Package evaluation to test SBMLImporter on Julia 1.11.8 (29b3528cce*) started at 2026-01-20T16:50:03.252 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.11` Set-up completed after 8.75s ################################################################################ # Installation # Installing SBMLImporter... Resolving package versions... Updating `~/.julia/environments/v1.11/Project.toml` [210efffb] + SBMLImporter v3.2.3 Updating `~/.julia/environments/v1.11/Manifest.toml` [47edcb42] + ADTypes v1.21.0 [1520ce14] + AbstractTrees v0.4.5 [7d9f7c33] + Accessors v0.1.43 [79e6a3ab] + Adapt v4.4.0 [66dad0bd] + AliasTables v1.1.3 [ec485272] + ArnoldiMethod v0.4.0 [4fba245c] + ArrayInterface v7.22.0 [4c555306] + ArrayLayouts v1.12.2 [e2ed5e7c] + Bijections v0.2.2 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [8e7c35d0] + BlockArrays v1.9.3 [70df07ce] + BracketingNonlinearSolve v1.6.2 [2a0fbf3d] + CPUSummary v0.2.7 [479239e8] + Catalyst v15.0.11 [d360d2e6] + ChainRulesCore v1.26.0 [fb6a15b2] + CloseOpenIntervals v0.1.13 ⌅ [861a8166] + Combinatorics v1.0.2 ⌅ [a80b9123] + CommonMark v0.9.1 [38540f10] + CommonSolve v0.2.6 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.18.1 [b0b7db55] + ComponentArrays v0.15.31 [b152e2b5] + CompositeTypes v0.1.4 [a33af91c] + CompositionsBase v0.1.2 [2569d6c7] + ConcreteStructs v0.2.3 [187b0558] + ConstructionBase v1.6.0 [adafc99b] + CpuId v0.3.1 [9a962f9c] + DataAPI v1.16.0 ⌅ [864edb3b] + DataStructures v0.18.22 [2b5f629d] + DiffEqBase v6.199.0 [459566f4] + DiffEqCallbacks v4.12.0 [77a26b50] + DiffEqNoiseProcess v5.26.0 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [a0c0ee7d] + DifferentiationInterface v0.7.14 [8d63f2c5] + DispatchDoctor v0.4.27 [31c24e10] + Distributions v0.25.123 [ffbed154] + DocStringExtensions v0.9.5 [5b8099bc] + DomainSets v0.7.16 ⌃ [7c1d4256] + DynamicPolynomials v0.6.3 [06fc5a27] + DynamicQuantities v1.11.0 [4e289a0a] + EnumX v1.0.5 [f151be2c] + EnzymeCore v0.8.18 [e2ba6199] + ExprTools v0.1.10 [55351af7] + ExproniconLite v0.10.14 [7034ab61] + FastBroadcast v0.3.5 [9aa1b823] + FastClosures v0.3.2 [a4df4552] + FastPower v1.3.0 [1a297f60] + FillArrays v1.16.0 [64ca27bc] + FindFirstFunctions v1.7.0 [6a86dc24] + FiniteDiff v2.29.0 [1fa38f19] + Format v1.3.7 [f6369f11] + ForwardDiff v1.3.1 [069b7b12] + FunctionWrappers v1.1.3 [77dc65aa] + FunctionWrappersWrappers v0.1.3 [d9f16b24] + Functors v0.5.2 [46192b85] + GPUArraysCore v0.2.0 [c27321d9] + Glob v1.4.0 ⌃ [86223c79] + Graphs v1.13.1 [34004b35] + HypergeometricFunctions v0.3.28 [615f187c] + IfElse v0.1.1 [d25df0c9] + Inflate v0.1.5 [18e54dd8] + IntegerMathUtils v0.1.3 [8197267c] + IntervalSets v0.7.13 [3587e190] + InverseFunctions v0.1.17 [92d709cd] + IrrationalConstants v0.2.6 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 [ae98c720] + Jieko v0.2.1 [98e50ef6] + JuliaFormatter v2.2.0 ⌅ [70703baa] + JuliaSyntax v0.4.10 [ccbc3e58] + JumpProcesses v9.21.0 [ba0b0d4f] + Krylov v0.10.3 [b964fa9f] + LaTeXStrings v1.4.0 [23fbe1c1] + Latexify v0.16.10 [10f19ff3] + LayoutPointers v0.1.17 [87fe0de2] + LineSearch v0.1.6 [7ed4a6bd] + LinearSolve v3.57.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [e6f89c97] + LoggingExtras v1.2.0 [d8e11817] + MLStyle v0.4.17 [1914dd2f] + MacroTools v0.5.16 [d125e4d3] + ManualMemory v0.1.8 [bb5d69b7] + MaybeInplace v0.1.4 [e1d29d7a] + Missings v1.2.0 ⌅ [961ee093] + ModelingToolkit v9.84.0 [2e0e35c7] + Moshi v0.3.7 [46d2c3a1] + MuladdMacro v0.2.4 ⌃ [102ac46a] + MultivariatePolynomials v0.5.9 [d8a4904e] + MutableArithmetics v1.6.7 [77ba4419] + NaNMath v1.1.3 [8913a72c] + NonlinearSolve v4.14.0 [be0214bd] + NonlinearSolveBase v2.9.2 [5959db7a] + NonlinearSolveFirstOrder v1.11.0 [9a2c21bd] + NonlinearSolveQuasiNewton v1.12.0 [26075421] + NonlinearSolveSpectralMethods v1.6.0 [6fe1bfb0] + OffsetArrays v1.17.0 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.37 [d96e819e] + Parameters v0.12.3 [e409e4f3] + PoissonRandom v0.4.7 [f517fe37] + Polyester v0.7.18 [1d0040c9] + PolyesterWeave v0.2.2 ⌃ [d236fae5] + PreallocationTools v0.4.34 ⌅ [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.5.1 [27ebfcd6] + Primes v0.5.7 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [74087812] + Random123 v1.7.1 [e6cf234a] + RandomNumbers v1.6.0 [b4db0fb7] + ReactionNetworkImporters v0.16.1 [3cdcf5f2] + RecipesBase v1.3.4 [731186ca] + RecursiveArrayTools v3.44.0 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [ae5879a3] + ResettableStacks v1.2.0 [79098fc4] + Rmath v0.9.0 [7e49a35a] + RuntimeGeneratedFunctions v0.5.16 [e5567a89] + SBML v1.6.0 [210efffb] + SBMLImporter v3.2.3 [9dfe8606] + SCCNonlinearSolve v1.9.0 [94e857df] + SIMDTypes v0.1.0 [0bca4576] + SciMLBase v2.134.0 [19f34311] + SciMLJacobianOperators v0.1.12 [a6db7da4] + SciMLLogging v1.8.0 [c0aeaf25] + SciMLOperators v1.14.1 [431bcebd] + SciMLPublic v1.0.1 [53ae85a6] + SciMLStructures v1.10.0 [efcf1570] + Setfield v1.1.2 [727e6d20] + SimpleNonlinearSolve v2.10.0 [699a6c99] + SimpleTraits v0.9.5 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.6.1 [aedffcd0] + Static v1.3.1 [0d7ed370] + StaticArrayInterface v1.8.0 [90137ffa] + StaticArrays v1.9.16 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.8.0 [2913bbd2] + StatsBase v0.34.10 [4c63d2b9] + StatsFuns v1.5.2 [7792a7ef] + StrideArraysCore v0.5.8 [2efcf032] + SymbolicIndexingInterface v0.3.46 ⌅ [19f23fe9] + SymbolicLimits v0.2.3 ⌅ [d1185830] + SymbolicUtils v3.32.0 ⌅ [0c5d862f] + Symbolics v6.58.0 [ed4db957] + TaskLocalValues v0.1.3 [8ea1fca8] + TermInterface v2.0.0 [1c621080] + TestItems v1.0.0 [8290d209] + ThreadingUtilities v0.5.5 [a759f4b9] + TimerOutputs v0.5.29 [410a4b4d] + Tricks v0.1.13 [781d530d] + TruncatedStacktraces v1.4.0 [5c2747f8] + URIs v1.6.1 [3a884ed6] + UnPack v1.0.2 [1986cc42] + Unitful v1.27.0 [a7c27f48] + Unityper v0.1.6 [61579ee1] + Ghostscript_jll v9.55.1+0 [1d5cc7b8] + IntelOpenMP_jll v2025.2.0+0 [aacddb02] + JpegTurbo_jll v3.1.4+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [856f044c] + MKL_jll v2025.2.0+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [bb12108a] + SBML_jll v5.21.0+0 ⌅ [02c8fc9c] + XML2_jll v2.13.9+0 [1317d2d5] + oneTBB_jll v2022.0.0+1 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [f43a241f] + Downloads v1.6.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.11.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.2.0 [44cfe95a] + Pkg v1.11.0 [de0858da] + Printf 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 v1.11.0 [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 v1.1.1+0 [deac9b47] + LibCURL_jll v8.6.0+0 [e37daf67] + LibGit2_jll v1.7.2+0 [29816b5a] + LibSSH2_jll v1.11.0+1 [c8ffd9c3] + MbedTLS_jll v2.28.6+0 [14a3606d] + MozillaCACerts_jll v2023.12.12 [4536629a] + OpenBLAS_jll v0.3.27+1 [05823500] + OpenLibm_jll v0.8.5+0 [bea87d4a] + SuiteSparse_jll v7.7.0+0 [83775a58] + Zlib_jll v1.2.13+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 [8e850ede] + nghttp2_jll v1.59.0+0 [3f19e933] + p7zip_jll v17.4.0+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` Installation completed after 8.46s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompiling project... 4895.9 ms ✓ DiffEqCallbacks → DiffEqCallbacksFunctorsExt 786020.5 ms ✓ Catalyst 48058.7 ms ✓ ReactionNetworkImporters 125425.1 ms ✓ SBMLImporter 50061.3 ms ✓ SBMLImporter → SBMLImporterForwardDiffExt 5 dependencies successfully precompiled in 1035 seconds. 347 already precompiled. Precompilation completed after 1040.9s ################################################################################ # Testing # Testing SBMLImporter Status `/tmp/jl_Jm6zNG/Project.toml` [4c88cf16] Aqua v0.8.14 [336ed68f] CSV v0.10.15 [479239e8] Catalyst v15.0.11 [b0b7db55] ComponentArrays v0.15.31 [a93c6f00] DataFrames v1.8.1 [2b5f629d] DiffEqBase v6.199.0 [ccbc3e58] JumpProcesses v9.21.0 ⌅ [961ee093] ModelingToolkit v9.84.0 [6ad6398a] OrdinaryDiffEqBDF v1.14.0 [43230ef6] OrdinaryDiffEqRosenbrock v1.22.0 ⌅ [aea7be01] PrecompileTools v1.2.1 [b4db0fb7] ReactionNetworkImporters v0.16.1 [7e49a35a] RuntimeGeneratedFunctions v0.5.16 [e5567a89] SBML v1.6.0 [210efffb] SBMLImporter v3.2.3 [1bc83da4] SafeTestsets v0.1.0 [0bca4576] SciMLBase v2.134.0 [efcf1570] Setfield v1.1.2 [276daf66] SpecialFunctions v2.6.1 [f43a241f] Downloads v1.6.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_Jm6zNG/Manifest.toml` [47edcb42] ADTypes v1.21.0 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.43 [79e6a3ab] Adapt v4.4.0 [66dad0bd] AliasTables v1.1.3 [4c88cf16] Aqua v0.8.14 [ec485272] ArnoldiMethod v0.4.0 [4fba245c] ArrayInterface v7.22.0 [4c555306] ArrayLayouts v1.12.2 [e2ed5e7c] Bijections v0.2.2 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [8e7c35d0] BlockArrays v1.9.3 [70df07ce] BracketingNonlinearSolve v1.6.2 [2a0fbf3d] CPUSummary v0.2.7 [336ed68f] CSV v0.10.15 [479239e8] Catalyst v15.0.11 [d360d2e6] ChainRulesCore v1.26.0 [fb6a15b2] CloseOpenIntervals v0.1.13 [944b1d66] CodecZlib v0.7.8 ⌅ [861a8166] Combinatorics v1.0.2 ⌅ [a80b9123] CommonMark v0.9.1 [38540f10] CommonSolve v0.2.6 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.18.1 [b0b7db55] ComponentArrays v0.15.31 [b152e2b5] CompositeTypes v0.1.4 [a33af91c] CompositionsBase v0.1.2 [2569d6c7] ConcreteStructs v0.2.3 [187b0558] ConstructionBase v1.6.0 [adafc99b] CpuId v0.3.1 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.8.1 ⌅ [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [2b5f629d] DiffEqBase v6.199.0 [459566f4] DiffEqCallbacks v4.12.0 [77a26b50] DiffEqNoiseProcess v5.26.0 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 [a0c0ee7d] DifferentiationInterface v0.7.14 [8d63f2c5] DispatchDoctor v0.4.27 [31c24e10] Distributions v0.25.123 [ffbed154] DocStringExtensions v0.9.5 [5b8099bc] DomainSets v0.7.16 ⌃ [7c1d4256] DynamicPolynomials v0.6.3 [06fc5a27] DynamicQuantities v1.11.0 [4e289a0a] EnumX v1.0.5 [f151be2c] EnzymeCore v0.8.18 [e2ba6199] ExprTools v0.1.10 [55351af7] ExproniconLite v0.10.14 [7034ab61] FastBroadcast v0.3.5 [9aa1b823] FastClosures v0.3.2 [a4df4552] FastPower v1.3.0 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.16.0 [64ca27bc] FindFirstFunctions v1.7.0 [6a86dc24] FiniteDiff v2.29.0 [1fa38f19] Format v1.3.7 [f6369f11] ForwardDiff v1.3.1 [069b7b12] FunctionWrappers v1.1.3 [77dc65aa] FunctionWrappersWrappers v0.1.3 [d9f16b24] Functors v0.5.2 [46192b85] GPUArraysCore v0.2.0 [c27321d9] Glob v1.4.0 ⌃ [86223c79] Graphs v1.13.1 [34004b35] HypergeometricFunctions v0.3.28 [615f187c] IfElse v0.1.1 [d25df0c9] Inflate v0.1.5 [842dd82b] InlineStrings v1.4.5 [18e54dd8] IntegerMathUtils v0.1.3 [8197267c] IntervalSets v0.7.13 [3587e190] InverseFunctions v0.1.17 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.6 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.1 [ae98c720] Jieko v0.2.1 [98e50ef6] JuliaFormatter v2.2.0 ⌅ [70703baa] JuliaSyntax v0.4.10 [ccbc3e58] JumpProcesses v9.21.0 [ba0b0d4f] Krylov v0.10.3 [b964fa9f] LaTeXStrings v1.4.0 [23fbe1c1] Latexify v0.16.10 [10f19ff3] LayoutPointers v0.1.17 [87fe0de2] LineSearch v0.1.6 [7ed4a6bd] LinearSolve v3.57.0 [2ab3a3ac] LogExpFunctions v0.3.29 [e6f89c97] LoggingExtras v1.2.0 [d8e11817] MLStyle v0.4.17 [1914dd2f] MacroTools v0.5.16 [d125e4d3] ManualMemory v0.1.8 [bb5d69b7] MaybeInplace v0.1.4 [e1d29d7a] Missings v1.2.0 ⌅ [961ee093] ModelingToolkit v9.84.0 [2e0e35c7] Moshi v0.3.7 [46d2c3a1] MuladdMacro v0.2.4 ⌃ [102ac46a] MultivariatePolynomials v0.5.9 [d8a4904e] MutableArithmetics v1.6.7 [77ba4419] NaNMath v1.1.3 [8913a72c] NonlinearSolve v4.14.0 [be0214bd] NonlinearSolveBase v2.9.2 [5959db7a] NonlinearSolveFirstOrder v1.11.0 [9a2c21bd] NonlinearSolveQuasiNewton v1.12.0 [26075421] NonlinearSolveSpectralMethods v1.6.0 [6fe1bfb0] OffsetArrays v1.17.0 [bac558e1] OrderedCollections v1.8.1 [6ad6398a] OrdinaryDiffEqBDF v1.14.0 ⌃ [bbf590c4] OrdinaryDiffEqCore v3.1.0 [4302a76b] OrdinaryDiffEqDifferentiation v1.22.0 [127b3ac7] OrdinaryDiffEqNonlinearSolve v1.19.0 [43230ef6] OrdinaryDiffEqRosenbrock v1.22.0 [2d112036] OrdinaryDiffEqSDIRK v1.11.0 [90014a1f] PDMats v0.11.37 [d96e819e] Parameters v0.12.3 [69de0a69] Parsers v2.8.3 [e409e4f3] PoissonRandom v0.4.7 [f517fe37] Polyester v0.7.18 [1d0040c9] PolyesterWeave v0.2.2 [2dfb63ee] PooledArrays v1.4.3 ⌃ [d236fae5] PreallocationTools v0.4.34 ⌅ [aea7be01] PrecompileTools v1.2.1 [21216c6a] Preferences v1.5.1 [08abe8d2] PrettyTables v3.1.2 [27ebfcd6] Primes v0.5.7 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [74087812] Random123 v1.7.1 [e6cf234a] RandomNumbers v1.6.0 [b4db0fb7] ReactionNetworkImporters v0.16.1 [3cdcf5f2] RecipesBase v1.3.4 [731186ca] RecursiveArrayTools v3.44.0 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [ae5879a3] ResettableStacks v1.2.0 [79098fc4] Rmath v0.9.0 [7e49a35a] RuntimeGeneratedFunctions v0.5.16 [e5567a89] SBML v1.6.0 [210efffb] SBMLImporter v3.2.3 [9dfe8606] SCCNonlinearSolve v1.9.0 [94e857df] SIMDTypes v0.1.0 [1bc83da4] SafeTestsets v0.1.0 [0bca4576] SciMLBase v2.134.0 [19f34311] SciMLJacobianOperators v0.1.12 [a6db7da4] SciMLLogging v1.8.0 [c0aeaf25] SciMLOperators v1.14.1 [431bcebd] SciMLPublic v1.0.1 [53ae85a6] SciMLStructures v1.10.0 [91c51154] SentinelArrays v1.4.9 [efcf1570] Setfield v1.1.2 [727e6d20] SimpleNonlinearSolve v2.10.0 [699a6c99] SimpleTraits v0.9.5 [a2af1166] SortingAlgorithms v1.2.2 [0a514795] SparseMatrixColorings v0.4.23 [276daf66] SpecialFunctions v2.6.1 [aedffcd0] Static v1.3.1 [0d7ed370] StaticArrayInterface v1.8.0 [90137ffa] StaticArrays v1.9.16 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.8.0 [2913bbd2] StatsBase v0.34.10 [4c63d2b9] StatsFuns v1.5.2 [7792a7ef] StrideArraysCore v0.5.8 [892a3eda] StringManipulation v0.4.2 [2efcf032] SymbolicIndexingInterface v0.3.46 ⌅ [19f23fe9] SymbolicLimits v0.2.3 ⌅ [d1185830] SymbolicUtils v3.32.0 ⌅ [0c5d862f] Symbolics v6.58.0 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [ed4db957] TaskLocalValues v0.1.3 [8ea1fca8] TermInterface v2.0.0 [1c621080] TestItems v1.0.0 [8290d209] ThreadingUtilities v0.5.5 [a759f4b9] TimerOutputs v0.5.29 [3bb67fe8] TranscodingStreams v0.11.3 [410a4b4d] Tricks v0.1.13 [781d530d] TruncatedStacktraces v1.4.0 [5c2747f8] URIs v1.6.1 [3a884ed6] UnPack v1.0.2 [1986cc42] Unitful v1.27.0 [a7c27f48] Unityper v0.1.6 [ea10d353] WeakRefStrings v1.4.2 [76eceee3] WorkerUtilities v1.6.1 [61579ee1] Ghostscript_jll v9.55.1+0 [1d5cc7b8] IntelOpenMP_jll v2025.2.0+0 [aacddb02] JpegTurbo_jll v3.1.4+0 [94ce4f54] Libiconv_jll v1.18.0+0 [856f044c] MKL_jll v2025.2.0+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [bb12108a] SBML_jll v5.21.0+0 ⌅ [02c8fc9c] XML2_jll v2.13.9+0 [1317d2d5] oneTBB_jll v2022.0.0+1 [0dad84c5] ArgTools v1.1.2 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [8ba89e20] Distributed v1.11.0 [f43a241f] Downloads v1.6.0 [7b1f6079] FileWatching v1.11.0 [9fa8497b] Future v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [4af54fe1] LazyArtifacts v1.11.0 [b27032c2] LibCURL v0.6.4 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.11.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.2.0 [44cfe95a] Pkg v1.11.0 [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 v1.11.0 [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 v1.1.1+0 [deac9b47] LibCURL_jll v8.6.0+0 [e37daf67] LibGit2_jll v1.7.2+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.6+0 [14a3606d] MozillaCACerts_jll v2023.12.12 [4536629a] OpenBLAS_jll v0.3.27+1 [05823500] OpenLibm_jll v0.8.5+0 [bea87d4a] SuiteSparse_jll v7.7.0+0 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.59.0+0 [3f19e933] p7zip_jll v17.4.0+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. Testing Running tests... Test Summary: | Pass Total Time Aqua Quality Check | 10 10 8m50.7s Precompiling OrdinaryDiffEqRosenbrock... 13646.4 ms ✓ OrdinaryDiffEqCore 4875.6 ms ✓ OrdinaryDiffEqCore → OrdinaryDiffEqCoreEnzymeCoreExt 14490.4 ms ✓ OrdinaryDiffEqDifferentiation 8727.5 ms ✓ OrdinaryDiffEqDifferentiation → OrdinaryDiffEqDifferentiationSparseArraysExt 56578.9 ms ✓ OrdinaryDiffEqRosenbrock 5 dependencies successfully precompiled in 102 seconds. 185 already precompiled. ┌ Warning: `sys.name` like `sys.name` is deprecated. Use getters like `get_name` instead. │ caller = ip:0x0 └ @ Core :-1 ┌ Warning: DiscreteProblem(rn::ReactionSystem, ...) is deprecated and will be removed in Catalyst 16. Use JumpInputs(rn, ...) instead. │ caller = top-level scope at curated_jump_test.jl:35 └ @ Core ~/.julia/packages/SBMLImporter/T7bjU/test/curated_jump_test.jl:35 ┌ Warning: JumpProblem(rn::ReactionSystem, prob, ...) is deprecated and will be removed in Catalyst 16. Use JumpProblem(JumpInputs(rn, ...), ...) instead. │ caller = top-level scope at curated_jump_test.jl:36 └ @ Core ~/.julia/packages/SBMLImporter/T7bjU/test/curated_jump_test.jl:36 ┌ Warning: DiscreteProblem(rn::ReactionSystem, ...) is deprecated and will be removed in Catalyst 16. Use JumpInputs(rn, ...) instead. │ caller = top-level scope at curated_jump_test.jl:37 └ @ Core ~/.julia/packages/SBMLImporter/T7bjU/test/curated_jump_test.jl:37 ┌ Warning: JumpProblem(rn::ReactionSystem, prob, ...) is deprecated and will be removed in Catalyst 16. Use JumpProblem(JumpInputs(rn, ...), ...) instead. │ caller = top-level scope at curated_jump_test.jl:38 └ @ Core ~/.julia/packages/SBMLImporter/T7bjU/test/curated_jump_test.jl:38 Test Summary: | Pass Total Time Currated jump simulation test | 10 10 8m40.6s Test Summary: | Pass Total Time Inline assignment rules | 15 15 5m20.7s ┌ Warning: Assignment to `prn` in soft scope is ambiguous because a global variable by the same name exists: `prn` will be treated as a new local. Disambiguate by using `local prn` to suppress this warning or `global prn` to assign to the existing global variable. └ @ ~/.julia/packages/SBMLImporter/T7bjU/test/kineticlaw_parameters.jl:33 ┌ Warning: Assignment to `cb` in soft scope is ambiguous because a global variable by the same name exists: `cb` will be treated as a new local. Disambiguate by using `local cb` to suppress this warning or `global cb` to assign to the existing global variable. └ @ ~/.julia/packages/SBMLImporter/T7bjU/test/kineticlaw_parameters.jl:33 Test Summary: | Pass Total Time Kinetic law parameters | 8 8 39.3s Test Summary: | Pass Total Time Ifelse to callback | 9 9 48.7s Test Summary: | Pass Total Time Test write parsed model to file | 3 3 27.9s Test Summary: | Pass Total Time Reaction metadata | 6 6 1.2s [ Info: Model New_Model [ Info: Model Boehm_JProteomeRes2014 [ Info: Model Brannmark_JBC2010 [ Info: Model jak2_stat5_feedbacks ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 163 running 1 of 1 signal (10): User defined signal 1 _ZN4llvm16InstCombinerImpl13visitICmpInstERNS_8ICmpInstE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm16InstCombinerImpl3runEv at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZL31combineInstructionsOverFunctionRN4llvm8FunctionERNS_19InstructionWorklistEPNS_9AAResultsERNS_15AssumptionCacheERNS_17TargetLibraryInfoERNS_19TargetTransformInfoERNS_13DominatorTreeERNS_25OptimizationRemarkEmitterEPNS_18BlockFrequencyInfoEPNS_18ProfileSummaryInfoEjPNS_8LoopInfoE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm15InstCombinePass3runERNS_8FunctionERNS_15AnalysisManagerIS1_JEEE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) run at /source/usr/include/llvm/IR/PassManagerInternal.h:89 run at /source/usr/include/llvm/IR/PassManager.h:517 [inlined] run at /source/usr/include/llvm/IR/PassManagerInternal.h:89 _ZN4llvm27ModuleToFunctionPassAdaptor3runERNS_6ModuleERNS_15AnalysisManagerIS1_JEEE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) run at /source/usr/include/llvm/IR/PassManagerInternal.h:89 _ZN4llvm11PassManagerINS_6ModuleENS_15AnalysisManagerIS1_JEEEJEE3runERS1_RS3_ at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) run at /source/src/pipeline.cpp:777 operator() at /source/src/jitlayers.cpp:1298 withModuleDo<(anonymous namespace)::OptimizerT::operator()(llvm::orc::ThreadSafeModule, llvm::orc::MaterializationResponsibility&) [with long unsigned int N = 4]:: > at /source/usr/include/llvm/ExecutionEngine/Orc/ThreadSafeModule.h:136 [inlined] operator() at /source/src/jitlayers.cpp:1259 [inlined] CallImpl<(anonymous namespace)::OptimizerT<4> > at /source/usr/include/llvm/ADT/FunctionExtras.h:221 _ZN4llvm3orc16IRTransformLayer4emitESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EENS0_16ThreadSafeModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16IRTransformLayer4emitESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EENS0_16ThreadSafeModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16IRTransformLayer4emitESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EENS0_16ThreadSafeModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc31BasicIRLayerMaterializationUnit11materializeESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc19MaterializationTask3runEv at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm6detail18UniqueFunctionBaseIvJSt10unique_ptrINS_3orc4TaskESt14default_deleteIS4_EEEE8CallImplIPFvS7_EEEvPvRS7_ at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession22dispatchOutstandingMUsEv at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession17OL_completeLookupESt10unique_ptrINS0_21InProgressLookupStateESt14default_deleteIS3_EESt10shared_ptrINS0_23AsynchronousSymbolQueryEESt8functionIFvRKNS_8DenseMapIPNS0_8JITDylibENS_8DenseSetINS0_15SymbolStringPtrENS_12DenseMapInfoISF_vEEEENSG_ISD_vEENS_6detail12DenseMapPairISD_SI_EEEEEE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc25InProgressFullLookupState8completeESt10unique_ptrINS0_21InProgressLookupStateESt14default_deleteIS3_EE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession19OL_applyQueryPhase1ESt10unique_ptrINS0_21InProgressLookupStateESt14default_deleteIS3_EENS_5ErrorE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession6lookupENS0_10LookupKindERKSt6vectorISt4pairIPNS0_8JITDylibENS0_19JITDylibLookupFlagsEESaIS8_EENS0_15SymbolLookupSetENS0_11SymbolStateENS_15unique_functionIFvNS_8ExpectedINS_8DenseMapINS0_15SymbolStringPtrENS_18JITEvaluatedSymbolENS_12DenseMapInfoISI_vEENS_6detail12DenseMapPairISI_SJ_EEEEEEEEESt8functionIFvRKNSH_IS6_NS_8DenseSetISI_SL_EENSK_IS6_vEENSN_IS6_SV_EEEEEE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession6lookupERKSt6vectorISt4pairIPNS0_8JITDylibENS0_19JITDylibLookupFlagsEESaIS7_EENS0_15SymbolLookupSetENS0_10LookupKindENS0_11SymbolStateESt8functionIFvRKNS_8DenseMapIS5_NS_8DenseSetINS0_15SymbolStringPtrENS_12DenseMapInfoISI_vEEEENSJ_IS5_vEENS_6detail12DenseMapPairIS5_SL_EEEEEE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) addModule at /source/src/jitlayers.cpp:1875 jl_add_to_ee at /source/src/jitlayers.cpp:2306 jl_add_to_ee at /source/src/jitlayers.cpp:2285 jl_add_to_ee at /source/src/jitlayers.cpp:2285 _jl_compile_codeinst at /source/src/jitlayers.cpp:277 jl_generate_fptr_impl at /source/src/jitlayers.cpp:536 jl_compile_method_internal at /source/src/gf.c:2538 [inlined] jl_compile_method_internal at /source/src/gf.c:2425 _jl_invoke at /source/src/gf.c:2943 [inlined] ijl_apply_generic at /source/src/gf.c:3128 #test_odeproblem_import#1 at /home/pkgeval/.julia/packages/SBMLImporter/T7bjU/test/odeproblem_import.jl:22 test_odeproblem_import at /home/pkgeval/.julia/packages/SBMLImporter/T7bjU/test/odeproblem_import.jl:7 unknown function (ip: 0x75b00fb93e92) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 macro expansion at /home/pkgeval/.julia/packages/SBMLImporter/T7bjU/test/odeproblem_import.jl:40 [inlined] macro expansion at /source/usr/share/julia/stdlib/v1.11/Test/src/Test.jl:1709 [inlined] top-level scope at /home/pkgeval/.julia/packages/SBMLImporter/T7bjU/test/odeproblem_import.jl:39 _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_invoke at /source/src/gf.c:2958 jl_toplevel_eval_flex at /source/src/toplevel.c:934 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2777 _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 _include at ./loading.jl:2837 include at ./Base.jl:562 jfptr_include_47030.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_apply at /source/src/julia.h:2157 [inlined] jl_f__call_latest at /source/src/builtins.c:875 include at /home/pkgeval/.julia/packages/SafeTestsets/raUNr/src/SafeTestsets.jl:28 unknown function (ip: 0x75b00fb856c2) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 eval_body at /source/src/interpreter.c:539 eval_body at /source/src/interpreter.c:539 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_eval_module_expr at /source/src/toplevel.c:215 [inlined] jl_toplevel_eval_flex at /source/src/toplevel.c:743 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 jfptr_eval_28361.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2777 _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 _include at ./loading.jl:2837 include at ./sysimg.jl:38 unknown function (ip: 0x75b07a300082) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] exec_options at ./client.jl:289 _start at ./client.jl:524 jfptr__start_73686.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_apply at /source/src/julia.h:2157 [inlined] true_main at /source/src/jlapi.c:900 jl_repl_entrypoint at /source/src/jlapi.c:1059 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x75b07b8a5249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) unknown function (ip: (nil)) ============================================================== Profile collected. A report will print at the next yield point ============================================================== [ Info: Model Beer_MolBioSystems2014 ====================================================================================== 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:522 poptask at ./task.jl:1012 wait at ./task.jl:1021 #wait#733 at ./condition.jl:130 wait at ./condition.jl:125 [inlined] wait at ./process.jl:694 wait at ./process.jl:687 unknown function (ip: 0x7f8b99eea222) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 subprocess_handler at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2146 #131 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2086 withenv at ./env.jl:265 #118 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1935 with_temp_env at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1793 #116 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1902 #mktempdir#28 at ./file.jl:819 unknown function (ip: 0x7f8b99ee296d) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 mktempdir at ./file.jl:815 mktempdir at ./file.jl:815 [inlined] #sandbox#115 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1849 [inlined] sandbox at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1841 unknown function (ip: 0x7f8b99ed6eea) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 #test#128 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2067 test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2011 [inlined] #test#146 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:481 test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:460 unknown function (ip: 0x7f8b99ed6bed) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 #test#77 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:159 unknown function (ip: 0x7f8b99ed65cd) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:148 #test#75 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:147 [inlined] test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:147 [inlined] #test#74 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:146 [inlined] test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:146 unknown function (ip: 0x7f8b99ed2a66) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 eval_body at /source/src/interpreter.c:539 eval_body at /source/src/interpreter.c:539 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2777 _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 _include at ./loading.jl:2837 include at ./Base.jl:562 jfptr_include_47030.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 exec_options at ./client.jl:316 _start at ./client.jl:524 jfptr__start_73686.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_apply at /source/src/julia.h:2157 [inlined] true_main at /source/src/jlapi.c:900 jl_repl_entrypoint at /source/src/jlapi.c:1059 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x7f8b9b390249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) unknown function (ip: (nil)) ============================================================== 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/v1.11/Profile/src/Profile.jl:1240 Overhead ╎ [+additional indent] Count File:Line; Function ========================================================= Thread 1 Task 0x00007f8b8e5fc010 Total snapshots: 41. Utilization: 0% ╎41 @Base/client.jl:524; _start() ╎ 41 @Base/client.jl:316; exec_options(opts::Base.JLOptions) ╎ 41 @Base/Base.jl:562; include(mod::Module, _path::String) ╎ 41 @Base/loading.jl:2837; _include(mapexpr::Function, mod::Module, _path:… ╎ 41 @Base/loading.jl:2777; include_string(mapexpr::typeof(identity), mod:… ╎ 41 @Base/boot.jl:430; eval ╎ ╎ 41 @Pkg/src/API.jl:146; kwcall(::@NamedTuple{julia_args::Cmd}, ::typeo… ╎ ╎ 41 @Pkg/src/API.jl:146; #test#74 ╎ ╎ 41 @Pkg/src/API.jl:147; test ╎ ╎ 41 @Pkg/src/API.jl:147; #test#75 ╎ ╎ 41 @Pkg/src/API.jl:148; kwcall(::@NamedTuple{julia_args::Cmd}, ::t… ╎ ╎ ╎ 41 @Pkg/src/API.jl:159; test(pkgs::Vector{Pkg.Types.PackageSpec};… ╎ ╎ ╎ 41 @Pkg/src/API.jl:460; kwcall(::@NamedTuple{julia_args::Cmd, io… ╎ ╎ ╎ 41 @Pkg/src/API.jl:481; test(ctx::Pkg.Types.Context, pkgs::Vect… ╎ ╎ ╎ 41 …src/Operations.jl:2011; test ╎ ╎ ╎ 41 …src/Operations.jl:2067; test(ctx::Pkg.Types.Context, pkgs… ╎ ╎ ╎ ╎ 41 …rc/Operations.jl:1841; kwcall(::@NamedTuple{preferences:… ╎ ╎ ╎ ╎ 41 …rc/Operations.jl:1849; #sandbox#115 ╎ ╎ ╎ ╎ 41 @Base/file.jl:815; mktempdir ╎ ╎ ╎ ╎ 41 @Base/file.jl:815; mktempdir(fn::Function, parent::Str… ╎ ╎ ╎ ╎ 41 @Base/file.jl:819; mktempdir(fn::Pkg.Operations.var"#… ╎ ╎ ╎ ╎ ╎ 41 …/Operations.jl:1902; (::Pkg.Operations.var"#116#121… ╎ ╎ ╎ ╎ ╎ 41 …/Operations.jl:1793; with_temp_env(fn::Pkg.Operati… ╎ ╎ ╎ ╎ ╎ 41 …Operations.jl:1935; (::Pkg.Operations.var"#118#12… ╎ ╎ ╎ ╎ ╎ 41 @Base/env.jl:265; withenv(::Pkg.Operations.var"#1… ╎ ╎ ╎ ╎ ╎ 41 …Operations.jl:2086; (::Pkg.Operations.var"#131#… ╎ ╎ ╎ ╎ ╎ ╎ 41 …perations.jl:2146; subprocess_handler(cmd::Cmd… ╎ ╎ ╎ ╎ ╎ ╎ 41 …e/process.jl:687; wait(x::Base.Process) ╎ ╎ ╎ ╎ ╎ ╎ 41 …e/process.jl:694; wait(x::Base.Process, sync… ╎ ╎ ╎ ╎ ╎ ╎ 41 …ondition.jl:125; wait ╎ ╎ ╎ ╎ ╎ ╎ 41 …ondition.jl:130; wait(c::Base.GenericCondi… ╎ ╎ ╎ ╎ ╎ ╎ ╎ 41 …ase/task.jl:1021; wait() 40╎ ╎ ╎ ╎ ╎ ╎ ╎ 41 …ase/task.jl:1012; poptask(W::Base.Intrus… [1] signal 15: Terminated in expression starting at /PkgEval.jl/scripts/evaluate.jl:214 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:522 poptask at ./task.jl:1012 [163] signal 15: Terminated in expression starting at /home/pkgeval/.julia/packages/SBMLImporter/T7bjU/test/odeproblem_import.jl:38 wait at ./task.jl:1021 #wait#733 at ./condition.jl:130 _ZNK4llvm4User10getOperandEj at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) wait at ./condition.jl:125 [inlined] _trywait at ./asyncevent.jl:145 profile_printing_listener at ./Base.jl:582 _ZN12_GLOBAL__N_18Verifier16visitInstructionERN4llvm11InstructionE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) #1192 at ./Base.jl:622 jfptr_YY.1192_76260.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_apply at /source/src/julia.h:2157 [inlined] _ZN12_GLOBAL__N_18Verifier6verifyERKN4llvm8FunctionE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm14verifyFunctionERKNS_8FunctionEPNS_11raw_ostreamE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) start_task at /source/src/task.c:1204 unknown function (ip: (nil)) Allocations: 25499120 (Pool: 25498230; Big: 890); GC: 28 verifyLLVMIR at /source/src/pipeline.cpp:874 val already in a list atexit hook threw an error: ErrorException("schedule: Task not runnable") run at /source/src/llvm-final-gc-lowering.cpp:286 run at /source/usr/include/llvm/IR/PassManagerInternal.h:89 run at /source/usr/include/llvm/IR/PassManager.h:517 [inlined] run at /source/usr/include/llvm/IR/PassManagerInternal.h:89 _ZN4llvm27ModuleToFunctionPassAdaptor3runERNS_6ModuleERNS_15AnalysisManagerIS1_JEEE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) run at /source/usr/include/llvm/IR/PassManagerInternal.h:89 _ZN4llvm11PassManagerINS_6ModuleENS_15AnalysisManagerIS1_JEEEJEE3runERS1_RS3_ at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) run at /source/src/pipeline.cpp:777 operator() at /source/src/jitlayers.cpp:1298 withModuleDo<(anonymous namespace)::OptimizerT::operator()(llvm::orc::ThreadSafeModule, llvm::orc::MaterializationResponsibility&) [with long unsigned int N = 4]:: > at /source/usr/include/llvm/ExecutionEngine/Orc/ThreadSafeModule.h:136 [inlined] operator() at /source/src/jitlayers.cpp:1259 [inlined] CallImpl<(anonymous namespace)::OptimizerT<4> > at /source/usr/include/llvm/ADT/FunctionExtras.h:221 _ZN4llvm3orc16IRTransformLayer4emitESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EENS0_16ThreadSafeModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16IRTransformLayer4emitESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EENS0_16ThreadSafeModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16IRTransformLayer4emitESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EENS0_16ThreadSafeModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc31BasicIRLayerMaterializationUnit11materializeESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc19MaterializationTask3runEv at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) error at ./error.jl:35 #schedule#763 at ./task.jl:884 _ZN4llvm6detail18UniqueFunctionBaseIvJSt10unique_ptrINS_3orc4TaskESt14default_deleteIS4_EEEE8CallImplIPFvS7_EEEvPvRS7_ at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession22dispatchOutstandingMUsEv at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession17OL_completeLookupESt10unique_ptrINS0_21InProgressLookupStateESt14default_deleteIS3_EESt10shared_ptrINS0_23AsynchronousSymbolQueryEESt8functionIFvRKNS_8DenseMapIPNS0_8JITDylibENS_8DenseSetINS0_15SymbolStringPtrENS_12DenseMapInfoISF_vEEEENSG_ISD_vEENS_6detail12DenseMapPairISD_SI_EEEEEE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) schedule at ./task.jl:876 [inlined] uv_writecb_task at ./stream.jl:1200 jfptr_uv_writecb_task_67137.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 _ZN4llvm3orc25InProgressFullLookupState8completeESt10unique_ptrINS0_21InProgressLookupStateESt14default_deleteIS3_EE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession19OL_applyQueryPhase1ESt10unique_ptrINS0_21InProgressLookupStateESt14default_deleteIS3_EENS_5ErrorE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession6lookupENS0_10LookupKindERKSt6vectorISt4pairIPNS0_8JITDylibENS0_19JITDylibLookupFlagsEESaIS8_EENS0_15SymbolLookupSetENS0_11SymbolStateENS_15unique_functionIFvNS_8ExpectedINS_8DenseMapINS0_15SymbolStringPtrENS_18JITEvaluatedSymbolENS_12DenseMapInfoISI_vEENS_6detail12DenseMapPairISI_SJ_EEEEEEEEESt8functionIFvRKNSH_IS6_NS_8DenseSetISI_SL_EENSK_IS6_vEENSN_IS6_SV_EEEEEE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession6lookupERKSt6vectorISt4pairIPNS0_8JITDylibENS0_19JITDylibLookupFlagsEESaIS7_EENS0_15SymbolLookupSetENS0_10LookupKindENS0_11SymbolStateESt8functionIFvRKNS_8DenseMapIS5_NS_8DenseSetINS0_15SymbolStringPtrENS_12DenseMapInfoISI_vEEEENSJ_IS5_vEENS_6detail12DenseMapPairIS5_SL_EEEEEE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) addModule at /source/src/jitlayers.cpp:1875 jlcapi_uv_writecb_task_67601.1 at /opt/julia/lib/julia/sys.so (unknown line) uv__write_callbacks at /workspace/srcdir/libuv/src/unix/stream.c:926 jl_add_to_ee at /source/src/jitlayers.cpp:2306 _jl_compile_codeinst at /source/src/jitlayers.cpp:277 jl_generate_fptr_impl at /source/src/jitlayers.cpp:536 jl_compile_method_internal at /source/src/gf.c:2538 [inlined] jl_compile_method_internal at /source/src/gf.c:2425 _jl_invoke at /source/src/gf.c:2943 [inlined] ijl_apply_generic at /source/src/gf.c:3128 #test_odeproblem_import#1 at /home/pkgeval/.julia/packages/SBMLImporter/T7bjU/test/odeproblem_import.jl:16 test_odeproblem_import at /home/pkgeval/.julia/packages/SBMLImporter/T7bjU/test/odeproblem_import.jl:7 unknown function (ip: 0x75b00fb93e92) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 macro expansion at /home/pkgeval/.julia/packages/SBMLImporter/T7bjU/test/odeproblem_import.jl:40 [inlined] macro expansion at /source/usr/share/julia/stdlib/v1.11/Test/src/Test.jl:1709 [inlined] top-level scope at /home/pkgeval/.julia/packages/SBMLImporter/T7bjU/test/odeproblem_import.jl:39 _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_invoke at /source/src/gf.c:2958 uv__stream_io at /workspace/srcdir/libuv/src/unix/stream.c:1227 jl_toplevel_eval_flex at /source/src/toplevel.c:934 uv__run_pending at /workspace/srcdir/libuv/src/unix/core.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 uv_run at /workspace/srcdir/libuv/src/unix/core.c:420 ijl_task_get_next at /source/src/scheduler.c:522 poptask at ./task.jl:1012 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2777 _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 wait at ./task.jl:1021 _include at ./loading.jl:2837 uv_write at ./stream.jl:1081 include at ./Base.jl:562 unsafe_write at ./stream.jl:1154 write at ./strings/io.jl:248 [inlined] print at ./strings/io.jl:250 jfptr_include_47030.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_apply at /source/src/julia.h:2157 [inlined] jl_f__call_latest at /source/src/builtins.c:875 include at /home/pkgeval/.julia/packages/SafeTestsets/raUNr/src/SafeTestsets.jl:28 unknown function (ip: 0x75b00fb856c2) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 eval_body at /source/src/interpreter.c:539 eval_body at /source/src/interpreter.c:539 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jfptr_print_48487.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 showerror at ./errorshow.jl:152 unknown function (ip: 0x7f8b99ef7346) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_eval_module_expr at /source/src/toplevel.c:215 [inlined] jl_toplevel_eval_flex at /source/src/toplevel.c:743 ijl_toplevel_eval_in at /source/src/toplevel.c:994 _atexit at ./initdefs.jl:454 eval at ./boot.jl:430 jfptr__atexit_69645.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_apply at /source/src/julia.h:2157 [inlined] ijl_atexit_hook at /source/src/init.c:271 jl_exit_thread0_cb at /source/src/signals-unix.c:517 jfptr_eval_28361.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2777 _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 _include at ./loading.jl:2837 include at ./sysimg.jl:38 unknown function (ip: 0x75b07a300082) _jl_invoke at /source/src/gf.c:2951 [inlined] ijl_apply_generic at /source/src/gf.c:3128 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] exec_options at ./client.jl:289 _start at ./client.jl:524 jfptr__start_73686.1 at /opt/julia/lib/julia/sys.so (unknown line) PkgEval terminated after 2725.48s: test duration exceeded the time limit