Package evaluation to test CellMetabolismBase on Julia 1.12.7-DEV.42 (6f510b6086*) started at 2026-06-19T22:24:35.581 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.12` Set-up completed after 9.72s ################################################################################ # Installation # Installing CellMetabolismBase... Resolving package versions... Installed GPUArraysCore ─────────────── v0.2.0 Installed DiffRules ─────────────────── v1.16.0 Installed Adapt ─────────────────────── v4.6.1 Installed FunctionWrappersWrappers ──── v1.9.1 Installed SciMLStructures ───────────── v1.10.0 Installed Rmath ─────────────────────── v0.9.0 Installed IrrationalConstants ───────── v0.2.6 Installed HypergeometricFunctions ───── v0.3.28 Installed SciMLPublic ───────────────── v1.0.1 Installed DiffResults ───────────────── v1.1.0 Installed StatsFuns ─────────────────── v2.2.0 Installed Accessors ─────────────────── v0.1.44 Installed PtrArrays ─────────────────── v1.4.0 Installed LoggingExtras ─────────────── v1.2.0 Installed RuntimeGeneratedFunctions ─── v0.5.19 Installed Preferences ───────────────── v1.5.2 Installed SciMLBase ─────────────────── v2.155.1 Installed Jieko ─────────────────────── v0.2.1 Installed DataAPI ───────────────────── v1.16.0 Installed PDMats ────────────────────── v0.11.37 Installed SpecialFunctions ──────────── v2.8.0 Installed SciMLOperators ────────────── v1.22.0 Installed ADTypes ───────────────────── v1.22.0 Installed SciMLLogging ──────────────── v1.10.1 Installed Moshi ─────────────────────── v0.3.8 Installed StaticArrays ──────────────── v1.9.18 Installed RecipesBase ───────────────── v1.3.4 Installed TruncatedStacktraces ──────── v1.4.0 Installed NaNMath ───────────────────── v1.1.4 Installed ExproniconLite ────────────── v0.10.14 Installed IteratorInterfaceExtensions ─ v1.0.0 Installed LabelledArrays ────────────── v1.19.0 Installed JLLWrappers ───────────────── v1.8.0 Installed StaticArraysCore ──────────── v1.4.4 Installed OrderedCollections ────────── v1.8.2 Installed ConstructionBase ──────────── v1.6.0 Installed PrecompileTools ───────────── v1.3.4 Installed SymbolicIndexingInterface ─── v0.3.48 Installed EnumX ─────────────────────── v1.0.7 Installed FunctionWrappers ──────────── v1.1.3 Installed Reexport ──────────────────── v1.2.2 Installed ChainRulesCore ────────────── v1.26.1 Installed ForwardDiff ───────────────── v1.4.1 Installed FillArrays ────────────────── v1.16.0 Installed ArrayInterface ────────────── v7.25.0 Installed RecursiveArrayTools ───────── v3.54.0 Installed QuadGK ────────────────────── v2.11.3 Installed CellMetabolismBase ────────── v0.3.1 Installed Rmath_jll ─────────────────── v0.5.1+0 Installed Statistics ────────────────── v1.11.1 Installed CommonSubexpressions ──────── v0.3.1 Installed LogExpFunctions ───────────── v1.0.1 Installed AliasTables ───────────────── v1.1.3 Installed DataStructures ────────────── v0.19.5 Installed PreallocationTools ────────── v1.2.0 Installed MacroTools ────────────────── v0.5.16 Installed ExprTools ─────────────────── v0.1.10 Installed StatsAPI ──────────────────── v1.8.0 Installed OpenSpecFun_jll ───────────── v0.5.6+0 Installed CompositionsBase ──────────── v0.1.2 Installed Distributions ─────────────── v0.25.127 Installed InverseFunctions ──────────── v0.1.17 Installed CommonSolve ───────────────── v0.2.7 Installed Missings ──────────────────── v1.2.0 Installed Compat ────────────────────── v4.18.1 Installed SortingAlgorithms ─────────── v1.2.2 Installed StatsBase ─────────────────── v0.34.12 Installed DocStringExtensions ───────── v0.9.5 Installing 2 artifacts Installed artifact OpenSpecFun 194.9 KiB Installed artifact Rmath 121.9 KiB Updating `~/.julia/environments/v1.12/Project.toml` [29f58b35] + CellMetabolismBase v0.3.1 Updating `~/.julia/environments/v1.12/Manifest.toml` [47edcb42] + ADTypes v1.22.0 [7d9f7c33] + Accessors v0.1.44 [79e6a3ab] + Adapt v4.6.1 [66dad0bd] + AliasTables v1.1.3 [4fba245c] + ArrayInterface v7.25.0 [29f58b35] + CellMetabolismBase v0.3.1 [d360d2e6] + ChainRulesCore v1.26.1 [38540f10] + CommonSolve v0.2.7 [bbf7d656] + CommonSubexpressions v0.3.1 [34da2185] + Compat v4.18.1 [a33af91c] + CompositionsBase v0.1.2 [187b0558] + ConstructionBase v1.6.0 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.19.5 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.16.0 [31c24e10] + Distributions v0.25.127 [ffbed154] + DocStringExtensions v0.9.5 [4e289a0a] + EnumX v1.0.7 [e2ba6199] + ExprTools v0.1.10 [55351af7] + ExproniconLite v0.10.14 [1a297f60] + FillArrays v1.16.0 [f6369f11] + ForwardDiff v1.4.1 [069b7b12] + FunctionWrappers v1.1.3 [77dc65aa] + FunctionWrappersWrappers v1.9.1 [46192b85] + GPUArraysCore v0.2.0 [34004b35] + HypergeometricFunctions v0.3.28 [3587e190] + InverseFunctions v0.1.17 [92d709cd] + IrrationalConstants v0.2.6 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.8.0 [ae98c720] + Jieko v0.2.1 [2ee39098] + LabelledArrays v1.19.0 [2ab3a3ac] + LogExpFunctions v1.0.1 [e6f89c97] + LoggingExtras v1.2.0 [1914dd2f] + MacroTools v0.5.16 [e1d29d7a] + Missings v1.2.0 [2e0e35c7] + Moshi v0.3.8 [77ba4419] + NaNMath v1.1.4 ⌅ [bac558e1] + OrderedCollections v1.8.2 [90014a1f] + PDMats v0.11.37 [d236fae5] + PreallocationTools v1.2.0 [aea7be01] + PrecompileTools v1.3.4 [21216c6a] + Preferences v1.5.2 [43287f4e] + PtrArrays v1.4.0 [1fd47b50] + QuadGK v2.11.3 [3cdcf5f2] + RecipesBase v1.3.4 ⌅ [731186ca] + RecursiveArrayTools v3.54.0 [189a3867] + Reexport v1.2.2 [79098fc4] + Rmath v0.9.0 [7e49a35a] + RuntimeGeneratedFunctions v0.5.19 ⌅ [0bca4576] + SciMLBase v2.155.1 ⌅ [a6db7da4] + SciMLLogging v1.10.1 [c0aeaf25] + SciMLOperators v1.22.0 [431bcebd] + SciMLPublic v1.0.1 [53ae85a6] + SciMLStructures v1.10.0 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.8.0 [90137ffa] + StaticArrays v1.9.18 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.8.0 [2913bbd2] + StatsBase v0.34.12 [4c63d2b9] + StatsFuns v2.2.0 [2efcf032] + SymbolicIndexingInterface v0.3.48 [781d530d] + TruncatedStacktraces v1.4.0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.12.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [de0858da] + Printf 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 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [bea87d4a] + SuiteSparse_jll v7.8.3+2 [8e850b90] + libblastrampoline_jll v5.15.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 11.58s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 4448.6 ms ✓ TestEnv 1 dependency successfully precompiled in 5 seconds. 26 already precompiled. 24 dependencies precompiled but different versions are currently loaded (ArgTools, Base64, Dates, Downloads, JuliaSyntaxHighlighting, LibCURL, LibCURL_jll, LibGit2, LibGit2_jll, LibSSH2_jll, Logging, Markdown, MozillaCACerts_jll, NetworkOptions, OpenSSL_jll, Pkg, Printf, StyledStrings, TOML, Tar, UUIDs, Zlib_jll, nghttp2_jll and p7zip_jll). Restart julia to access the new versions. Otherwise, 1 dependent of these packages may trigger further precompilation to work with the unexpected versions. Precompiling package dependencies... Precompiling packages... 4544.6 ms ✓ FunctionWrappers 791.7 ms ✓ MuladdMacro 1347.5 ms ✓ Calculus 890.6 ms ✓ Compiler 794.2 ms ✓ ConcreteStructs 869.2 ms ✓ ExprTools 721.6 ms ✓ IteratorInterfaceExtensions 871.0 ms ✓ StatsAPI 1435.1 ms ✓ ADTypes 6590.0 ms ✓ ExproniconLite 1961.6 ms ✓ FillArrays 922.2 ms ✓ InverseFunctions 1121.6 ms ✓ Statistics 35403.4 ms ✓ JuliaSyntax 771.9 ms ✓ CommonSolve 7567.2 ms ✓ MacroTools 902.8 ms ✓ ManualMemory 4206.8 ms ✓ OrderedCollections 849.3 ms ✓ EnumX 747.9 ms ✓ Reexport 724.1 ms ✓ SIMDTypes 1104.1 ms ✓ DocStringExtensions 5152.8 ms ✓ IrrationalConstants 865.1 ms ✓ CompositionsBase 730.5 ms ✓ TestItems 785.5 ms ✓ PtrArrays 765.5 ms ✓ FastPower 3739.5 ms ✓ NaNMath 1365.8 ms ✓ EnzymeCore 802.8 ms ✓ IfElse 4142.2 ms ✓ ConstructionBase 904.6 ms ✓ Adapt 767.4 ms ✓ CommonWorldInvalidations 833.5 ms ✓ DataAPI 814.3 ms ✓ FastClosures 901.6 ms ✓ SciMLPublic 964.4 ms ✓ StaticArraysCore 1848.2 ms ✓ AMD 1896.6 ms ✓ PDMats 16038.9 ms ✓ Krylov 4298.1 ms ✓ StructUtils 1071.8 ms ✓ LoggingExtras 1934.1 ms ✓ CpuId 1163.1 ms ✓ Preferences 4208.0 ms ✓ Compat 2320.5 ms ✓ CodeTracking 1269.6 ms ✓ Measurements 3689.4 ms ✓ RuntimeGeneratedFunctions 6394.0 ms ✓ TimerOutputs 4755.2 ms ✓ DifferentiationInterface 3794.9 ms ✓ Jieko 1465.1 ms ✓ FillArrays → FillArraysSparseArraysExt 1779.1 ms ✓ InverseFunctions → InverseFunctionsTestExt 1023.7 ms ✓ InverseFunctions → InverseFunctionsDatesExt 1564.1 ms ✓ Statistics → SparseArraysExt 1006.3 ms ✓ FillArrays → FillArraysStatisticsExt 1874.9 ms ✓ CommonSubexpressions 5765.5 ms ✓ ThreadingUtilities 3780.2 ms ✓ DataStructures 1327.1 ms ✓ LogExpFunctions 798.1 ms ✓ CompositionsBase → CompositionsBaseInverseFunctionsExt 28265.5 ms ✓ TestItemRunner 972.1 ms ✓ AliasTables 773.1 ms ✓ ADTypes → ADTypesEnzymeCoreExt 793.5 ms ✓ CommonSolve → CommonSolveEnzymeCoreExt 786.9 ms ✓ ConstructionBase → ConstructionBaseLinearAlgebraExt 797.6 ms ✓ ADTypes → ADTypesConstructionBaseExt 1397.3 ms ✓ Adapt → AdaptSparseArraysExt 4193.9 ms ✓ ArrayInterface 1147.8 ms ✓ GPUArraysCore 773.8 ms ✓ EnzymeCore → AdaptExt 3744.5 ms ✓ Missings 842.4 ms ✓ DiffResults 1471.2 ms ✓ FillArrays → FillArraysPDMatsExt 820.7 ms ✓ StructUtils → StructUtilsStaticArraysCoreExt 1330.7 ms ✓ JLLWrappers 1008.9 ms ✓ PrecompileTools 1599.6 ms ✓ TruncatedStacktraces 1379.0 ms ✓ SciMLLogging 842.3 ms ✓ Compat → CompatLinearAlgebraExt 12244.8 ms ✓ JuliaInterpreter 796.2 ms ✓ FastPower → FastPowerMeasurementsExt 824.4 ms ✓ StructUtils → StructUtilsMeasurementsExt 1283.9 ms ✓ DifferentiationInterface → DifferentiationInterfaceSparseArraysExt 21841.2 ms ✓ Moshi 1070.9 ms ✓ SortingAlgorithms 5060.3 ms ✓ QuadGK 898.3 ms ✓ LogExpFunctions → LogExpFunctionsInverseFunctionsExt 3059.0 ms ✓ Setfield 8068.6 ms ✓ Accessors 1961.8 ms ✓ MaybeInplace 1329.0 ms ✓ ArrayInterface → ArrayInterfaceSparseArraysExt 1117.9 ms ✓ FastBroadcast 759.8 ms ✓ ArrayInterface → ArrayInterfaceStaticArraysCoreExt 786.1 ms ✓ DifferentiationInterface → DifferentiationInterfaceGPUArraysCoreExt 777.9 ms ✓ ArrayInterface → ArrayInterfaceGPUArraysCoreExt 1456.6 ms ✓ Rmath_jll 5288.7 ms ✓ IntelOpenMP_jll 5185.9 ms ✓ oneTBB_jll 1354.1 ms ✓ OpenSpecFun_jll 17696.8 ms ✓ StaticArrays 3060.4 ms ✓ RecipesBase 19879.7 ms ✓ SparseColumnPivotedQR 15248.6 ms ✓ Parsers 65328.6 ms ✓ PureKLU 14152.6 ms ✓ SparseMatrixColorings 4893.3 ms ✓ Static 4221.8 ms ✓ SciMLStructures 2505.9 ms ✓ PreallocationTools 5310.0 ms ✓ FunctionWrappersWrappers 4783.0 ms ✓ ChainRulesCore 6320.7 ms ✓ Aqua 21817.8 ms ✓ LoweredCodeUtils 7307.3 ms ✓ StatsBase 2149.9 ms ✓ Accessors → LinearAlgebraExt 1878.9 ms ✓ Accessors → TestExt 1350.8 ms ✓ MaybeInplace → MaybeInplaceSparseArraysExt 1299.1 ms ✓ FiniteDiff 1583.9 ms ✓ Rmath 9917.8 ms ✓ MKL_jll 5572.0 ms ✓ SpecialFunctions 1363.4 ms ✓ StaticArrays → StaticArraysStatisticsExt 1425.5 ms ✓ FillArrays → FillArraysStaticArraysExt 1414.1 ms ✓ ConstructionBase → ConstructionBaseStaticArraysExt 1344.6 ms ✓ Adapt → AdaptStaticArraysExt 1359.2 ms ✓ DifferentiationInterface → DifferentiationInterfaceStaticArraysExt 1571.6 ms ✓ Accessors → StaticArraysExt 1308.3 ms ✓ Measurements → MeasurementsRecipesBaseExt 1524.9 ms ✓ SparseColumnPivotedQR → SparseColumnPivotedQRAMDExt 9862.1 ms ✓ JSON 1887.4 ms ✓ DifferentiationInterface → DifferentiationInterfaceSparseMatrixColoringsExt 874.4 ms ✓ BitTwiddlingConvenienceFunctions 2408.2 ms ✓ CPUSummary 8612.9 ms ✓ StaticArrayInterface 888.4 ms ✓ FastBroadcast → FastBroadcastStaticExt 4203.1 ms ✓ ChainRulesCore → ChainRulesCoreSparseArraysExt 870.0 ms ✓ ADTypes → ADTypesChainRulesCoreExt 1294.0 ms ✓ EnzymeCore → EnzymeCoreChainRulesCoreExt 856.6 ms ✓ DifferentiationInterface → DifferentiationInterfaceChainRulesCoreExt 3278.7 ms ✓ LogExpFunctions → LogExpFunctionsChainRulesCoreExt 818.0 ms ✓ ArrayInterface → ArrayInterfaceChainRulesCoreExt 4145.9 ms ✓ StaticArrays → StaticArraysChainRulesCoreExt 119937.2 ms ✓ JET 1486.7 ms ✓ PDMats → StatsBaseExt 7343.0 ms ✓ SciMLOperators 6181.1 ms ✓ SymbolicIndexingInterface 1436.3 ms ✓ FiniteDiff → FiniteDiffSparseArraysExt 1384.1 ms ✓ FiniteDiff → FiniteDiffStaticArraysExt 1027.5 ms ✓ DifferentiationInterface → DifferentiationInterfaceFiniteDiffExt 4070.8 ms ✓ FastGaussQuadrature 4164.0 ms ✓ SpecialFunctions → SpecialFunctionsChainRulesCoreExt 2246.8 ms ✓ HypergeometricFunctions 978.7 ms ✓ Measurements → MeasurementsSpecialFunctionsExt 1458.5 ms ✓ DiffRules 11694.1 ms ✓ BenchmarkTools 1815.6 ms ✓ PolyesterWeave 1590.4 ms ✓ StaticArrayInterface → StaticArrayInterfaceStaticArraysExt 1129.7 ms ✓ CloseOpenIntervals 1332.6 ms ✓ LayoutPointers 1312.1 ms ✓ SciMLOperators → SciMLOperatorsStaticArraysCoreExt 1723.8 ms ✓ SciMLOperators → SciMLOperatorsSparseArraysExt 11683.7 ms ✓ RecursiveArrayTools 5271.4 ms ✓ StatsFuns 9860.0 ms ✓ ForwardDiff 1974.5 ms ✓ StrideArraysCore 1378.3 ms ✓ RecursiveArrayTools → RecursiveArrayToolsStatisticsExt 1358.7 ms ✓ RecursiveArrayTools → RecursiveArrayToolsFastBroadcastExt 1990.3 ms ✓ RecursiveArrayTools → RecursiveArrayToolsSparseArraysExt 1373.7 ms ✓ RecursiveArrayTools → RecursiveArrayToolsMeasurementsExt 1014.9 ms ✓ StatsFuns → StatsFunsInverseFunctionsExt 3591.8 ms ✓ StatsFuns → StatsFunsChainRulesCoreExt 9477.0 ms ✓ Distributions 1698.3 ms ✓ ForwardDiff → ForwardDiffStaticArraysExt 1125.9 ms ✓ FastPower → FastPowerForwardDiffExt 4240.6 ms ✓ DifferentiationInterface → DifferentiationInterfaceForwardDiffExt 2388.5 ms ✓ PreallocationTools → PreallocationToolsForwardDiffExt 1541.9 ms ✓ RecursiveArrayTools → RecursiveArrayToolsForwardDiffExt 2331.8 ms ✓ Polyester 38038.4 ms ✓ SciMLBase 3290.6 ms ✓ Distributions → DistributionsTestExt 5654.9 ms ✓ Distributions → DistributionsChainRulesCoreExt 6771.0 ms ✓ LabelledArrays 1816.6 ms ✓ FastBroadcast → FastBroadcastPolyesterExt 4990.3 ms ✓ SciMLBase → SciMLBaseDistributionsExt 4046.8 ms ✓ SciMLBase → SciMLBaseChainRulesCoreExt 3419.5 ms ✓ SciMLBase → SciMLBaseMeasurementsExt 3479.5 ms ✓ SciMLBase → SciMLBaseDifferentiationInterfaceExt 6778.2 ms ✓ SciMLBase → SciMLBaseForwardDiffExt 23424.9 ms ✓ LinearSolve 3433.8 ms ✓ RecursiveArrayTools → RecursiveArrayToolsFastBroadcastPolyesterExt 11786.6 ms ✓ SciMLJacobianOperators 6525.0 ms ✓ CellMetabolismBase 9137.7 ms ✓ LinearSolve → LinearSolveForwardDiffExt 4707.9 ms ✓ LinearSolve → LinearSolveChainRulesCoreExt 21054.3 ms ✓ LinearSolve → LinearSolveSparseArraysExt 17687.3 ms ✓ LineSearch 24425.2 ms ✓ NonlinearSolveBase 7432.1 ms ✓ CellMetabolism 5497.6 ms ✓ LinearSolve → LinearSolveEnzymeExt 4487.4 ms ✓ NonlinearSolveBase → NonlinearSolveBaseSparseMatrixColoringsExt 14400.9 ms ✓ NonlinearSolveBase → NonlinearSolveBaseForwardDiffExt 4642.1 ms ✓ NonlinearSolveBase → NonlinearSolveBaseSparseArraysExt 3606.2 ms ✓ NonlinearSolveBase → NonlinearSolveBaseLineSearchExt 6933.0 ms ✓ NonlinearSolveBase → NonlinearSolveBaseLinearSolveExt 4611.7 ms ✓ NonlinearSolveBase → NonlinearSolveBaseChainRulesCoreExt 10373.1 ms ✓ BracketingNonlinearSolve 19363.4 ms ✓ NonlinearSolveSpectralMethods 35185.3 ms ✓ NonlinearSolveQuasiNewton 61720.3 ms ✓ NonlinearSolveFirstOrder 4055.1 ms ✓ BracketingNonlinearSolve → BracketingNonlinearSolveForwardDiffExt 11012.1 ms ✓ DiffEqBase 4709.8 ms ✓ NonlinearSolveSpectralMethods → NonlinearSolveSpectralMethodsForwardDiffExt 6110.1 ms ✓ NonlinearSolveQuasiNewton → NonlinearSolveQuasiNewtonForwardDiffExt 4124.4 ms ✓ BracketingNonlinearSolve → BracketingNonlinearSolveChainRulesCoreExt 22582.9 ms ✓ SimpleNonlinearSolve 3751.7 ms ✓ DiffEqBase → DiffEqBaseChainRulesCoreExt 3764.5 ms ✓ DiffEqBase → DiffEqBaseMeasurementsExt 10332.6 ms ✓ DiffEqBase → DiffEqBaseForwardDiffExt 3781.4 ms ✓ DiffEqBase → DiffEqBaseSparseArraysExt 12217.2 ms ✓ OrdinaryDiffEqCore 5102.9 ms ✓ SimpleNonlinearSolve → SimpleNonlinearSolveChainRulesCoreExt 101739.7 ms ✓ NonlinearSolve 5239.8 ms ✓ OrdinaryDiffEqCore → OrdinaryDiffEqCoreSparseArraysExt 12547.7 ms ✓ OrdinaryDiffEqDifferentiation 6392.9 ms ✓ OrdinaryDiffEqDifferentiation → OrdinaryDiffEqDifferentiationSparseArraysExt 18274.5 ms ✓ OrdinaryDiffEqNonlinearSolve 66669.5 ms ✓ OrdinaryDiffEqFIRK 227 dependencies successfully precompiled in 1486 seconds. 39 already precompiled. 24 dependencies precompiled but different versions are currently loaded (ArgTools, Base64, Dates, Downloads, JuliaSyntaxHighlighting, LibCURL, LibCURL_jll, LibGit2, LibGit2_jll, LibSSH2_jll, Logging, Markdown, MozillaCACerts_jll, NetworkOptions, OpenSSL_jll, Pkg, Printf, StyledStrings, TOML, Tar, UUIDs, Zlib_jll, nghttp2_jll and p7zip_jll). Restart julia to access the new versions. Otherwise, 155 dependents of these packages may trigger further precompilation to work with the unexpected versions. 1 dependency had output during precompilation: ┌ MKL_jll │ Downloading artifact: IntelOpenMP │ Downloading artifact: oneTBB └ Precompilation completed after 1517.12s ################################################################################ # Testing # Testing CellMetabolismBase Status `/tmp/jl_uq1C5T/Project.toml` [4c88cf16] Aqua v0.8.16 [6e4b80f9] BenchmarkTools v1.8.0 [d7c5e2dd] CellMetabolism v0.2.2 [29f58b35] CellMetabolismBase v0.3.1 [31c24e10] Distributions v0.25.127 ⌅ [c3a54625] JET v0.10.15 [2ee39098] LabelledArrays v1.19.0 ⌅ [5960d6e9] OrdinaryDiffEqFIRK v1.26.0 ⌅ [0bca4576] SciMLBase v2.155.1 [f8b46487] TestItemRunner v1.1.5 [8dfed614] Test v1.11.0 Status `/tmp/jl_uq1C5T/Manifest.toml` [47edcb42] ADTypes v1.22.0 [14f7f29c] AMD v0.5.3 [7d9f7c33] Accessors v0.1.44 [79e6a3ab] Adapt v4.6.1 [66dad0bd] AliasTables v1.1.3 [4c88cf16] Aqua v0.8.16 [4fba245c] ArrayInterface v7.25.0 [6e4b80f9] BenchmarkTools v1.8.0 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [70df07ce] BracketingNonlinearSolve v1.12.1 [2a0fbf3d] CPUSummary v0.2.7 [49dc2e85] Calculus v0.5.2 [d7c5e2dd] CellMetabolism v0.2.2 [29f58b35] CellMetabolismBase v0.3.1 [d360d2e6] ChainRulesCore v1.26.1 [fb6a15b2] CloseOpenIntervals v0.1.13 [da1fd8a2] CodeTracking v3.0.2 [38540f10] CommonSolve v0.2.7 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.18.1 [807dbc54] Compiler v0.1.1 [a33af91c] CompositionsBase v0.1.2 [2569d6c7] ConcreteStructs v0.2.4 [187b0558] ConstructionBase v1.6.0 [adafc99b] CpuId v0.3.1 [9a962f9c] DataAPI v1.16.0 [864edb3b] DataStructures v0.19.5 ⌅ [2b5f629d] DiffEqBase v6.218.0 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.16.0 [a0c0ee7d] DifferentiationInterface v0.7.18 [31c24e10] Distributions v0.25.127 [ffbed154] DocStringExtensions v0.9.5 [4e289a0a] EnumX v1.0.7 [f151be2c] EnzymeCore v0.8.20 [e2ba6199] ExprTools v0.1.10 [55351af7] ExproniconLite v0.10.14 [7034ab61] FastBroadcast v1.3.2 [9aa1b823] FastClosures v0.3.2 [442a2c76] FastGaussQuadrature v1.3.0 [a4df4552] FastPower v1.3.1 [1a297f60] FillArrays v1.16.0 [6a86dc24] FiniteDiff v2.31.0 [f6369f11] ForwardDiff v1.4.1 [069b7b12] FunctionWrappers v1.1.3 [77dc65aa] FunctionWrappersWrappers v1.9.1 [46192b85] GPUArraysCore v0.2.0 [34004b35] HypergeometricFunctions v0.3.28 [615f187c] IfElse v0.1.1 [3587e190] InverseFunctions v0.1.17 [92d709cd] IrrationalConstants v0.2.6 [82899510] IteratorInterfaceExtensions v1.0.0 ⌅ [c3a54625] JET v0.10.15 [692b3bcd] JLLWrappers v1.8.0 [682c06a0] JSON v1.6.1 [ae98c720] Jieko v0.2.1 [aa1ae85d] JuliaInterpreter v0.10.12 [70703baa] JuliaSyntax v1.0.2 [ba0b0d4f] Krylov v0.10.6 [2ee39098] LabelledArrays v1.19.0 [10f19ff3] LayoutPointers v0.1.17 [87fe0de2] LineSearch v0.1.9 [7ed4a6bd] LinearSolve v3.86.0 [2ab3a3ac] LogExpFunctions v1.0.1 [e6f89c97] LoggingExtras v1.2.0 ⌅ [6f1432cf] LoweredCodeUtils v3.5.3 [1914dd2f] MacroTools v0.5.16 [d125e4d3] ManualMemory v0.1.8 [bb5d69b7] MaybeInplace v0.1.4 [eff96d63] Measurements v2.14.1 [e1d29d7a] Missings v1.2.0 [2e0e35c7] Moshi v0.3.8 [46d2c3a1] MuladdMacro v0.2.4 [77ba4419] NaNMath v1.1.4 [8913a72c] NonlinearSolve v4.19.1 ⌃ [be0214bd] NonlinearSolveBase v2.30.3 [5959db7a] NonlinearSolveFirstOrder v2.1.1 [9a2c21bd] NonlinearSolveQuasiNewton v1.13.1 [26075421] NonlinearSolveSpectralMethods v1.7.1 ⌅ [bac558e1] OrderedCollections v1.8.2 ⌅ [bbf590c4] OrdinaryDiffEqCore v3.33.1 ⌅ [4302a76b] OrdinaryDiffEqDifferentiation v2.9.0 ⌅ [5960d6e9] OrdinaryDiffEqFIRK v1.26.0 ⌅ [127b3ac7] OrdinaryDiffEqNonlinearSolve v1.28.0 [90014a1f] PDMats v0.11.37 [69de0a69] Parsers v2.8.6 [f517fe37] Polyester v0.7.19 [1d0040c9] PolyesterWeave v0.2.2 [d236fae5] PreallocationTools v1.2.0 [aea7be01] PrecompileTools v1.3.4 [21216c6a] Preferences v1.5.2 [43287f4e] PtrArrays v1.4.0 [0c0d3e7f] PureKLU v1.0.1 [1fd47b50] QuadGK v2.11.3 [3cdcf5f2] RecipesBase v1.3.4 ⌅ 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[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 v8.15.0+0 [e37daf67] LibGit2_jll v1.9.0+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.11.4 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.6+0 [bea87d4a] SuiteSparse_jll v7.8.3+2 [83775a58] Zlib_jll v1.3.1+2 [8e850b90] libblastrampoline_jll v5.15.0+0 [8e850ede] nghttp2_jll v1.64.0+1 [3f19e933] p7zip_jll v17.7.0+0 Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. Testing Running tests... Code linting (JET.jl): JET-test failed at /home/pkgeval/.julia/packages/JET/XRz79/src/JETBase.jl:1109 Expression: (JET.report_package)(CellMetabolismBase; toplevel_logger = nothing, target_defined_modules = true) WARNING: Detected access to binding `CellMetabolismBase.#7#8` in a world prior to its definition world. Julia 1.12 has introduced more strict world age semantics for global bindings. !!! This code may malfunction under Revise. !!! This code will error in future versions of Julia. Hint: Add an appropriate `invokelatest` around the access to this binding. To make this warning an error, and hence obtain a stack trace, use `julia --depwarn=error`. WARNING: Detected access to binding `CellMetabolismBase.#9#10` in a world prior to its definition world. Julia 1.12 has introduced more strict world age semantics for global bindings. !!! This code may malfunction under Revise. !!! This code will error in future versions of Julia. Hint: Add an appropriate `invokelatest` around the access to this binding. To make this warning an error, and hence obtain a stack trace, use `julia --depwarn=error`. ═════ 8 possible errors found ═════ ┌ var"#7#8"(ConstMetabs::Any, Enzs::Any, ::Any, ::Any) @ CellMetabolismBase /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/src/MetabolicPathway_and_Enzyme_types_and_related_functions.jl:316 │ non-boolean `Missing` found in boolean context (1/2 union split): goto %44 if not CellMetabolismBase.:!(CellMetabolismBase.in(metab_name::Any, unique_reactant_names::Union{Tuple{}, Tuple{Any}})::Union{Missing, Bool})::Union{Missing, Bool} └──────────────────── ┌ var"#7#8"(ConstMetabs::Any, Enzs::Any, ::Any, ::Any) @ CellMetabolismBase /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/src/MetabolicPathway_and_Enzyme_types_and_related_functions.jl:316 │ non-boolean `Missing` found in boolean context (1/2 union split): goto %44 if not CellMetabolismBase.:!(CellMetabolismBase.in(metab_name::Any, unique_reactant_names::Union{Tuple{}, Tuple{Any}, Tuple{Any, Any}})::Union{Missing, Bool})::Union{Missing, Bool} └──────────────────── ┌ var"#7#8"(ConstMetabs::Any, Enzs::Any, ::Any, ::Any) @ CellMetabolismBase /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/src/MetabolicPathway_and_Enzyme_types_and_related_functions.jl:316 │ non-boolean `Missing` found in boolean context (1/2 union split): goto %44 if not CellMetabolismBase.:!(CellMetabolismBase.in(metab_name::Any, unique_reactant_names::Tuple)::Union{Missing, Bool})::Union{Missing, Bool} └──────────────────── ┌ var"#7#8"(ConstMetabs::Any, Enzs::Any, ::Any, ::Any) @ CellMetabolismBase /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/src/MetabolicPathway_and_Enzyme_types_and_related_functions.jl:321 │ non-boolean `Missing` found in boolean context (1/2 union split): goto %70 if not CellMetabolismBase.:!(CellMetabolismBase.in(metab_name, unique_reactant_names::Tuple)::Union{Missing, Bool})::Union{Missing, Bool} └──────────────────── ┌ var"#7#8"(ConstMetabs::Any, Enzs::Any, ::Any, ::Any) @ CellMetabolismBase /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/src/MetabolicPathway_and_Enzyme_types_and_related_functions.jl:321 │ non-boolean `Missing` found in boolean context (1/2 union split): goto %70 if not CellMetabolismBase.:!(CellMetabolismBase.in(metab_name::Any, unique_reactant_names::Tuple)::Union{Missing, Bool})::Union{Missing, Bool} └──────────────────── ┌ var"#9#10"(ConstMetabs::Any, Enzs::Any, ::Any, ::Any) @ CellMetabolismBase /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/src/MetabolicPathway_and_Enzyme_types_and_related_functions.jl:347 │ non-boolean `Missing` found in boolean context (1/2 union split): goto %53 if not CellMetabolismBase.:!(CellMetabolismBase.in(metab_name::Any, unique_metab_names::Union{Tuple{}, Tuple{Any}})::Union{Missing, Bool})::Union{Missing, Bool} └──────────────────── ┌ var"#9#10"(ConstMetabs::Any, Enzs::Any, ::Any, ::Any) @ CellMetabolismBase /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/src/MetabolicPathway_and_Enzyme_types_and_related_functions.jl:347 │ non-boolean `Missing` found in boolean context (1/2 union split): goto %53 if not CellMetabolismBase.:!(CellMetabolismBase.in(metab_name::Any, unique_metab_names::Union{Tuple{}, Tuple{Any}, Tuple{Any, Any}})::Union{Missing, Bool})::Union{Missing, Bool} └──────────────────── ┌ var"#9#10"(ConstMetabs::Any, Enzs::Any, ::Any, ::Any) @ CellMetabolismBase /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/src/MetabolicPathway_and_Enzyme_types_and_related_functions.jl:347 │ non-boolean `Missing` found in boolean context (1/2 union split): goto %53 if not CellMetabolismBase.:!(CellMetabolismBase.in(metab_name::Any, unique_metab_names::Tuple)::Union{Missing, Bool})::Union{Missing, Bool} └──────────────────── Manual ODE solve=1.9ms Manual ODE allocations=2256 Package ODE solve=1.8ms Package ODE allocations=2256 WARNING: Method definition remove_regulation(CellMetabolismBase.Enzyme{:SubInhibEnz, (:S,), (:P,), (), (:S,)}, Any, Base.Val{:S}) in module ##395 at /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/test/tests_validate.jl:354 overwritten at /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/test/tests_validate.jl:368. WARNING: Method definition remove_regulation(CellMetabolismBase.Enzyme{:ProdInhibEnz, (:S,), (:P,), (), (:P,)}, Any, Base.Val{:P}) in module ##395 at /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/test/tests_validate.jl:417 overwritten at /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/test/tests_validate.jl:431. WARNING: Method definition remove_regulation(CellMetabolismBase.Enzyme{:SubActEnz, (:S,), (:P,), (:S,), ()}, Any, Base.Val{:S}) in module ##395 at /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/test/tests_validate.jl:472 overwritten at /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/test/tests_validate.jl:486. WARNING: Method definition remove_regulation(CellMetabolismBase.Enzyme{:ProdActEnz, (:S,), (:P,), (:P,), ()}, Any, Base.Val{:P}) in module ##395 at /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/test/tests_validate.jl:527 overwritten at /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/test/tests_validate.jl:541. Test Summary: | Pass Fail Total Time Package | 206 1 207 10m35.9s test/tests_Aqua_and_JET.jl | 11 1 12 3m59.7s Code quality (Aqua.jl) | 11 11 1m25.2s Code linting (JET.jl) | 1 1 2m34.5s test/tests_make_ODEProblem.jl | 31 31 4m01.3s test/tests_MetabolicPathway_and_Enzyme_types_and_related_functions.jl | 81 81 3.4s test/tests_validate.jl | 25 25 39.2s test/test_CellMetabolism_compat.jl | 7 7 1m35.2s test/tests_make_EnsembleProblem.jl | 51 51 16.9s ERROR: LoadError: Some tests did not pass: 206 passed, 1 failed, 0 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/CellMetabolismBase/5qLnL/test/runtests.jl:9 Testing failed after 698.03s ERROR: LoadError: Package CellMetabolismBase errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Types.jl:68 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2538 [3] test @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2387 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:552 [5] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:169 [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:157 [7] test @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:157 [inlined] [8] #test#81 @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:156 [inlined] [9] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:223 [10] include(mod::Module, _path::String) @ Base ./Base.jl:306 [11] exec_options(opts::Base.JLOptions) @ Base ./client.jl:317 [12] _start() @ Base ./client.jl:550 in expression starting at /PkgEval.jl/scripts/evaluate.jl:214 PkgEval failed after 2273.62s: package has test failures