Package evaluation of Kinbiont on Julia 1.13.0-DEV.791 (d5209bd37d*) started at 2025-07-05T01:18:03.610 ################################################################################ # Set-up # Set-up completed after 0.23s ################################################################################ # Installation # Installing Kinbiont... Resolving package versions... Installed BetaML ─ v0.12.2 Updating `~/.julia/environments/v1.13/Project.toml` [3b7c519f] + Kinbiont v1.1.8 Updating `~/.julia/environments/v1.13/Manifest.toml` [47edcb42] + ADTypes v1.15.0 [a4c015fc] + ANSIColoredPrinters v0.0.1 [da404889] + ARFFFiles v1.5.0 [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 [a95523ee] + AlmostBlockDiagonals v0.1.10 [dce04be8] + ArgCheck v2.5.0 [ec485272] + ArnoldiMethod v0.4.0 [4fba245c] + ArrayInterface v7.19.0 [4c555306] + ArrayLayouts v1.11.1 [a9b6321e] + Atomix v1.1.1 ⌃ [13072b0f] + AxisAlgorithms v1.0.1 [aae01518] + BandedMatrices v1.9.4 [198e06fe] + BangBang v0.4.4 [9718e550] + Baselet v0.1.1 [024491cd] + BetaML v0.12.2 [e2ed5e7c] + Bijections v0.2.2 [d1d4a3ce] + BitFlags v0.1.9 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [a134a8b2] + BlackBoxOptim v0.6.3 [8e7c35d0] + BlockArrays v1.6.3 [764a87c0] + BoundaryValueDiffEq v5.18.0 [7227322d] + BoundaryValueDiffEqAscher v1.8.0 [56b672f2] + BoundaryValueDiffEqCore v1.11.0 [85d9eb09] + BoundaryValueDiffEqFIRK v1.9.0 [1a22d4ce] + BoundaryValueDiffEqMIRK v1.9.0 [9255f1d6] + BoundaryValueDiffEqMIRKN v1.8.0 [ed55bfe0] + BoundaryValueDiffEqShooting v1.9.0 [70df07ce] + BracketingNonlinearSolve v1.3.0 [fa961155] + CEnum v0.5.0 [2a0fbf3d] + CPUSummary v0.2.6 [a9c8d775] + CPUTime v1.0.0 [336ed68f] + CSV v0.10.15 [49dc2e85] + Calculus v0.5.2 ⌅ [479239e8] + Catalyst v14.4.1 [324d7699] + CategoricalArrays v0.10.8 [af321ab8] + CategoricalDistributions v0.1.15 [082447d4] + ChainRules v1.72.5 [d360d2e6] + ChainRulesCore v1.25.2 [68f453bf] + ChangePointDetection v1.2.0 [fb6a15b2] + CloseOpenIntervals v0.1.13 [944b1d66] + CodecZlib v0.7.8 [3da002f7] + ColorTypes v0.12.1 [861a8166] + Combinatorics v1.0.3 [a80b9123] + CommonMark v0.9.1 [38540f10] + CommonSolve v0.2.4 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.17.0 [b152e2b5] + CompositeTypes v0.1.4 [a33af91c] + CompositionsBase v0.1.2 [ed09eef8] + ComputationalResources v0.3.2 [2569d6c7] + ConcreteStructs v0.2.3 [f0e56b4a] + ConcurrentUtilities v2.5.0 [88cd18e8] + ConsoleProgressMonitor v0.1.2 [187b0558] + ConstructionBase v1.6.0 [6add18c4] + ContextVariablesX v0.1.3 [adafc99b] + CpuId v0.3.1 [a8cc5b0e] + Crayons v4.1.1 ⌅ [717857b8] + DSP v0.7.10 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.7.0 [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [7806a523] + DecisionTree v0.12.4 [244e2a9f] + DefineSingletons v0.1.2 [bcd4f6db] + DelayDiffEq v5.53.1 [8bb1440f] + DelimitedFiles v1.9.1 [85a47980] + Dictionaries v0.4.5 [39dd38d3] + Dierckx v0.5.4 [2b5f629d] + DiffEqBase v6.177.1 [459566f4] + DiffEqCallbacks v4.8.0 [77a26b50] + DiffEqNoiseProcess v5.24.1 [1130ab10] + DiffEqParamEstim v2.2.0 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [0c46a032] + DifferentialEquations v7.16.1 ⌅ [a0c0ee7d] + DifferentiationInterface v0.6.54 [8d63f2c5] + DispatchDoctor v0.4.23 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.120 [ffbed154] + DocStringExtensions v0.9.5 [e30172f5] + Documenter v1.13.0 [5b8099bc] + DomainSets v0.7.15 ⌅ [7317a516] + DynamicDiff v0.2.1 ⌅ [a40a106e] + DynamicExpressions v1.10.1 [7c1d4256] + DynamicPolynomials v0.6.2 [06fc5a27] + DynamicQuantities v1.8.0 [792122b4] + EarlyStopping v0.3.0 [b7d42ee7] + Einsum v0.4.1 [4e289a0a] + EnumX v1.0.5 [f151be2c] + EnzymeCore v0.8.12 [460bff9d] + ExceptionUnwrapping v0.1.11 [d4d017d3] + ExponentialUtilities v1.27.0 [e2ba6199] + ExprTools v0.1.10 [55351af7] + ExproniconLite v0.10.14 [7a1cc6ca] + FFTW v1.9.0 [cc61a311] + FLoops v0.2.2 [b9860ae5] + FLoopsBase v0.1.1 [9d29842c] + FastAlmostBandedMatrices v0.1.5 [7034ab61] + FastBroadcast v0.3.5 [9aa1b823] + FastClosures v0.3.2 [442a2c76] + FastGaussQuadrature v1.0.2 [a4df4552] + FastPower v1.1.3 [33837fe5] + FeatureSelection v0.2.2 [5789e2e9] + FileIO v1.17.0 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Interpolations v0.13.6 [8197267c] + IntervalSets v0.7.11 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.4 [c8e1da08] + IterTools v1.10.0 [b3c1a2ee] + IterationControl v0.5.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [033835bb] + JLD2 v0.5.15 [692b3bcd] + JLLWrappers v1.7.0 [682c06a0] + JSON v0.21.4 [ae98c720] + Jieko v0.2.1 [98e50ef6] + JuliaFormatter v2.1.2 ⌅ [70703baa] + JuliaSyntax v0.4.10 [b14d175d] + JuliaVariables v0.2.4 [ccbc3e58] + JumpProcesses v9.16.1 [63c18a36] + KernelAbstractions v0.9.36 [3b7c519f] + Kinbiont v1.1.8 [2c470bb0] + Kronecker v0.5.5 [ba0b0d4f] + Krylov v0.10.1 [5be7bae1] + LBFGSB v0.4.1 [929cbde3] + LLVM v9.4.2 [b964fa9f] + LaTeXStrings v1.4.0 [23fbe1c1] + Latexify v0.16.8 [a5e1c1ea] + LatinHypercubeSampling v1.9.0 [10f19ff3] + LayoutPointers v0.1.17 [0e77f7df] + LazilyInitializedFields v1.3.0 [5078a376] + LazyArrays v2.6.1 [92ad9a40] + LearnAPI v1.0.1 [1d6d02ad] + 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[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 [1a1011a3] + SharedArrays 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 v8.14.1+1 [e37daf67] + LibGit2_jll v1.9.1+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 [efcefdf7] + PCRE2_jll v10.45.0+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.13.1+0 [8e850ede] + nghttp2_jll v1.65.0+0 [3f19e933] + p7zip_jll v17.5.0+2 Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. To see why use `status --outdated -m` Building BetaML → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/1668c8dbfd013c7c34615fef3fa41e46cb7bcc8d/build.log` Installation completed after 17.16s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... No packages added to or removed from `~/.julia/environments/pkgeval/Project.toml` No packages added to or removed from `~/.julia/environments/pkgeval/Manifest.toml` Precompiling package dependencies... Precompiling packages... ✗ LazyArrays 992.7 ms ✓ ConsoleProgressMonitor 67168.2 ms ✓ DynamicExpressions → DynamicExpressionsSymbolicUtilsExt 4866.9 ms ✓ SCCNonlinearSolve 101403.2 ms ✓ NonlinearSolveBase → NonlinearSolveBaseBandedMatricesExt 52126.6 ms ✓ DynamicExpressions → DynamicExpressionsLoopVectorizationExt 16711.3 ms ✓ MLJEnsembles 267501.5 ms ✓ Symbolics → SymbolicsPreallocationToolsExt 51426.9 ms ✓ DynamicExpressions → DynamicExpressionsZygoteExt 83029.7 ms ? BetaML 168714.3 ms ✓ SimpleNonlinearSolve → SimpleNonlinearSolveChainRulesCoreExt 7571.3 ms ✓ SimpleNonlinearSolve → SimpleNonlinearSolveDiffEqBaseExt 13922.0 ms ✓ MLJBase → DefaultMeasuresExt 15375.8 ms ✓ MLJBalancing 16043.1 ms ✓ MLJIteration 16448.4 ms ✓ MLJFlow 16631.4 ms ✓ MLJTuning 24993.3 ms ✓ DynamicExpressions → DynamicExpressionsOptimExt 7906.5 ms ✓ DiffEqBase → DiffEqBaseUnitfulExt 50206.6 ms ✓ Sundials 43106.5 ms ✓ DiffEqParamEstim 30211.0 ms ✓ SteadyStateDiffEq ✗ LazyArrays → LazyArraysBandedMatricesExt ✗ LazyArrays → LazyArraysStaticArraysExt ✗ LazyArrays → LazyArraysBlockArraysExt ✗ Transducers → TransducersLazyArraysExt ✗ LinearSolve 418632.5 ms ✓ Optimization 151432.5 ms ✓ MLJ 146893.7 ms ✓ SymbolicRegression ✗ FastAlmostBandedMatrices ✗ LinearSolve → LinearSolveSparseArraysExt ✗ LinearSolve → LinearSolveEnzymeExt ✗ LinearSolve → LinearSolveKernelAbstractionsExt ✗ LinearSolve → LinearSolveForwardDiffExt ✗ LinearSolve → LinearSolveBandedMatricesExt ✗ NonlinearSolveBase → NonlinearSolveBaseLinearSolveExt 275620.4 ms ✓ OptimizationMultistartOptimization 28874.0 ms ✓ OptimizationBBO 201548.6 ms ✓ SymbolicRegression → SymbolicRegressionSymbolicUtilsExt ✗ LinearSolve → LinearSolveFastAlmostBandedMatricesExt ✗ OrdinaryDiffEqDifferentiation ✗ NonlinearSolveFirstOrder ✗ NonlinearSolveQuasiNewton ✗ OrdinaryDiffEqExtrapolation ✗ OrdinaryDiffEqRosenbrock ✗ BoundaryValueDiffEqCore ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 25 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:1213 wait_forever at ./task.jl:1150 jfptr_wait_forever_62247.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [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 (default) Task 0x00007867c543efe0 Total snapshots: 664. Utilization: 0% ╎664 @Base/task.jl:1150 wait_forever() 663╎ 664 @Base/task.jl:1213 wait() ✗ NonlinearSolveQuasiNewton → NonlinearSolveQuasiNewtonForwardDiffExt ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== 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:1213 wait_forever at ./task.jl:1150 jfptr_wait_forever_62247.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [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 (default) Task 0x000077780fbda0e0 Total snapshots: 647. Utilization: 0% ╎647 @Base/task.jl:1150 wait_forever() 646╎ 647 @Base/task.jl:1213 wait() [25] signal 15: Terminated in expression starting at /PkgEval.jl/scripts/precompile.jl:37 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_62247.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) Allocations: 90909520 (Pool: 90909016; Big: 504); GC: 184 PkgEval terminated after 2742.81s: test duration exceeded the time limit