Package evaluation to test SBML on Julia 1.12.4 (0f21d93eaa*) started at 2026-01-26T18:42:01.417 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.12` Set-up completed after 8.28s ################################################################################ # Installation # Installing SBML... Resolving package versions... Updating `~/.julia/environments/v1.12/Project.toml` [e5567a89] + SBML v1.6.0 Updating `~/.julia/environments/v1.12/Manifest.toml` [ffbed154] + DocStringExtensions v0.9.5 [615f187c] + IfElse v0.1.1 [692b3bcd] + JLLWrappers v1.7.1 [21216c6a] + Preferences v1.5.1 [e5567a89] + SBML v1.6.0 [1986cc42] + Unitful v1.27.0 [94ce4f54] + Libiconv_jll v1.18.0+0 [bb12108a] + SBML_jll v5.21.0+0 ⌅ [02c8fc9c] + XML2_jll v2.13.9+0 [56f22d72] + Artifacts v1.11.0 [ade2ca70] + Dates v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.12.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [2f01184e] + SparseArrays v1.12.0 [fa267f1f] + TOML v1.0.3 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [4536629a] + OpenBLAS_jll v0.3.29+0 [bea87d4a] + SuiteSparse_jll v7.8.3+2 [83775a58] + Zlib_jll v1.3.1+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 To see why use `status --outdated -m` Installation completed after 5.16s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompiling packages... 6328.2 ms ✓ LambertW 3991.8 ms ✓ ConstructionBase 7388.1 ms ✓ DynamicPolynomials 1338.2 ms ✓ PreallocationTools → PreallocationToolsForwardDiffExt 4041.6 ms ✓ Unityper 781.4 ms ✓ ConstructionBase → ConstructionBaseIntervalSetsExt 1455.1 ms ✓ ConstructionBase → ConstructionBaseStaticArraysExt 831.3 ms ✓ ADTypes → ADTypesConstructionBaseExt 3062.7 ms ✓ Setfield 8286.0 ms ✓ Accessors 1921.4 ms ✓ Unitful → ConstructionBaseUnitfulExt 1873.0 ms ✓ Accessors → LinearAlgebraExt 1538.1 ms ✓ Accessors → TestExt 1816.6 ms ✓ Accessors → IntervalSetsExt 2023.5 ms ✓ Accessors → UnitfulExt 1573.3 ms ✓ Accessors → StaticArraysExt 7750.9 ms ✓ SciMLOperators 6671.4 ms ✓ SymbolicIndexingInterface 1765.7 ms ✓ SciMLOperators → SciMLOperatorsStaticArraysCoreExt 2811.1 ms ✓ SciMLOperators → SciMLOperatorsSparseArraysExt 12666.4 ms ✓ RecursiveArrayTools 1682.0 ms ✓ RecursiveArrayTools → RecursiveArrayToolsStatisticsExt 2022.5 ms ✓ RecursiveArrayTools → RecursiveArrayToolsSparseArraysExt 15263.0 ms ✓ RecursiveArrayTools → RecursiveArrayToolsForwardDiffExt 40675.3 ms ✓ SciMLBase 55475.1 ms ✓ LabelledArrays 65985.0 ms ✓ SciMLBase → SciMLBaseDistributionsExt 3669.0 ms ✓ SciMLBase → SciMLBaseChainRulesCoreExt 22724.8 ms ✓ SciMLBase → SciMLBaseForwardDiffExt 128954.9 ms ✓ SymbolicUtils 12066.5 ms ✓ SymbolicLimits 287500.5 ms ✓ Symbolics ✗ Symbolics → SymbolicsPreallocationToolsExt 32 dependencies successfully precompiled in 730 seconds. 155 already precompiled. ERROR: LoadError: The following 1 direct dependency failed to precompile: Symbolics → SymbolicsPreallocationToolsExt Failed to precompile SymbolicsPreallocationToolsExt [d479e226-fb54-5ebe-a75e-a7af7f39127f] to "/home/pkgeval/.julia/compiled/v1.12/SymbolicsPreallocationToolsExt/jl_E3ePHU". ERROR: LoadError: UndefVarError: `ForwardDiff` not defined in `PreallocationTools` Suggestion: check for spelling errors or missing imports. Hint: ForwardDiff is loaded but not imported in the active module Main. Stacktrace: [1] top-level scope @ ~/.julia/packages/Symbolics/qKoME/ext/SymbolicsPreallocationToolsExt.jl:5 [2] include(mod::Module, _path::String) @ Base ./Base.jl:306 [3] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing) @ Base ./loading.jl:3024 [4] top-level scope @ stdin:5 [5] eval(m::Module, e::Any) @ Core ./boot.jl:489 [6] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2870 [7] include_string @ ./loading.jl:2880 [inlined] [8] exec_options(opts::Base.JLOptions) @ Base ./client.jl:315 [9] _start() @ Base ./client.jl:550 in expression starting at /home/pkgeval/.julia/packages/Symbolics/qKoME/ext/SymbolicsPreallocationToolsExt.jl:1 in expression starting at stdin: in expression starting at /PkgEval.jl/scripts/precompile.jl:34 Precompilation failed after 740.9s ################################################################################ # Testing # Testing SBML Status `/tmp/jl_PNsQCt/Project.toml` ⌅ [187b0558] ConstructionBase v1.5.6 [ffbed154] DocStringExtensions v0.9.5 [615f187c] IfElse v0.1.1 [e5567a89] SBML v1.6.0 ⌅ [0c5d862f] Symbolics v5.36.0 [1986cc42] Unitful v1.27.0 [bb12108a] SBML_jll v5.21.0+0 [f43a241f] Downloads v1.7.0 [8f399da3] Libdl v1.11.0 [ea8e919c] SHA v0.7.0 [2f01184e] SparseArrays v1.12.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_PNsQCt/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 [4fba245c] ArrayInterface v7.22.0 ⌅ [e2ed5e7c] Bijections v0.1.10 [d360d2e6] ChainRulesCore v1.26.0 [861a8166] Combinatorics v1.1.0 [38540f10] CommonSolve v0.2.6 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.18.1 [b152e2b5] CompositeTypes v0.1.4 [a33af91c] CompositionsBase v0.1.2 ⌅ [187b0558] ConstructionBase v1.5.6 [9a962f9c] DataAPI v1.16.0 ⌅ [864edb3b] DataStructures v0.18.22 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 [31c24e10] Distributions v0.25.123 [ffbed154] DocStringExtensions v0.9.5 [5b8099bc] DomainSets v0.7.16 ⌅ [7c1d4256] DynamicPolynomials v0.5.7 [4e289a0a] EnumX v1.0.6 [e2ba6199] ExprTools v0.1.10 [55351af7] ExproniconLite v0.10.14 [1a297f60] FillArrays v1.16.0 [1fa38f19] Format v1.3.7 ⌅ [f6369f11] ForwardDiff v0.10.39 [069b7b12] FunctionWrappers v1.1.3 [77dc65aa] FunctionWrappersWrappers v0.1.3 [46192b85] GPUArraysCore v0.2.0 [34004b35] HypergeometricFunctions v0.3.28 [615f187c] IfElse v0.1.1 [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 [b964fa9f] LaTeXStrings v1.4.0 [2ee39098] LabelledArrays v1.18.0 ⌅ [984bce1d] LambertW v0.4.6 [23fbe1c1] Latexify v0.16.10 [2ab3a3ac] LogExpFunctions v0.3.29 [e6f89c97] LoggingExtras v1.2.0 [1914dd2f] MacroTools v0.5.16 [e1d29d7a] Missings v1.2.0 [2e0e35c7] Moshi v0.3.7 ⌃ [102ac46a] MultivariatePolynomials v0.5.9 [d8a4904e] MutableArithmetics v1.6.7 [77ba4419] NaNMath v1.1.3 [bac558e1] OrderedCollections v1.8.1 [90014a1f] PDMats v0.11.37 ⌃ [d236fae5] PreallocationTools v0.4.34 [aea7be01] PrecompileTools v1.3.3 [21216c6a] Preferences v1.5.1 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [3cdcf5f2] RecipesBase v1.3.4 [731186ca] RecursiveArrayTools v3.46.0 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [79098fc4] Rmath v0.9.0 [7e49a35a] RuntimeGeneratedFunctions v0.5.16 [e5567a89] SBML v1.6.0 [0bca4576] SciMLBase v2.135.0 [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 [a2af1166] SortingAlgorithms v1.2.2 [276daf66] SpecialFunctions v2.6.1 [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 [2efcf032] SymbolicIndexingInterface v0.3.46 ⌅ [19f23fe9] SymbolicLimits v0.2.1 ⌅ [d1185830] SymbolicUtils v2.1.3 ⌅ [0c5d862f] Symbolics v5.36.0 ⌅ [8ea1fca8] TermInterface v0.4.1 [a759f4b9] TimerOutputs v0.5.29 [1986cc42] Unitful v1.27.0 [a7c27f48] Unityper v0.1.6 [61579ee1] Ghostscript_jll v9.55.1+0 [aacddb02] JpegTurbo_jll v3.1.4+0 [94ce4f54] Libiconv_jll v1.18.0+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 [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 [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 [ca575930] NetworkOptions v1.3.0 [44cfe95a] Pkg v1.12.1 [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 [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 v3.5.4+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... Precompiling packages... 8051.7 ms ✓ SciMLOperators 11980.8 ms ✓ RecursiveArrayTools 1482.6 ms ✓ ConstructionBase → ConstructionBaseStaticArraysExt 1628.5 ms ✓ Accessors → StaticArraysExt 18306.6 ms ✓ Distributions 1248.0 ms ✓ PreallocationTools → PreallocationToolsForwardDiffExt 1161.4 ms ✓ SciMLOperators → SciMLOperatorsStaticArraysCoreExt 1701.7 ms ✓ SciMLOperators → SciMLOperatorsSparseArraysExt 1408.7 ms ✓ RecursiveArrayTools → RecursiveArrayToolsStatisticsExt 1847.8 ms ✓ RecursiveArrayTools → RecursiveArrayToolsSparseArraysExt 23343.5 ms ✓ RecursiveArrayTools → RecursiveArrayToolsForwardDiffExt 3581.2 ms ✓ Distributions → DistributionsTestExt 6951.1 ms ✓ Distributions → DistributionsChainRulesCoreExt 41800.8 ms ✓ SciMLBase 25221.6 ms ✓ LabelledArrays 46132.2 ms ✓ SciMLBase → SciMLBaseDistributionsExt 3808.5 ms ✓ SciMLBase → SciMLBaseChainRulesCoreExt 10220.0 ms ✓ SciMLBase → SciMLBaseForwardDiffExt 74909.7 ms ✓ SymbolicUtils 12866.6 ms ✓ SymbolicLimits 302900.5 ms ✓ Symbolics ✗ Symbolics → SymbolicsPreallocationToolsExt 21 dependencies successfully precompiled in 615 seconds. 154 already precompiled. ERROR: LoadError: The following 1 direct dependency failed to precompile: Symbolics → SymbolicsPreallocationToolsExt Failed to precompile SymbolicsPreallocationToolsExt [d479e226-fb54-5ebe-a75e-a7af7f39127f] to "/home/pkgeval/.julia/compiled/v1.12/SymbolicsPreallocationToolsExt/jl_sBZ8hh". ERROR: LoadError: UndefVarError: `ForwardDiff` not defined in `PreallocationTools` Suggestion: check for spelling errors or missing imports. Hint: ForwardDiff is loaded but not imported in the active module Main. Stacktrace: [1] top-level scope @ ~/.julia/packages/Symbolics/qKoME/ext/SymbolicsPreallocationToolsExt.jl:5 [2] include(mod::Module, _path::String) @ Base ./Base.jl:306 [3] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing) @ Base ./loading.jl:3024 [4] top-level scope @ stdin:5 [5] eval(m::Module, e::Any) @ Core ./boot.jl:489 [6] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2870 [7] include_string @ ./loading.jl:2880 [inlined] [8] exec_options(opts::Base.JLOptions) @ Base ./client.jl:315 [9] _start() @ Base ./client.jl:550 in expression starting at /home/pkgeval/.julia/packages/Symbolics/qKoME/ext/SymbolicsPreallocationToolsExt.jl:1 in expression starting at stdin: in expression starting at /home/pkgeval/.julia/packages/SBML/mJIpc/test/runtests.jl:10 Testing failed after 628.56s ERROR: LoadError: Package SBML 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:2535 [3] test @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2384 [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:538 [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 1409.75s: package fails to precompile