Package evaluation of StochasticGene on Julia 1.13.0-DEV.680 (905a44b8ef*) started at 2025-06-02T04:39:58.080 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 9.64s ################################################################################ # Installation # Installing StochasticGene... Resolving package versions... Installed MKL_jll ───────────────────────────── v2025.0.1+1 Installed SIMDTypes ─────────────────────────── v0.1.0 Installed InlineStrings ─────────────────────── v1.4.3 Installed OrderedCollections ────────────────── v1.8.1 Installed MultivariateStats ─────────────────── v0.10.3 Installed OrdinaryDiffEqRosenbrock ──────────── v1.10.1 Installed EnzymeCore ────────────────────────── v0.8.10 Installed NonlinearSolveSpectralMethods ─────── v1.2.0 Installed OrdinaryDiffEqFIRK ────────────────── v1.12.0 Installed CpuId ─────────────────────────────── v0.3.1 Installed SentinelArrays ────────────────────── v1.4.8 Installed CommonWorldInvalidations ──────────── v1.0.0 Installed FastPower ─────────────────────────── v1.1.2 Installed QuadGK ────────────────────────────── v2.11.2 Installed NaNMath ───────────────────────────── v1.1.3 Installed OrdinaryDiffEqExponentialRK ───────── v1.4.0 Installed PreallocationTools ────────────────── v0.4.27 Installed OpenSpecFun_jll ───────────────────── v0.5.6+0 Installed Optim ─────────────────────────────── v1.12.0 Installed OrdinaryDiffEqQPRK ────────────────── v1.1.0 Installed StaticArrayInterface ──────────────── v1.8.0 Installed FastBroadcast ─────────────────────── v0.3.5 Installed NonlinearSolveBase ────────────────── v1.12.0 Installed Tables ────────────────────────────── v1.12.0 Installed Revise ────────────────────────────── v3.8.0 Installed EnumX ─────────────────────────────── v1.0.5 Installed LinearSolve ───────────────────────── v3.16.0 Installed NLSolversBase ─────────────────────── v7.9.1 Installed OrdinaryDiffEqLowOrderRK ──────────── v1.2.0 Installed LoweredCodeUtils ──────────────────── v3.3.0 Installed Reexport ──────────────────────────── v1.2.2 Installed Jieko ─────────────────────────────── v0.2.1 Installed InverseFunctions ──────────────────── v0.1.17 Installed DiffEqBase ────────────────────────── v6.175.0 Installed Arpack ────────────────────────────── v0.5.4 Installed BracketingNonlinearSolve ──────────── v1.3.0 Installed Static ────────────────────────────── v1.2.0 Installed Preferences ───────────────────────── v1.4.3 Installed TableTraits ───────────────────────── v1.0.1 Installed MaybeInplace ──────────────────────── v0.1.4 Installed NonlinearSolve ────────────────────── v4.9.0 Installed LaTeXStrings ──────────────────────── v1.4.0 Installed SortingAlgorithms ─────────────────── v1.2.1 Installed Crayons ───────────────────────────── v4.1.1 Installed UnPack ────────────────────────────── v1.0.2 Installed RecursiveArrayTools ───────────────── v3.33.0 Installed ADTypes ───────────────────────────── v1.14.0 Installed OrdinaryDiffEqNordsieck ───────────── v1.1.0 Installed OrdinaryDiffEqAdamsBashforthMoulton ─ v1.2.0 Installed Missings ──────────────────────────── v1.2.0 Installed DiffResults ───────────────────────── v1.1.0 Installed MacroTools ────────────────────────── v0.5.16 Installed DataStructures ────────────────────── v0.18.22 Installed GenericSchur ──────────────────────── v0.5.5 Installed OrdinaryDiffEqLinear ──────────────── v1.3.0 Installed ManualMemory ──────────────────────── v0.1.8 Installed FillArrays ────────────────────────── v1.13.0 Installed SparseMatrixColorings ─────────────── v0.4.20 Installed oneTBB_jll ────────────────────────── v2022.0.0+0 Installed CodecZlib ─────────────────────────── v0.7.8 Installed DelimitedFiles ────────────────────── v1.9.1 Installed ExprTools ─────────────────────────── v0.1.10 Installed SciMLJacobianOperators ────────────── v0.1.6 Installed IntelOpenMP_jll ───────────────────── v2025.0.4+0 Installed StatsBase ─────────────────────────── v0.34.5 Installed DataValueInterfaces ───────────────── v1.0.0 Installed ArrayInterface ────────────────────── v7.19.0 Installed LayoutPointers ────────────────────── v0.1.17 Installed CommonSubexpressions ──────────────── v0.3.1 Installed ConcreteStructs ───────────────────── v0.2.3 Installed TruncatedStacktraces ──────────────── v1.4.0 Installed IrrationalConstants ───────────────── v0.2.4 Installed OrdinaryDiffEqStabilizedIRK ───────── v1.3.0 Installed OrdinaryDiffEqExtrapolation ───────── v1.5.0 Installed ArrayLayouts ──────────────────────── v1.11.1 Installed Setfield ──────────────────────────── v1.1.2 Installed GPUArraysCore ─────────────────────── v0.2.0 Installed PooledArrays ──────────────────────── v1.4.3 Installed OrdinaryDiffEqPRK ─────────────────── v1.1.0 Installed WorkerUtilities ───────────────────── v1.6.1 Installed NonlinearSolveQuasiNewton ─────────── v1.6.0 Installed LSODA_jll ─────────────────────────── v0.1.2+0 Installed PDMats ────────────────────────────── v0.11.35 Installed OrdinaryDiffEqRKN ─────────────────── v1.1.0 Installed Moshi ─────────────────────────────── v0.3.5 Installed OrdinaryDiffEqHighOrderRK ─────────── v1.1.0 Installed CompositionsBase ──────────────────── v0.1.2 Installed DocStringExtensions ───────────────── v0.9.4 Installed CommonSolve ───────────────────────── v0.2.4 Installed ZMQ ───────────────────────────────── v1.4.0 Installed VersionParsing ────────────────────── v1.3.0 Installed Rmath_jll ─────────────────────────── v0.5.1+0 Installed ForwardDiff ───────────────────────── v1.0.1 Installed DifferentiationInterface ──────────── v0.6.54 Installed SimpleUnPack ──────────────────────── v1.1.0 Installed BitTwiddlingConvenienceFunctions ──── v0.1.6 Installed AliasTables ───────────────────────── v1.1.3 Installed LineSearch ────────────────────────── v0.1.4 Installed RecipesBase ───────────────────────── v1.3.4 Installed IteratorInterfaceExtensions ───────── v1.0.0 Installed FunctionWrappersWrappers ──────────── v0.1.3 Installed Krylov ────────────────────────────── v0.10.1 Installed InvertedIndices ───────────────────── v1.3.1 Installed SciMLOperators ────────────────────── v1.3.0 Installed DataAPI ───────────────────────────── v1.16.0 Installed OrdinaryDiffEqStabilizedRK ────────── v1.1.0 Installed OrdinaryDiffEqBDF ─────────────────── v1.5.1 Installed OrdinaryDiffEqSymplecticRK ────────── v1.3.0 Installed Conda ─────────────────────────────── v1.10.2 Installed SciMLStructures ───────────────────── v1.7.0 Installed OrdinaryDiffEq ────────────────────── v6.98.0 Installed OrdinaryDiffEqLowStorageRK ────────── v1.3.0 Installed AbstractFFTs ──────────────────────── v1.5.0 Installed CodeTracking ──────────────────────── v1.3.9 Installed StringManipulation ────────────────── v0.4.1 Installed Requires ──────────────────────────── v1.3.1 Installed FastGaussQuadrature ───────────────── v1.0.2 Installed StaticArrays ──────────────────────── v1.9.13 Installed StaticArraysCore ──────────────────── v1.4.3 Installed LSODA ─────────────────────────────── v0.7.5 Installed FunctionWrappers ──────────────────── v1.1.3 Installed PrettyTables ──────────────────────── v2.4.0 Installed LogExpFunctions ───────────────────── v0.3.29 Installed OrdinaryDiffEqDifferentiation ─────── v1.9.1 Installed OrdinaryDiffEqNonlinearSolve ──────── v1.10.0 Installed DiffRules ─────────────────────────── v1.15.1 Installed OrdinaryDiffEqCore ────────────────── v1.26.0 Installed Parsers ───────────────────────────── v2.8.3 Installed NonlinearSolveFirstOrder ──────────── v1.5.0 Installed JSON ──────────────────────────────── v0.21.4 Installed JuliaInterpreter ──────────────────── v0.10.3 Installed CSV ───────────────────────────────── v0.10.15 Installed Rmath ─────────────────────────────── v0.8.0 Installed OrdinaryDiffEqExplicitRK ──────────── v1.1.0 Installed Arpack_jll ────────────────────────── v3.5.1+1 Installed FastClosures ──────────────────────── v0.3.2 Installed FiniteDiff ────────────────────────── v2.27.0 Installed SciMLBase ─────────────────────────── v2.96.0 Installed Distributions ─────────────────────── v0.25.120 Installed libsodium_jll ─────────────────────── v1.0.21+0 Installed CloseOpenIntervals ────────────────── v0.1.13 Installed IJulia ────────────────────────────── v1.27.0 Installed ZeroMQ_jll ────────────────────────── v4.3.6+0 Installed OrdinaryDiffEqIMEXMultistep ───────── v1.3.0 Installed WeakRefStrings ────────────────────── v1.4.2 Installed JLLWrappers ───────────────────────── v1.7.0 Installed OrdinaryDiffEqFeagin ──────────────── v1.1.0 Installed OrdinaryDiffEqSSPRK ───────────────── v1.3.0 Installed OrdinaryDiffEqPDIRK ───────────────── v1.3.1 Installed ThreadingUtilities ────────────────── v0.5.4 Installed Polyester ─────────────────────────── v0.7.18 Installed StatsFuns ─────────────────────────── v1.5.0 Installed OrdinaryDiffEqDefault ─────────────── v1.4.0 Installed Accessors ─────────────────────────── v0.1.42 Installed FilePathsBase ─────────────────────── v0.9.24 Installed DataFrames ────────────────────────── v1.7.0 Installed Adapt ─────────────────────────────── v4.3.0 Installed OrdinaryDiffEqVerner ──────────────── v1.2.0 Installed ExponentialUtilities ──────────────── v1.27.0 Installed ConstructionBase ──────────────────── v1.5.8 Installed RuntimeGeneratedFunctions ─────────── v0.5.15 Installed HypergeometricFunctions ───────────── v0.3.28 Installed OrdinaryDiffEqSDIRK ───────────────── v1.3.0 Installed PositiveFactorizations ────────────── v0.2.4 Installed StrideArraysCore ──────────────────── v0.5.7 Installed Statistics ────────────────────────── v1.11.1 Installed TranscodingStreams ────────────────── v0.11.3 Installed Compat ────────────────────────────── v4.16.0 Installed SymbolicIndexingInterface ─────────── v0.3.40 Installed StatsAPI ──────────────────────────── v1.7.1 Installed LazyArrays ────────────────────────── v2.6.1 Installed PrecompileTools ───────────────────── v1.3.2 Installed ExproniconLite ────────────────────── v0.10.14 Installed TimerOutputs ──────────────────────── v0.5.29 Installed MbedTLS ───────────────────────────── v1.1.9 Installed CPUSummary ────────────────────────── v0.2.6 Installed MuladdMacro ───────────────────────── v0.2.4 Installed PtrArrays ─────────────────────────── v1.3.0 Installed SimpleNonlinearSolve ──────────────── v2.5.0 Installed SpecialFunctions ──────────────────── v2.5.1 Installed StochasticGene ────────────────────── v1.5.9 Installed Parameters ────────────────────────── v0.12.3 Installed IfElse ────────────────────────────── v0.1.1 Installed MbedTLS_jll ───────────────────────── v2.28.6+2 Installed FFTW ──────────────────────────────── v1.8.1 Installed LineSearches ──────────────────────── v7.3.0 Installed ChainRulesCore ────────────────────── v1.25.1 Installed SoftGlobalScope ───────────────────── v1.1.0 Installed OrdinaryDiffEqTsit5 ───────────────── v1.1.0 Installed FFTW_jll ──────────────────────────── v3.3.11+0 Installed PolyesterWeave ────────────────────── v0.2.2 Installed OrdinaryDiffEqFunctionMap ─────────── v1.1.1 Installing 9 artifacts Installed artifact Arpack 147.2 KiB Installed artifact ZeroMQ 316.1 KiB Installed artifact Rmath 121.9 KiB Installed artifact LSODA 24.9 KiB Installed artifact oneTBB 435.6 KiB Installed artifact MbedTLS 2.1 MiB Installed artifact FFTW 2.2 MiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact libsodium 1.6 MiB Updating `~/.julia/environments/v1.13/Project.toml` [a2598c62] + StochasticGene v1.5.9 Updating `~/.julia/environments/v1.13/Manifest.toml` [47edcb42] + ADTypes v1.14.0 [621f4979] + AbstractFFTs v1.5.0 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.3.0 [66dad0bd] + AliasTables v1.1.3 [7d9fca2a] + Arpack v0.5.4 [4fba245c] + ArrayInterface v7.19.0 [4c555306] + ArrayLayouts v1.11.1 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [70df07ce] + BracketingNonlinearSolve v1.3.0 [2a0fbf3d] + CPUSummary v0.2.6 [336ed68f] + CSV v0.10.15 [d360d2e6] + ChainRulesCore v1.25.1 [fb6a15b2] + CloseOpenIntervals v0.1.13 [da1fd8a2] + CodeTracking v1.3.9 [944b1d66] + CodecZlib v0.7.8 [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 [8f4d0f93] + Conda v1.10.2 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FunctionWrappersWrappers v0.1.3 [46192b85] + GPUArraysCore v0.2.0 [c145ed77] + GenericSchur v0.5.5 [34004b35] + HypergeometricFunctions v0.3.28 [7073ff75] + IJulia v1.27.0 [615f187c] + IfElse v0.1.1 [842dd82b] + InlineStrings v1.4.3 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.0 [682c06a0] + JSON v0.21.4 [ae98c720] + Jieko v0.2.1 [aa1ae85d] + JuliaInterpreter v0.10.3 [ba0b0d4f] + Krylov v0.10.1 [7f56f5a3] + LSODA v0.7.5 [b964fa9f] + LaTeXStrings v1.4.0 [10f19ff3] + LayoutPointers v0.1.17 [5078a376] + LazyArrays v2.6.1 [87fe0de2] + LineSearch v0.1.4 [d3d80556] + LineSearches v7.3.0 [7ed4a6bd] + LinearSolve v3.16.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [6f1432cf] + LoweredCodeUtils v3.3.0 [1914dd2f] + MacroTools v0.5.16 [d125e4d3] + ManualMemory v0.1.8 [bb5d69b7] + MaybeInplace v0.1.4 [739be429] + MbedTLS v1.1.9 [e1d29d7a] + Missings v1.2.0 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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 v1.12.0 [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 v1.12.0 [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 v8.12.1+1 [e37daf67] + LibGit2_jll v1.9.0+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.5.20 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.5+0 [458c3c95] + OpenSSL_jll v3.5.0+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.12.0+0 [8e850ede] + nghttp2_jll v1.65.0+0 [3f19e933] + p7zip_jll v17.5.0+2 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/be30be76e25b0aff2c9a85930ed3ac34c5f10c83/build.log` Installation completed after 70.33s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 4823.4 ms ✓ TestEnv 1 dependency successfully precompiled in 5 seconds. 25 already precompiled. Precompiling package dependencies... ERROR: LoadError: The following 1 direct dependency failed to precompile: IJulia Failed to precompile IJulia [7073ff75-c697-5162-941a-fcdaad2a7d2a] to "/home/pkgeval/.julia/compiled/v1.13/IJulia/jl_J3ngZu" (ProcessExited(1)). ERROR: LoadError: ZMQ.StateError("Cannot assign requested address") Stacktrace: [1] bind(socket::ZMQ.Socket, endpoint::String) @ ZMQ ~/.julia/packages/ZMQ/Lz9O7/src/socket.jl:91 [2] top-level scope @ ~/.julia/packages/ZMQ/Lz9O7/src/ZMQ.jl:85 [3] macro expansion @ ~/.julia/packages/PrecompileTools/Z8SWe/src/workloads.jl:73 [inlined] [4] macro expansion @ ~/.julia/packages/ZMQ/Lz9O7/src/ZMQ.jl:73 [inlined] [5] include(mod::Module, _path::String) @ Base ./Base.jl:309 [6] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::String) @ Base ./loading.jl:3000 [7] top-level scope @ stdin:5 [8] eval(m::Module, e::Any) @ Core ./boot.jl:489 [9] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2846 [10] include_string @ ./loading.jl:2856 [inlined] [11] exec_options(opts::Base.JLOptions) @ Base ./client.jl:322 [12] _start() @ Base ./client.jl:557 in expression starting at /home/pkgeval/.julia/packages/ZMQ/Lz9O7/src/ZMQ.jl:3 in expression starting at stdin:5 ERROR: LoadError: Failed to precompile ZMQ [c2297ded-f4af-51ae-bb23-16f91089e4e1] to "/home/pkgeval/.julia/compiled/v1.13/ZMQ/jl_sZxDz5" (ProcessExited(1)). Stacktrace: [1] error(s::String) @ Base ./error.jl:44 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing) @ Base ./loading.jl:3287 [3] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId})() @ Base ./loading.jl:2652 [4] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94 [5] #mkpidlock#7 @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined] [6] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115 [7] apply_gr_kw(::NamedTuple, ::GlobalRef, ::Any, ::Vararg{Any}) @ Base ./reflection.jl:1273 [8] #invokelatest_gr#232 @ ./reflection.jl:1281 [inlined] [9] invokelatest_gr @ ./reflection.jl:1275 [inlined] [10] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId}, pkg::Base.PkgId, srcpath::String; stale_age::Int64) @ Base ./loading.jl:3858 [11] maybe_cachefile_lock @ ./loading.jl:3855 [inlined] [12] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2638 [13] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2466 [14] macro expansion @ ./loading.jl:2394 [inlined] [15] macro expansion @ ./lock.jl:376 [inlined] [16] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2359 [17] require @ ./loading.jl:2335 [inlined] [18] eval_import_path @ ./module.jl:36 [inlined] [19] eval_import_path_all(at::Module, path::Expr, keyword::String) @ Base ./module.jl:60 [20] _eval_using(to::Module, path::Expr) @ Base ./module.jl:137 [21] top-level scope @ ~/.julia/packages/IJulia/XF6bn/src/IJulia.jl:36 [22] include(mod::Module, _path::String) @ Base ./Base.jl:309 [23] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing) @ Base ./loading.jl:3000 [24] top-level scope @ stdin:5 [25] eval(m::Module, e::Any) @ Core ./boot.jl:489 [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2846 [27] include_string @ ./loading.jl:2856 [inlined] [28] exec_options(opts::Base.JLOptions) @ Base ./client.jl:322 [29] _start() @ Base ./client.jl:557 in expression starting at /home/pkgeval/.julia/packages/IJulia/XF6bn/src/IJulia.jl:1 in expression starting at stdin: in expression starting at /PkgEval.jl/scripts/precompile.jl:37 Precompilation failed after 1924.83s ################################################################################ # Testing # Testing StochasticGene Status `/tmp/jl_xougBO/Project.toml` [336ed68f] CSV v0.10.15 [a93c6f00] DataFrames v1.7.0 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.120 [7a1cc6ca] FFTW v1.8.1 [7073ff75] IJulia v1.27.0 [682c06a0] JSON v0.21.4 [7f56f5a3] LSODA v0.7.5 [6f286f6a] MultivariateStats v0.10.3 [429524aa] Optim v1.12.0 [1dea7af3] OrdinaryDiffEq v6.98.0 [295af30f] Revise v3.8.0 [10745b16] Statistics v1.11.1 [2913bbd2] StatsBase v0.34.5 [a2598c62] StochasticGene v1.5.9 [ade2ca70] Dates v1.11.0 [8ba89e20] Distributed v1.11.0 [f43a241f] Downloads v1.7.0 [37e2e46d] LinearAlgebra v1.12.0 [2f01184e] SparseArrays v1.12.0 [f489334b] StyledStrings v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_xougBO/Manifest.toml` [47edcb42] ADTypes v1.14.0 [621f4979] AbstractFFTs v1.5.0 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.3.0 [66dad0bd] AliasTables v1.1.3 [7d9fca2a] Arpack v0.5.4 [4fba245c] ArrayInterface v7.19.0 [4c555306] ArrayLayouts v1.11.1 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [70df07ce] BracketingNonlinearSolve v1.3.0 [2a0fbf3d] CPUSummary v0.2.6 [336ed68f] CSV v0.10.15 [d360d2e6] ChainRulesCore v1.25.1 [fb6a15b2] CloseOpenIntervals v0.1.13 [da1fd8a2] CodeTracking v1.3.9 [944b1d66] CodecZlib v0.7.8 [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 [8f4d0f93] Conda v1.10.2 [187b0558] ConstructionBase v1.5.8 [adafc99b] CpuId v0.3.1 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.7.0 [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [2b5f629d] DiffEqBase v6.175.0 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 ⌅ [a0c0ee7d] DifferentiationInterface v0.6.54 [31c24e10] Distributions v0.25.120 [ffbed154] DocStringExtensions v0.9.4 [4e289a0a] EnumX v1.0.5 [f151be2c] EnzymeCore v0.8.10 [d4d017d3] ExponentialUtilities v1.27.0 [e2ba6199] ExprTools v0.1.10 [55351af7] ExproniconLite v0.10.14 [7a1cc6ca] FFTW v1.8.1 [7034ab61] FastBroadcast v0.3.5 [9aa1b823] FastClosures v0.3.2 [442a2c76] FastGaussQuadrature v1.0.2 [a4df4552] FastPower v1.1.2 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.13.0 [6a86dc24] FiniteDiff v2.27.0 [f6369f11] ForwardDiff v1.0.1 [069b7b12] FunctionWrappers v1.1.3 [77dc65aa] FunctionWrappersWrappers v0.1.3 [46192b85] GPUArraysCore v0.2.0 [c145ed77] GenericSchur v0.5.5 [34004b35] HypergeometricFunctions v0.3.28 [7073ff75] IJulia v1.27.0 [615f187c] IfElse v0.1.1 [842dd82b] InlineStrings v1.4.3 [3587e190] InverseFunctions v0.1.17 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.4 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.0 [682c06a0] JSON v0.21.4 [ae98c720] Jieko v0.2.1 [aa1ae85d] JuliaInterpreter v0.10.3 [ba0b0d4f] Krylov v0.10.1 [7f56f5a3] LSODA v0.7.5 [b964fa9f] LaTeXStrings v1.4.0 [10f19ff3] LayoutPointers v0.1.17 [5078a376] LazyArrays v2.6.1 [87fe0de2] LineSearch v0.1.4 [d3d80556] LineSearches v7.3.0 [7ed4a6bd] LinearSolve v3.16.0 [2ab3a3ac] LogExpFunctions v0.3.29 [6f1432cf] LoweredCodeUtils v3.3.0 [1914dd2f] MacroTools v0.5.16 [d125e4d3] ManualMemory v0.1.8 [bb5d69b7] MaybeInplace v0.1.4 [739be429] MbedTLS v1.1.9 [e1d29d7a] Missings v1.2.0 [2e0e35c7] Moshi v0.3.5 [46d2c3a1] MuladdMacro v0.2.4 [6f286f6a] MultivariateStats v0.10.3 [d41bc354] NLSolversBase v7.9.1 [77ba4419] NaNMath v1.1.3 [8913a72c] NonlinearSolve v4.9.0 [be0214bd] NonlinearSolveBase v1.12.0 [5959db7a] NonlinearSolveFirstOrder v1.5.0 [9a2c21bd] NonlinearSolveQuasiNewton v1.6.0 [26075421] NonlinearSolveSpectralMethods v1.2.0 [429524aa] Optim v1.12.0 [bac558e1] OrderedCollections v1.8.1 [1dea7af3] OrdinaryDiffEq v6.98.0 [89bda076] OrdinaryDiffEqAdamsBashforthMoulton v1.2.0 [6ad6398a] OrdinaryDiffEqBDF v1.5.1 [bbf590c4] OrdinaryDiffEqCore v1.26.0 [50262376] OrdinaryDiffEqDefault v1.4.0 [4302a76b] OrdinaryDiffEqDifferentiation v1.9.1 [9286f039] OrdinaryDiffEqExplicitRK v1.1.0 [e0540318] OrdinaryDiffEqExponentialRK v1.4.0 [becaefa8] OrdinaryDiffEqExtrapolation v1.5.0 [5960d6e9] OrdinaryDiffEqFIRK v1.12.0 [101fe9f7] OrdinaryDiffEqFeagin v1.1.0 [d3585ca7] OrdinaryDiffEqFunctionMap v1.1.1 [d28bc4f8] OrdinaryDiffEqHighOrderRK v1.1.0 [9f002381] OrdinaryDiffEqIMEXMultistep v1.3.0 [521117fe] OrdinaryDiffEqLinear v1.3.0 [1344f307] OrdinaryDiffEqLowOrderRK v1.2.0 [b0944070] OrdinaryDiffEqLowStorageRK v1.3.0 [127b3ac7] OrdinaryDiffEqNonlinearSolve v1.10.0 [c9986a66] OrdinaryDiffEqNordsieck v1.1.0 [5dd0a6cf] OrdinaryDiffEqPDIRK v1.3.1 [5b33eab2] OrdinaryDiffEqPRK v1.1.0 [04162be5] OrdinaryDiffEqQPRK v1.1.0 [af6ede74] OrdinaryDiffEqRKN v1.1.0 [43230ef6] OrdinaryDiffEqRosenbrock v1.10.1 [2d112036] OrdinaryDiffEqSDIRK v1.3.0 [669c94d9] OrdinaryDiffEqSSPRK v1.3.0 [e3e12d00] OrdinaryDiffEqStabilizedIRK v1.3.0 [358294b1] OrdinaryDiffEqStabilizedRK v1.1.0 [fa646aed] OrdinaryDiffEqSymplecticRK v1.3.0 [b1df2697] OrdinaryDiffEqTsit5 v1.1.0 [79d7bb75] OrdinaryDiffEqVerner v1.2.0 [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 v0.4.27 [aea7be01] PrecompileTools v1.3.2 [21216c6a] Preferences v1.4.3 [08abe8d2] PrettyTables v2.4.0 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [3cdcf5f2] RecipesBase v1.3.4 [731186ca] RecursiveArrayTools v3.33.0 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [295af30f] Revise v3.8.0 [79098fc4] Rmath v0.8.0 [7e49a35a] RuntimeGeneratedFunctions v0.5.15 [94e857df] SIMDTypes v0.1.0 [0bca4576] SciMLBase v2.96.0 [19f34311] SciMLJacobianOperators v0.1.6 [c0aeaf25] SciMLOperators v1.3.0 [53ae85a6] SciMLStructures v1.7.0 [91c51154] SentinelArrays v1.4.8 [efcf1570] Setfield v1.1.2 [727e6d20] SimpleNonlinearSolve v2.5.0 [ce78b400] SimpleUnPack v1.1.0 [b85f4697] SoftGlobalScope v1.1.0 [a2af1166] SortingAlgorithms v1.2.1 [0a514795] SparseMatrixColorings v0.4.20 [276daf66] SpecialFunctions v2.5.1 [aedffcd0] Static v1.2.0 [0d7ed370] StaticArrayInterface v1.8.0 [90137ffa] StaticArrays v1.9.13 [1e83bf80] StaticArraysCore v1.4.3 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.1 [2913bbd2] StatsBase v0.34.5 [4c63d2b9] StatsFuns v1.5.0 [a2598c62] StochasticGene v1.5.9 [7792a7ef] StrideArraysCore v0.5.7 [892a3eda] StringManipulation v0.4.1 [2efcf032] SymbolicIndexingInterface v0.3.40 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.0 [8290d209] ThreadingUtilities v0.5.4 [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 v1.4.0 ⌅ [68821587] Arpack_jll v3.5.1+1 [f5851436] FFTW_jll v3.3.11+0 [1d5cc7b8] IntelOpenMP_jll v2025.0.4+0 [aae0fff6] LSODA_jll v0.1.2+0 [856f044c] MKL_jll v2025.0.1+1 [c8ffd9c3] MbedTLS_jll v2.28.6+2 [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 v1.12.0 [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 v1.12.0 [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 v8.12.1+1 [e37daf67] LibGit2_jll v1.9.0+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.5.20 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.5+0 [458c3c95] OpenSSL_jll v3.5.0+0 [bea87d4a] SuiteSparse_jll v7.10.1+0 [83775a58] Zlib_jll v1.3.1+2 [8e850b90] libblastrampoline_jll v5.12.0+0 [8e850ede] nghttp2_jll v1.65.0+0 [3f19e933] p7zip_jll v17.5.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in initialize_task(Any) at /home/pkgeval/.julia/packages/ThreadingUtilities/AsFET/src/ThreadingUtilities.jl Sampling Histogram count: 6774.0 Sampling Sampling Sampling ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 1388 running 1 of 2 signal (10): User defined signal 1 unknown function (ip: 0x7ca2e2ff3f14) at /lib/x86_64-linux-gnu/libc.so.6 pthread_cond_wait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv_cond_wait at /workspace/srcdir/libuv/src/unix/thread.c:822 ijl_task_get_next at /source/src/scheduler.c:523 wait at ./task.jl:1213 wait_forever at ./task.jl:1150 jfptr_wait_forever_69872.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 jl_apply at /source/src/julia.h:2341 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) checkbounds at ./abstractarray.jl:697 [inlined] getindex at ./subarray.jl:338 [inlined] searchsortedfirst at ./sort.jl:192 [inlined] searchsortedfirst at ./sort.jl:308 [inlined] #searchsortedfirst#5 at ./sort.jl:310 [inlined] searchsortedfirst at ./sort.jl:310 [inlined] getindex at /source/usr/share/julia/stdlib/v1.13/SparseArrays/src/sparsevector.jl:712 normalized_nullspace at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/chemical_master.jl:290 steady_state at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/chemical_master.jl:25 [inlined] steady_state at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/chemical_master.jl:22 unknown function (ip: 0x7ca2e1ae17fa) at (unknown file) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 predictedarray at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/likelihoods.jl:773 unknown function (ip: 0x7ca2b03a04f4) at (unknown file) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 predictedarray at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/likelihoods.jl:635 predictedfn at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/likelihoods.jl:548 loglikelihood at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/likelihoods.jl:449 mhstep at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/metropolis_hastings.jl:519 unknown function (ip: 0x7ca2b03a7996) at (unknown file) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 sample at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/metropolis_hastings.jl:426 sample at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/metropolis_hastings.jl:417 unknown function (ip: 0x7ca2b03a4d16) at (unknown file) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 metropolis_hastings at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/metropolis_hastings.jl:312 run_mh at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/metropolis_hastings.jl:128 [inlined] run_mh at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/metropolis_hastings.jl:151 #test_fit_rnadwelltime#169 at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/test.jl:243 test_fit_rnadwelltime at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/test.jl:237 unknown function (ip: 0x7ca2b037580f) at (unknown file) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 jl_apply at /source/src/julia.h:2341 [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:708 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:773 jl_toplevel_eval_flex at /source/src/toplevel.c:713 ijl_toplevel_eval at /source/src/toplevel.c:785 ijl_toplevel_eval_in at /source/src/toplevel.c:830 eval at ./boot.jl:489 include_string at ./loading.jl:2846 _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 _include at ./loading.jl:2906 include at ./Base.jl:310 IncludeInto at ./Base.jl:311 jfptr_IncludeInto_59934.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 jl_apply at /source/src/julia.h:2341 [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:708 jl_interpret_toplevel_thunk at /source/src/interpreter.c:899 jl_toplevel_eval_flex at /source/src/toplevel.c:773 jl_toplevel_eval_flex at /source/src/toplevel.c:713 ijl_toplevel_eval at /source/src/toplevel.c:785 ijl_toplevel_eval_in at /source/src/toplevel.c:830 eval at ./boot.jl:489 exec_options at ./client.jl:290 _start at ./client.jl:557 jfptr__start_55863.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 jl_apply at /source/src/julia.h:2341 [inlined] true_main at /source/src/jlapi.c:964 jl_repl_entrypoint at /source/src/jlapi.c:1132 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x7ca2e2f95249) 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 ============================================================== ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 1 running 0 of 2 signal (10): User defined signal 1 unknown function (ip: 0x7001b6555f14) at /lib/x86_64-linux-gnu/libc.so.6 pthread_cond_wait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv_cond_wait at /workspace/srcdir/libuv/src/unix/thread.c:822 ijl_task_get_next at /source/src/scheduler.c:523 wait at ./task.jl:1213 wait_forever at ./task.jl:1150 jfptr_wait_forever_69872.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 jl_apply at /source/src/julia.h:2341 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) 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:1213 wait_forever at ./task.jl:1150 jfptr_wait_forever_69872.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 jl_apply at /source/src/julia.h:2341 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) ============================================================== Profile collected. A report will print at the next yield point ============================================================== ┌ 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 (interactive) Task 0x000070019f71f2b0 Total snapshots: 227. Utilization: 0% ╎227 @Base/task.jl:1150 wait_forever() 226╎ 227 @Base/task.jl:1213 wait() Thread 2 (default) Task 0x000070019fdfc100 Total snapshots: 227. Utilization: 0% ╎227 @Base/task.jl:1150 wait_forever() 226╎ 227 @Base/task.jl:1213 wait() [1388] signal 15: Terminated in expression starting at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/test/runtests.jl:11 unknown function (ip: 0x7ca2e2ff3f14) at /lib/x86_64-linux-gnu/libc.so.6 pthread_cond_wait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv_cond_wait at /workspace/srcdir/libuv/src/unix/thread.c:822 ijl_task_get_next at /source/src/scheduler.c:523 wait at ./task.jl:1213 wait_forever at ./task.jl:1150 jfptr_wait_forever_69872.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 jl_apply at /source/src/julia.h:2341 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) getindex at /source/usr/share/julia/stdlib/v1.13/SparseArrays/src/sparsevector.jl:0 normalized_nullspace at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/chemical_master.jl:290 steady_state at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/chemical_master.jl:25 [inlined] steady_state at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/chemical_master.jl:22 unknown function (ip: 0x7ca2e1ae17fa) at (unknown file) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 predictedarray at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/likelihoods.jl:773 unknown function (ip: 0x7ca2b03a04f4) at (unknown file) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 predictedarray at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/likelihoods.jl:635 predictedfn at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/likelihoods.jl:548 loglikelihood at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/likelihoods.jl:449 mhstep at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/metropolis_hastings.jl:519 unknown function (ip: 0x7ca2b03a7996) at (unknown file) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 sample at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/metropolis_hastings.jl:426 sample at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/metropolis_hastings.jl:417 unknown function (ip: 0x7ca2b03a4d16) at (unknown file) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 metropolis_hastings at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/metropolis_hastings.jl:312 run_mh at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/metropolis_hastings.jl:128 [inlined] run_mh at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/metropolis_hastings.jl:151 #test_fit_rnadwelltime#169 at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/test.jl:243 test_fit_rnadwelltime at /home/pkgeval/.julia/packages/StochasticGene/0RXYN/src/test.jl:237 unknown function (ip: 0x7ca2b037580f) at (unknown file) _jl_invoke at /source/src/gf.c:3611 [inlined] ijl_apply_generic at /source/src/gf.c:3811 jl_apply at /source/src/julia.h:2341 [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:708 eval_body at /source/src/interpreter.c:558 eval_body at /source/src/interpreter.c:558 PkgEval terminated after 2721.55s: test duration exceeded the time limit