Package evaluation of StochasticGene on Julia 1.13.0-DEV.1072 (de815ed1fa*) started at 2025-09-04T03:37:41.342 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 10.87s ################################################################################ # Installation # Installing StochasticGene... Resolving package versions... Installed MKL_jll ───────────────────────────── v2025.2.0+0 Installed CommonWorldInvalidations ──────────── v1.0.0 Installed InlineStrings ─────────────────────── v1.4.5 Installed OrderedCollections ────────────────── v1.8.1 Installed SIMDTypes ─────────────────────────── v0.1.0 Installed FastPower ─────────────────────────── v1.1.3 Installed MultivariateStats ─────────────────── v0.10.3 Installed OrdinaryDiffEqRosenbrock ──────────── v1.17.0 Installed Optim ─────────────────────────────── v1.13.2 Installed OrdinaryDiffEqExponentialRK ───────── v1.8.0 Installed EnzymeCore ────────────────────────── v0.8.12 Installed PreallocationTools ────────────────── v0.4.34 Installed NonlinearSolveSpectralMethods ─────── v1.3.0 Installed OrdinaryDiffEqFIRK ────────────────── v1.16.0 Installed CpuId ─────────────────────────────── v0.3.1 Installed SentinelArrays ────────────────────── v1.4.8 Installed Compiler ──────────────────────────── v0.1.1 Installed OpenSpecFun_jll ───────────────────── v0.5.6+0 Installed StaticArrayInterface ──────────────── v1.8.0 Installed NaNMath ───────────────────────────── v1.1.3 Installed LoweredCodeUtils ──────────────────── v3.4.3 Installed QuadGK ────────────────────────────── v2.11.2 Installed Revise ────────────────────────────── v3.9.0 Installed OrdinaryDiffEqQPRK ────────────────── v1.4.0 Installed EnumX ─────────────────────────────── v1.0.5 Installed NonlinearSolveBase ────────────────── v1.14.0 Installed FastBroadcast ─────────────────────── v0.3.5 Installed Tables ────────────────────────────── v1.12.1 Installed Arpack ────────────────────────────── v0.5.4 Installed NLSolversBase ─────────────────────── v7.10.0 Installed LinearSolve ───────────────────────── v3.39.2 Installed OrdinaryDiffEqLowOrderRK ──────────── v1.6.0 Installed BracketingNonlinearSolve ──────────── v1.3.0 Installed Jieko ─────────────────────────────── v0.2.1 Installed Reexport ──────────────────────────── v1.2.2 Installed InverseFunctions ──────────────────── v0.1.17 Installed DiffEqBase ────────────────────────── v6.187.0 Installed Missings ──────────────────────────── v1.2.0 Installed Preferences ───────────────────────── v1.5.0 Installed NonlinearSolve ────────────────────── v4.10.0 Installed Static ────────────────────────────── v1.2.0 Installed RegistryInstances ─────────────────── v0.1.0 Installed TableTraits ───────────────────────── v1.0.1 Installed MaybeInplace ──────────────────────── v0.1.4 Installed OrdinaryDiffEqNordsieck ───────────── v1.4.0 Installed LaTeXStrings ──────────────────────── v1.4.0 Installed OrdinaryDiffEqAdamsBashforthMoulton ─ v1.5.0 Installed SortingAlgorithms ─────────────────── v1.2.2 Installed Crayons ───────────────────────────── v4.1.1 Installed OrdinaryDiffEqLinear ──────────────── v1.6.0 Installed UnPack ────────────────────────────── v1.0.2 Installed ADTypes ───────────────────────────── v1.17.0 Installed RecursiveArrayTools ───────────────── v3.37.1 Installed MacroTools ────────────────────────── v0.5.16 Installed DataStructures ────────────────────── v0.18.22 Installed OpenSSH_jll ───────────────────────── v10.0.1+0 Installed GenericSchur ──────────────────────── v0.5.5 Installed DiffResults ───────────────────────── v1.1.0 Installed ManualMemory ──────────────────────── v0.1.8 Installed FillArrays ────────────────────────── v1.13.0 Installed AbstractTrees ─────────────────────── v0.4.5 Installed oneTBB_jll ────────────────────────── v2022.0.0+0 Installed DelimitedFiles ────────────────────── v1.9.1 Installed SparseMatrixColorings ─────────────── v0.4.21 Installed StatsBase ─────────────────────────── v0.34.6 Installed CodecZlib ─────────────────────────── v0.7.8 Installed SciMLJacobianOperators ────────────── v0.1.11 Installed IntelOpenMP_jll ───────────────────── v2025.2.0+0 Installed ExprTools ─────────────────────────── v0.1.10 Installed DataValueInterfaces ───────────────── v1.0.0 Installed ArrayInterface ────────────────────── v7.20.0 Installed CommonSubexpressions ──────────────── v0.3.1 Installed LayoutPointers ────────────────────── v0.1.17 Installed GPUArraysCore ─────────────────────── v0.2.0 Installed Expat_jll ─────────────────────────── v2.7.1+0 Installed IrrationalConstants ───────────────── v0.2.4 Installed TruncatedStacktraces ──────────────── v1.4.0 Installed ConcreteStructs ───────────────────── v0.2.3 Installed ArrayLayouts ──────────────────────── v1.11.2 Installed LSODA_jll ─────────────────────────── v0.1.2+0 Installed OrdinaryDiffEqRKN ─────────────────── v1.5.0 Installed OrdinaryDiffEqStabilizedIRK ───────── v1.6.0 Installed IOCapture ─────────────────────────── v0.2.5 Installed OrdinaryDiffEqExtrapolation ───────── v1.9.0 Installed Setfield ──────────────────────────── v1.1.2 Installed ExplicitImports ───────────────────── v1.13.2 Installed PooledArrays ──────────────────────── v1.4.3 Installed OrdinaryDiffEqPRK ─────────────────── v1.4.0 Installed PDMats ────────────────────────────── v0.11.35 Installed NonlinearSolveQuasiNewton ─────────── v1.8.0 Installed WorkerUtilities ───────────────────── v1.6.1 Installed Moshi ─────────────────────────────── v0.3.7 Installed OrdinaryDiffEqHighOrderRK ─────────── v1.5.0 Installed CompositionsBase ──────────────────── v0.1.2 Installed CommonSolve ───────────────────────── v0.2.4 Installed DocStringExtensions ───────────────── v0.9.5 Installed ForwardDiff ───────────────────────── v1.1.0 Installed ZMQ ───────────────────────────────── v1.4.1 Installed DifferentiationInterface ──────────── v0.7.7 Installed Rmath_jll ─────────────────────────── v0.5.1+0 Installed VersionParsing ────────────────────── v1.3.0 Installed SimpleUnPack ──────────────────────── v1.1.0 Installed AliasTables ───────────────────────── v1.1.3 Installed BitTwiddlingConvenienceFunctions ──── v0.1.6 Installed OrdinaryDiffEqStabilizedRK ────────── v1.4.0 Installed LineSearch ────────────────────────── v0.1.4 Installed IteratorInterfaceExtensions ───────── v1.0.0 Installed Krylov ────────────────────────────── v0.10.1 Installed RecipesBase ───────────────────────── v1.3.4 Installed FunctionWrappersWrappers ──────────── v0.1.3 Installed DataAPI ───────────────────────────── v1.16.0 Installed SciMLOperators ────────────────────── v1.7.1 Installed Git_LFS_jll ───────────────────────── v3.7.0+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 FastGaussQuadrature ───────────────── v1.0.2 Installed StaticArraysCore ──────────────────── v1.4.3 Installed OrdinaryDiffEqLowStorageRK ────────── v1.6.0 Installed StaticArrays ──────────────────────── v1.9.15 Installed LSODA ─────────────────────────────── v0.7.5 Installed CodeTracking ──────────────────────── v2.0.0 Installed OrdinaryDiffEq ────────────────────── v6.102.0 Installed AbstractFFTs ──────────────────────── v1.5.0 Installed StringManipulation ────────────────── v0.4.1 Installed OrdinaryDiffEqDifferentiation ─────── v1.15.0 Installed Requires ──────────────────────────── v1.3.1 Installed FunctionWrappers ──────────────────── v1.1.3 Installed OrdinaryDiffEqNonlinearSolve ──────── v1.14.1 Installed DiffRules ─────────────────────────── v1.15.1 Installed LogExpFunctions ───────────────────── v0.3.29 Installed CSV ───────────────────────────────── v0.10.15 Installed JuliaInterpreter ──────────────────── v0.10.5 Installed PrettyTables ──────────────────────── v2.4.0 Installed Git_jll ───────────────────────────── v2.51.0+0 Installed Documenter ────────────────────────── v1.14.1 Installed OrdinaryDiffEqCore ────────────────── v1.32.0 Installed SciMLBase ─────────────────────────── v2.116.1 Installed JSON ──────────────────────────────── v0.21.4 Installed Parsers ───────────────────────────── v2.8.3 Installed Distributions ─────────────────────── v0.25.120 Installed NonlinearSolveFirstOrder ──────────── v1.7.0 Installed OrdinaryDiffEqExplicitRK ──────────── v1.4.0 Installed Arpack_jll ────────────────────────── v3.5.1+1 Installed Rmath ─────────────────────────────── v0.8.0 Installed libsodium_jll ─────────────────────── v1.0.21+0 Installed FastClosures ──────────────────────── v0.3.2 Installed FiniteDiff ────────────────────────── v2.28.1 Installed CloseOpenIntervals ────────────────── v0.1.13 Installed Polyester ─────────────────────────── v0.7.18 Installed ZeroMQ_jll ────────────────────────── v4.3.6+0 Installed StatsFuns ─────────────────────────── v1.5.0 Installed OrdinaryDiffEqFeagin ──────────────── v1.4.0 Installed IJulia ────────────────────────────── v1.30.3 Installed OrdinaryDiffEqIMEXMultistep ───────── v1.7.0 Installed WeakRefStrings ────────────────────── v1.4.2 Installed JLLWrappers ───────────────────────── v1.7.1 Installed OrdinaryDiffEqPDIRK ───────────────── v1.6.0 Installed OrdinaryDiffEqSSPRK ───────────────── v1.6.0 Installed ThreadingUtilities ────────────────── v0.5.5 Installed OrdinaryDiffEqSDIRK ───────────────── v1.7.0 Installed DataFrames ────────────────────────── v1.7.1 Installed OrdinaryDiffEqDefault ─────────────── v1.8.0 Installed Adapt ─────────────────────────────── v4.3.0 Installed Accessors ─────────────────────────── v0.1.42 Installed FilePathsBase ─────────────────────── v0.9.24 Installed RuntimeGeneratedFunctions ─────────── v0.5.15 Installed OrdinaryDiffEqVerner ──────────────── v1.6.0 Installed ExponentialUtilities ──────────────── v1.27.0 Installed ConstructionBase ──────────────────── v1.6.0 Installed HypergeometricFunctions ───────────── v0.3.28 Installed Statistics ────────────────────────── v1.11.1 Installed StrideArraysCore ──────────────────── v0.5.8 Installed Compat ────────────────────────────── v4.18.0 Installed SymbolicIndexingInterface ─────────── v0.3.43 Installed TranscodingStreams ────────────────── v0.11.3 Installed PositiveFactorizations ────────────── v0.2.4 Installed StatsAPI ──────────────────────────── v1.7.1 Installed MarkdownAST ───────────────────────── v0.1.2 Installed TimerOutputs ──────────────────────── v0.5.29 Installed ExproniconLite ────────────────────── v0.10.14 Installed LazyArrays ────────────────────────── v2.6.2 Installed PrecompileTools ───────────────────── v1.3.3 Installed CPUSummary ────────────────────────── v0.2.7 Installed IfElse ────────────────────────────── v0.1.1 Installed PtrArrays ─────────────────────────── v1.3.0 Installed MuladdMacro ───────────────────────── v0.2.4 Installed Parameters ────────────────────────── v0.12.3 Installed ChainRulesCore ────────────────────── v1.26.0 Installed SimpleNonlinearSolve ──────────────── v2.7.0 Installed Git ───────────────────────────────── v1.5.0 Installed FFTW_jll ──────────────────────────── v3.3.11+0 Installed Libiconv_jll ──────────────────────── v1.18.0+0 Installed SpecialFunctions ──────────────────── v2.5.1 Installed FFTW ──────────────────────────────── v1.9.0 Installed LazilyInitializedFields ───────────── v1.3.0 Installed OrdinaryDiffEqTsit5 ───────────────── v1.5.0 Installed OrdinaryDiffEqFunctionMap ─────────── v1.5.0 Installed PolyesterWeave ────────────────────── v0.2.2 Installed ANSIColoredPrinters ───────────────── v0.0.1 Installed LineSearches ──────────────────────── v7.4.0 Installed StochasticGene ────────────────────── v1.5.10 Installing 13 artifacts Installed artifact Arpack 147.2 KiB Installed artifact Expat 274.7 KiB Installed artifact oneTBB 435.6 KiB Installed artifact LSODA 24.9 KiB Installed artifact libsodium 1.6 MiB Installed artifact OpenSSH 4.2 MiB Installed artifact ZeroMQ 316.1 KiB Installed artifact Rmath 121.9 KiB Installed artifact Libiconv 1.9 MiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact FFTW 2.2 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 v1.17.0 [a4c015fc] + ANSIColoredPrinters v0.0.1 [621f4979] + AbstractFFTs v1.5.0 [1520ce14] + AbstractTrees v0.4.5 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.3.0 [66dad0bd] + AliasTables v1.1.3 [7d9fca2a] + Arpack v0.5.4 [4fba245c] + ArrayInterface v7.20.0 [4c555306] + ArrayLayouts v1.11.2 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [70df07ce] + BracketingNonlinearSolve v1.3.0 [2a0fbf3d] + CPUSummary v0.2.7 [336ed68f] + CSV v0.10.15 [d360d2e6] + ChainRulesCore v1.26.0 [fb6a15b2] + CloseOpenIntervals v0.1.13 [da1fd8a2] + CodeTracking v2.0.0 [944b1d66] + CodecZlib v0.7.8 [38540f10] + CommonSolve v0.2.4 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.18.0 [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 v1.7.1 ⌅ [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [2b5f629d] + DiffEqBase v6.187.0 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [a0c0ee7d] + DifferentiationInterface v0.7.7 [31c24e10] + Distributions v0.25.120 [ffbed154] + DocStringExtensions v0.9.5 [e30172f5] + Documenter v1.14.1 [4e289a0a] + EnumX v1.0.5 [f151be2c] + EnzymeCore v0.8.12 [7d51a73a] + ExplicitImports v1.13.2 [d4d017d3] + ExponentialUtilities v1.27.0 [e2ba6199] + ExprTools v0.1.10 [55351af7] + ExproniconLite v0.10.14 [7a1cc6ca] + FFTW v1.9.0 [7034ab61] + FastBroadcast v0.3.5 [9aa1b823] + FastClosures v0.3.2 [442a2c76] + FastGaussQuadrature v1.0.2 [a4df4552] + FastPower v1.1.3 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.13.0 [6a86dc24] + FiniteDiff v2.28.1 [f6369f11] + ForwardDiff v1.1.0 [069b7b12] + FunctionWrappers v1.1.3 [77dc65aa] + FunctionWrappersWrappers v0.1.3 [46192b85] + GPUArraysCore v0.2.0 [c145ed77] + GenericSchur v0.5.5 [d7ba0133] + Git v1.5.0 [34004b35] + HypergeometricFunctions v0.3.28 [7073ff75] + IJulia v1.30.3 [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 v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 [682c06a0] + JSON v0.21.4 [ae98c720] + Jieko v0.2.1 [aa1ae85d] + JuliaInterpreter v0.10.5 [ba0b0d4f] + Krylov v0.10.1 [7f56f5a3] + LSODA v0.7.5 [b964fa9f] + LaTeXStrings v1.4.0 [10f19ff3] + LayoutPointers v0.1.17 [0e77f7df] + LazilyInitializedFields v1.3.0 [5078a376] + LazyArrays v2.6.2 [87fe0de2] + LineSearch v0.1.4 [d3d80556] + LineSearches v7.4.0 [7ed4a6bd] + LinearSolve v3.39.2 [2ab3a3ac] + LogExpFunctions v0.3.29 [6f1432cf] + LoweredCodeUtils v3.4.3 [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 v4.10.0 [be0214bd] + NonlinearSolveBase v1.14.0 [5959db7a] + NonlinearSolveFirstOrder v1.7.0 [9a2c21bd] + NonlinearSolveQuasiNewton v1.8.0 [26075421] + NonlinearSolveSpectralMethods v1.3.0 [429524aa] + Optim v1.13.2 [bac558e1] + OrderedCollections v1.8.1 [1dea7af3] + OrdinaryDiffEq v6.102.0 [89bda076] + OrdinaryDiffEqAdamsBashforthMoulton v1.5.0 [6ad6398a] + OrdinaryDiffEqBDF v1.10.1 [bbf590c4] + OrdinaryDiffEqCore v1.32.0 [50262376] + OrdinaryDiffEqDefault v1.8.0 [4302a76b] + OrdinaryDiffEqDifferentiation v1.15.0 [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 v1.6.0 [127b3ac7] + OrdinaryDiffEqNonlinearSolve v1.14.1 [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 v1.17.0 [2d112036] + OrdinaryDiffEqSDIRK v1.7.0 [669c94d9] + OrdinaryDiffEqSSPRK v1.6.0 [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 v2.4.0 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [3cdcf5f2] + RecipesBase v1.3.4 [731186ca] + RecursiveArrayTools v3.37.1 [189a3867] + Reexport v1.2.2 [2792f1a3] + RegistryInstances v0.1.0 [ae029012] + Requires v1.3.1 [295af30f] + Revise v3.9.0 [79098fc4] + Rmath v0.8.0 [7e49a35a] + RuntimeGeneratedFunctions v0.5.15 [94e857df] + SIMDTypes v0.1.0 [0bca4576] + SciMLBase v2.116.1 [19f34311] + SciMLJacobianOperators v0.1.11 [c0aeaf25] + SciMLOperators v1.7.1 [53ae85a6] + SciMLStructures v1.7.0 [91c51154] + SentinelArrays v1.4.8 [efcf1570] + Setfield v1.1.2 [727e6d20] + SimpleNonlinearSolve v2.7.0 [ce78b400] + SimpleUnPack v1.1.0 [a2af1166] + SortingAlgorithms v1.2.2 [0a514795] + SparseMatrixColorings v0.4.21 [276daf66] + SpecialFunctions v2.5.1 [aedffcd0] + Static v1.2.0 [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 v0.3.43 [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 v1.4.1 ⌅ [68821587] + Arpack_jll v3.5.1+1 [2e619515] + Expat_jll v2.7.1+0 [f5851436] + FFTW_jll v3.3.11+0 [020c3dae] + Git_LFS_jll v3.7.0+0 [f8c6e375] + Git_jll v2.51.0+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 v10.0.1+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+0 [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 v8.15.0+1 [e37daf67] + LibGit2_jll v1.9.1+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.8.12 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.2+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 v5.13.1+0 [8e850ede] + nghttp2_jll v1.66.0+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/00a9cbc52b819846e89ef5b221227c33b110d8e0/build.log` Installation completed after 69.28s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 4686.2 ms ✓ TestEnv 1 dependency successfully precompiled in 5 seconds. 27 already precompiled. Precompiling package dependencies... Precompilation completed after 1881.81s ################################################################################ # Testing # Testing StochasticGene Status `/tmp/jl_VcRx0u/Project.toml` [336ed68f] CSV v0.10.15 [a93c6f00] DataFrames v1.7.1 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.120 [e30172f5] Documenter v1.14.1 [7a1cc6ca] FFTW v1.9.0 [7073ff75] IJulia v1.30.3 [682c06a0] JSON v0.21.4 [7f56f5a3] LSODA v0.7.5 [6f286f6a] MultivariateStats v0.10.3 [429524aa] Optim v1.13.2 [1dea7af3] OrdinaryDiffEq v6.102.0 [295af30f] Revise v3.9.0 [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_VcRx0u/Manifest.toml` [47edcb42] ADTypes v1.17.0 [a4c015fc] ANSIColoredPrinters v0.0.1 [621f4979] AbstractFFTs v1.5.0 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.3.0 [66dad0bd] AliasTables v1.1.3 [7d9fca2a] Arpack v0.5.4 [4fba245c] ArrayInterface v7.20.0 [4c555306] ArrayLayouts v1.11.2 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [70df07ce] BracketingNonlinearSolve v1.3.0 [2a0fbf3d] CPUSummary v0.2.7 [336ed68f] CSV v0.10.15 [d360d2e6] ChainRulesCore v1.26.0 [fb6a15b2] CloseOpenIntervals v0.1.13 [da1fd8a2] CodeTracking v2.0.0 [944b1d66] CodecZlib v0.7.8 [38540f10] CommonSolve v0.2.4 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.18.0 [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 v1.7.1 ⌅ [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [2b5f629d] DiffEqBase v6.187.0 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 [a0c0ee7d] DifferentiationInterface v0.7.7 [31c24e10] Distributions v0.25.120 [ffbed154] DocStringExtensions v0.9.5 [e30172f5] Documenter v1.14.1 [4e289a0a] EnumX v1.0.5 [f151be2c] EnzymeCore v0.8.12 [7d51a73a] ExplicitImports v1.13.2 [d4d017d3] ExponentialUtilities v1.27.0 [e2ba6199] ExprTools v0.1.10 [55351af7] ExproniconLite v0.10.14 [7a1cc6ca] FFTW v1.9.0 [7034ab61] FastBroadcast v0.3.5 [9aa1b823] FastClosures v0.3.2 [442a2c76] FastGaussQuadrature v1.0.2 [a4df4552] FastPower v1.1.3 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.13.0 [6a86dc24] FiniteDiff v2.28.1 [f6369f11] ForwardDiff v1.1.0 [069b7b12] FunctionWrappers v1.1.3 [77dc65aa] FunctionWrappersWrappers v0.1.3 [46192b85] GPUArraysCore v0.2.0 [c145ed77] GenericSchur v0.5.5 [d7ba0133] Git v1.5.0 [34004b35] HypergeometricFunctions v0.3.28 [7073ff75] IJulia v1.30.3 [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 v0.2.4 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.1 [682c06a0] JSON v0.21.4 [ae98c720] Jieko v0.2.1 [aa1ae85d] JuliaInterpreter v0.10.5 [ba0b0d4f] Krylov v0.10.1 [7f56f5a3] LSODA v0.7.5 [b964fa9f] LaTeXStrings v1.4.0 [10f19ff3] LayoutPointers v0.1.17 [0e77f7df] LazilyInitializedFields v1.3.0 [5078a376] LazyArrays v2.6.2 [87fe0de2] LineSearch v0.1.4 [d3d80556] LineSearches v7.4.0 [7ed4a6bd] LinearSolve v3.39.2 [2ab3a3ac] LogExpFunctions v0.3.29 [6f1432cf] LoweredCodeUtils v3.4.3 [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 v4.10.0 [be0214bd] NonlinearSolveBase v1.14.0 [5959db7a] NonlinearSolveFirstOrder v1.7.0 [9a2c21bd] NonlinearSolveQuasiNewton v1.8.0 [26075421] NonlinearSolveSpectralMethods v1.3.0 [429524aa] Optim v1.13.2 [bac558e1] OrderedCollections v1.8.1 [1dea7af3] OrdinaryDiffEq v6.102.0 [89bda076] OrdinaryDiffEqAdamsBashforthMoulton v1.5.0 [6ad6398a] OrdinaryDiffEqBDF v1.10.1 [bbf590c4] OrdinaryDiffEqCore v1.32.0 [50262376] OrdinaryDiffEqDefault v1.8.0 [4302a76b] OrdinaryDiffEqDifferentiation v1.15.0 [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 v1.6.0 [127b3ac7] OrdinaryDiffEqNonlinearSolve v1.14.1 [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 v1.17.0 [2d112036] OrdinaryDiffEqSDIRK v1.7.0 [669c94d9] OrdinaryDiffEqSSPRK v1.6.0 [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 v2.4.0 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [3cdcf5f2] RecipesBase v1.3.4 [731186ca] RecursiveArrayTools v3.37.1 [189a3867] Reexport v1.2.2 [2792f1a3] RegistryInstances v0.1.0 [ae029012] Requires v1.3.1 [295af30f] Revise v3.9.0 [79098fc4] Rmath v0.8.0 [7e49a35a] RuntimeGeneratedFunctions v0.5.15 [94e857df] SIMDTypes v0.1.0 [0bca4576] SciMLBase v2.116.1 [19f34311] SciMLJacobianOperators v0.1.11 [c0aeaf25] SciMLOperators v1.7.1 [53ae85a6] SciMLStructures v1.7.0 [91c51154] SentinelArrays v1.4.8 [efcf1570] Setfield v1.1.2 [727e6d20] SimpleNonlinearSolve v2.7.0 [ce78b400] SimpleUnPack v1.1.0 [a2af1166] SortingAlgorithms v1.2.2 [0a514795] SparseMatrixColorings v0.4.21 [276daf66] SpecialFunctions v2.5.1 [aedffcd0] Static v1.2.0 [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 v0.3.43 [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 v1.4.1 ⌅ [68821587] Arpack_jll v3.5.1+1 [2e619515] Expat_jll v2.7.1+0 [f5851436] FFTW_jll v3.3.11+0 [020c3dae] Git_LFS_jll v3.7.0+0 [f8c6e375] Git_jll v2.51.0+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 v10.0.1+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+0 [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 v8.15.0+1 [e37daf67] LibGit2_jll v1.9.1+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.8.12 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.2+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 v5.13.1+0 [8e850ede] nghttp2_jll v1.66.0+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([0.26143664286716495, 0.13425870962314393, 2.3871180303628448, 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:1945 [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:744 [inlined] Histogram count: 6774.0 Sampling Sampling 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 1468 running 1 of 1 signal (10): User defined signal 1 checkbounds at ./essentials.jl:385 [inlined] getindex at ./essentials.jl:964 [inlined] getindex at /source/usr/share/julia/stdlib/v1.13/SparseArrays/src/sparsevector.jl:708 normalized_nullspace at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/chemical_master.jl:290 steady_state at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/chemical_master.jl:25 [inlined] steady_state at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/chemical_master.jl:22 unknown function (ip: 0x74bb42fa502a) at (unknown file) _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 predictedarray at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/likelihoods.jl:773 unknown function (ip: 0x74baf69b49c4) at (unknown file) _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 predictedarray at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/likelihoods.jl:635 predictedfn at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/likelihoods.jl:548 loglikelihood at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/likelihoods.jl:449 mhstep at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:552 unknown function (ip: 0x74baf69bd936) at (unknown file) _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 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: 0x74baf69bc946) at (unknown file) _jl_invoke at /source/src/gf.c:4001 [inlined] ijl_apply_generic at /source/src/gf.c:4198 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_rnadwelltime#190 at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/test.jl:243 test_fit_rnadwelltime at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/test.jl:237 unknown function (ip: 0x74baf699b83f) at (unknown file) _jl_invoke at /source/src/gf.c:4001 [inlined] ijl_apply_generic at /source/src/gf.c:4198 jl_apply at /source/src/julia.h:2382 [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:690 eval_body at /source/src/interpreter.c:550 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:899 jl_toplevel_eval_flex at /source/src/toplevel.c:772 jl_toplevel_eval_flex at /source/src/toplevel.c:712 ijl_toplevel_eval at /source/src/toplevel.c:784 ijl_toplevel_eval_in at /source/src/toplevel.c:829 eval at ./boot.jl:489 include_string at ./loading.jl:2865 _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 _include at ./loading.jl:2925 include at ./Base.jl:309 IncludeInto at ./Base.jl:310 jfptr_IncludeInto_58365.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 jl_apply at /source/src/julia.h:2382 [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:690 jl_interpret_toplevel_thunk at /source/src/interpreter.c:899 jl_toplevel_eval_flex at /source/src/toplevel.c:772 jl_toplevel_eval_flex at /source/src/toplevel.c:712 ijl_toplevel_eval at /source/src/toplevel.c:784 ijl_toplevel_eval_in at /source/src/toplevel.c:829 eval at ./boot.jl:489 exec_options at ./client.jl:296 _start at ./client.jl:563 jfptr__start_68106.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 jl_apply at /source/src/julia.h:2382 [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: 0x74bb44885249) 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:1200 wait_forever at ./task.jl:1137 jfptr_wait_forever_41662.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 jl_apply at /source/src/julia.h:2382 [inlined] start_task at /source/src/task.c:1253 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 0x00007274a6726ef0 Total snapshots: 454. Utilization: 0% ╎454 @Base/task.jl:1137 wait_forever() 453╎ 454 @Base/task.jl:1200 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:1200 wait_forever at ./task.jl:1137 jfptr_wait_forever_41662.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 jl_apply at /source/src/julia.h:2382 [inlined] start_task at /source/src/task.c:1253 unknown function (ip: (nil)) at (unknown file) Allocations: 31260307 (Pool: 31259334; Big: 973); GC: 41 [1468] signal 15: Terminated in expression starting at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/test/runtests.jl:11 unknown function (ip: 0x74bb449b0b00) at /lib/x86_64-linux-gnu/libc.so.6 memmove at ./cmem.jl:28 [inlined] unsafe_copyto! at ./genericmemory.jl:125 [inlined] _copyto_impl! at ./array.jl:307 [inlined] copyto! at ./array.jl:298 [inlined] getindex at ./array.jl:948 [inlined] normalized_nullspace at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/chemical_master.jl:290 steady_state at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/chemical_master.jl:25 [inlined] steady_state at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/chemical_master.jl:22 unknown function (ip: 0x74bb42fa502a) at (unknown file) _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 predictedarray at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/likelihoods.jl:773 unknown function (ip: 0x74baf69b49c4) at (unknown file) _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 predictedarray at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/likelihoods.jl:635 predictedfn at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/likelihoods.jl:548 loglikelihood at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/likelihoods.jl:449 mhstep at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/metropolis_hastings.jl:552 unknown function (ip: 0x74baf69bd936) at (unknown file) _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 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: 0x74baf69bc946) at (unknown file) _jl_invoke at /source/src/gf.c:4001 [inlined] ijl_apply_generic at /source/src/gf.c:4198 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_rnadwelltime#190 at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/test.jl:243 test_fit_rnadwelltime at /home/pkgeval/.julia/packages/StochasticGene/iWmSF/src/test.jl:237 unknown function (ip: 0x74baf699b83f) at (unknown file) _jl_invoke at /source/src/gf.c:4001 [inlined] ijl_apply_generic at /source/src/gf.c:4198 jl_apply at /source/src/julia.h:2382 [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:690 eval_body at /source/src/interpreter.c:550 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:899 jl_toplevel_eval_flex at /source/src/toplevel.c:772 jl_toplevel_eval_flex at /source/src/toplevel.c:712 ijl_toplevel_eval at /source/src/toplevel.c:784 ijl_toplevel_eval_in at /source/src/toplevel.c:829 eval at ./boot.jl:489 include_string at ./loading.jl:2865 _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 _include at ./loading.jl:2925 include at ./Base.jl:309 IncludeInto at ./Base.jl:310 jfptr_IncludeInto_58365.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 jl_apply at /source/src/julia.h:2382 [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:690 jl_interpret_toplevel_thunk at /source/src/interpreter.c:899 jl_toplevel_eval_flex at /source/src/toplevel.c:772 jl_toplevel_eval_flex at /source/src/toplevel.c:712 ijl_toplevel_eval at /source/src/toplevel.c:784 ijl_toplevel_eval_in at /source/src/toplevel.c:829 eval at ./boot.jl:489 exec_options at ./client.jl:296 _start at ./client.jl:563 jfptr__start_68106.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3985 [inlined] ijl_apply_generic at /source/src/gf.c:4198 jl_apply at /source/src/julia.h:2382 [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: 0x74bb44885249) 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: 2988879900 (Pool: 2988879010; Big: 890); GC: 4046 PkgEval terminated after 2722.82s: test duration exceeded the time limit