x7f6e66954a9c) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 metropolis_hastings at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:313 run_mh at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:128 [inlined] run_mh at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:151 #test_fit_trace#191 at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/test.jl:282 test_fit_trace at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/test.jl:262 unknown function (ip: 0x7f6e66de8f1f) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2275 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:679 eval_body at /source/src/interpreter.c:550 eval_body at /source/src/interpreter.c:558 eval_body at /source/src/interpreter.c:558 eval_body at /source/src/interpreter.c:558 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 jl_toplevel_eval_flex at /source/src/toplevel.c:742 jl_eval_toplevel_stmts at /source/src/toplevel.c:585 jl_toplevel_eval_flex at /source/src/toplevel.c:683 ijl_toplevel_eval at /source/src/toplevel.c:754 ijl_toplevel_eval_in at /source/src/toplevel.c:799 eval at ./boot.jl:489 include_string at ./loading.jl:2979 _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 _include at ./loading.jl:3039 include at ./Base.jl:310 IncludeInto at ./Base.jl:311 jfptr_IncludeInto_41661.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2275 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:679 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 jl_toplevel_eval_flex at /source/src/toplevel.c:742 jl_eval_toplevel_stmts at /source/src/toplevel.c:585 jl_toplevel_eval_flex at /source/src/toplevel.c:683 ijl_toplevel_eval at /source/src/toplevel.c:754 ijl_toplevel_eval_in at /source/src/toplevel.c:799 eval at ./boot.jl:489 exec_options at ./client.jl:310 _start at ./client.jl:577 jfptr__start_36890.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2275 [inlined] true_main at /source/src/jlapi.c:971 jl_repl_entrypoint at /source/src/jlapi.c:1138 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x7f6ebab77249) at /lib/x86_64-linux-gnu/libc.so.6 __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) at /workspace/srcdir/glibc-2.17/csu/../sysdeps/x86_64/start.S unknown function (ip: (nil)) at (unknown file) ============================================================== Profile collected. A report will print at the next yield point. Disabling --trace-compile ============================================================== ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile. --trace-compile is enabled during profile collection. ====================================================================================== cmd: /opt/julia/bin/julia 1 running 0 of 1 signal (10): User defined signal 1 epoll_pwait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv__io_poll at /workspace/srcdir/libuv/src/unix/linux.c:1404 uv_run at /workspace/srcdir/libuv/src/unix/core.c:430 ijl_task_get_next at /source/src/scheduler.c:457 wait at ./task.jl:1217 wait_forever at ./task.jl:1139 jfptr_wait_forever_78233.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2275 [inlined] start_task at /source/src/task.c:1281 unknown function (ip: (nil)) at (unknown file) ============================================================== Profile collected. A report will print at the next yield point. Disabling --trace-compile ============================================================== ┌ Warning: There were no samples collected in one or more groups. │ This may be due to idle threads, or you may need to run your │ program longer (perhaps by running it multiple times), │ or adjust the delay between samples with `Profile.init()`. └ @ Profile /opt/julia/share/julia/stdlib/v1.13/Profile/src/Profile.jl:1362 Overhead ╎ [+additional indent] Count File:Line Function ========================================================= Thread 1 (default) Task 0x000079ee6cbd7c10 Total snapshots: 392. Utilization: 0% ╎392 @Base/task.jl:1139 wait_forever() 391╎ 392 @Base/task.jl:1217 wait() [1] signal 15: Terminated in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 epoll_pwait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv__io_poll at /workspace/srcdir/libuv/src/unix/linux.c:1404 uv_run at /workspace/srcdir/libuv/src/unix/core.c:430 ijl_task_get_next at /source/src/scheduler.c:457 wait at ./task.jl:1217 wait_forever at ./task.jl:1139 jfptr_wait_forever_78233.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2275 [inlined] start_task at /source/src/task.c:1281 unknown function (ip: (nil)) at (unknown file) Allocations: 39068086 (Pool: 39067048; Big: 1038); GC: 46 [1464] signal 15: Terminated in expression starting at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/test/runtests.jl:11 jl_gc_small_alloc_inner at /source/src/gc-stock.c:726 ijl_gc_small_alloc at /source/src/gc-stock.c:774 set_b at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/hmm.jl:693 _ll_hmm at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/hmm.jl:1646 unknown function (ip: 0x7f6e6694ae9c) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 ll_hmm at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/hmm.jl:1832 unknown function (ip: 0x7f6e66dff46e) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 ll_hmm_trace at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/likelihoods.jl:486 loglikelihood at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/likelihoods.jl:491 [inlined] mhstep at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:552 unknown function (ip: 0x7f6e669557c6) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 sample at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:459 sample at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:450 unknown function (ip: 0x7f6e66954a9c) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 metropolis_hastings at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:313 run_mh at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:128 [inlined] run_mh at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:151 #test_fit_trace#191 at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/test.jl:282 test_fit_trace at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/test.jl:262 unknown function (ip: 0x7f6e66de8f1f) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2275 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:679 eval_body at /source/src/interpreter.c:550 eval_body at /source/src/interpreter.c:558 eval_body at /source/src/interpreter.c:558 eval_body at /source/src/interpreter.c:558 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 jl_toplevel_eval_flex at /source/src/toplevel.c:742 jl_eval_toplevel_stmts at /source/src/toplevel.c:585 jl_toplevel_eval_flex at /source/src/toplevel.c:683 ijl_toplevel_eval at /source/src/toplevel.c:754 ijl_toplevel_eval_in at /source/src/toplevel.c:799 eval at ./boot.jl:489 include_string at ./loading.jl:2979 _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 _include at ./loading.jl:3039 include at ./Base.jl:310 IncludeInto at ./Base.jl:311 jfptr_IncludeInto_41661.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2275 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:679 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 jl_toplevel_eval_flex at /source/src/toplevel.c:742 jl_eval_toplevel_stmts at /source/src/toplevel.c:585 jl_toplevel_eval_flex at /source/src/toplevel.c:683 ijl_toplevel_eval at /source/src/toplevel.c:754 ijl_toplevel_eval_in at /source/src/toplevel.c:799 eval at ./boot.jl:489 exec_options at ./client.jl:310 _start at ./client.jl:577 jfptr__start_36890.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2275 [inlined] true_main at /source/src/jlapi.c:971 jl_repl_entrypoint at /source/src/jlapi.c:1138 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x7f6ebab77249) at /lib/x86_64-linux-gnu/libc.so.6 __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) at /workspace/srcdir/glibc-2.17/csu/../sysdeps/x86_64/start.S unknown function (ip: (nil)) at (unknown file) Allocations: 3768016623 (Pool: 3768015406; Big: 1217); GC: 5632 PkgEval terminated after 2722.9s: test duration exceeded the time limit