Package evaluation of Catalyst on Julia 1.13.0-DEV.843 (7634fdf1d6*) started at 2025-07-11T02:33:53.934 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.52s ################################################################################ # Installation # Installing Catalyst... Resolving package versions... Updating `~/.julia/environments/v1.13/Project.toml` [479239e8] + Catalyst v15.0.8 Updating `~/.julia/environments/v1.13/Manifest.toml` [47edcb42] + ADTypes v1.15.0 [1520ce14] + AbstractTrees v0.4.5 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.3.0 [66dad0bd] + AliasTables v1.1.3 [ec485272] + ArnoldiMethod v0.4.0 [4fba245c] + ArrayInterface v7.19.0 [4c555306] + ArrayLayouts v1.11.1 [e2ed5e7c] + Bijections v0.2.2 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [8e7c35d0] + BlockArrays v1.6.3 [70df07ce] + BracketingNonlinearSolve v1.3.0 [2a0fbf3d] + CPUSummary v0.2.6 [479239e8] + Catalyst v15.0.8 [d360d2e6] + ChainRulesCore v1.25.2 [fb6a15b2] + CloseOpenIntervals v0.1.13 [861a8166] + Combinatorics v1.0.3 [a80b9123] + CommonMark v0.9.1 [38540f10] + CommonSolve v0.2.4 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.17.0 [b152e2b5] + CompositeTypes v0.1.4 [a33af91c] + CompositionsBase v0.1.2 [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 [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [2b5f629d] + DiffEqBase v6.177.2 [459566f4] + DiffEqCallbacks v4.8.0 [77a26b50] + DiffEqNoiseProcess v5.24.1 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 ⌅ [a0c0ee7d] + DifferentiationInterface v0.6.54 [8d63f2c5] + DispatchDoctor v0.4.26 [31c24e10] + Distributions v0.25.120 [ffbed154] + DocStringExtensions v0.9.5 [5b8099bc] + DomainSets v0.7.15 [7c1d4256] + DynamicPolynomials v0.6.2 [06fc5a27] + DynamicQuantities v1.8.0 [4e289a0a] + EnumX v1.0.5 [f151be2c] + EnzymeCore v0.8.12 [e2ba6199] + ExprTools v0.1.10 [55351af7] + ExproniconLite v0.10.14 [7034ab61] + FastBroadcast v0.3.5 [9aa1b823] + FastClosures v0.3.2 [a4df4552] + FastPower v1.1.3 [1a297f60] + FillArrays v1.13.0 [64ca27bc] + FindFirstFunctions v1.4.1 [6a86dc24] + FiniteDiff v2.27.0 [1fa38f19] + Format v1.3.7 ⌅ [f6369f11] + ForwardDiff v0.10.38 [069b7b12] + FunctionWrappers v1.1.3 [77dc65aa] + FunctionWrappersWrappers v0.1.3 [d9f16b24] + Functors v0.5.2 [46192b85] + GPUArraysCore v0.2.0 [c27321d9] + Glob v1.3.1 [86223c79] + Graphs v1.13.0 [34004b35] + HypergeometricFunctions v0.3.28 [615f187c] + IfElse v0.1.1 [d25df0c9] + Inflate v0.1.5 [18e54dd8] + IntegerMathUtils v0.1.3 [8197267c] + IntervalSets v0.7.11 [3587e190] + InverseFunctions v0.1.17 [92d709cd] + IrrationalConstants v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.0 [ae98c720] + Jieko v0.2.1 [98e50ef6] + JuliaFormatter v2.1.2 ⌅ [70703baa] + JuliaSyntax v0.4.10 [ccbc3e58] + JumpProcesses v9.16.1 [ba0b0d4f] + Krylov v0.10.1 [b964fa9f] + LaTeXStrings v1.4.0 [23fbe1c1] + Latexify v0.16.8 [10f19ff3] + LayoutPointers v0.1.17 [5078a376] + LazyArrays v2.6.1 [87fe0de2] + LineSearch v0.1.4 [d3d80556] + LineSearches v7.4.0 [7ed4a6bd] + LinearSolve v3.18.2 [2ab3a3ac] + LogExpFunctions v0.3.29 [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 v9.82.0 [2e0e35c7] + Moshi v0.3.7 [46d2c3a1] + MuladdMacro v0.2.4 [102ac46a] + MultivariatePolynomials v0.5.9 [d8a4904e] + MutableArithmetics v1.6.4 [d41bc354] + NLSolversBase v7.10.0 [77ba4419] + NaNMath v1.1.3 [8913a72c] + NonlinearSolve v4.9.0 [be0214bd] + NonlinearSolveBase v1.12.0 [5959db7a] + NonlinearSolveFirstOrder v1.5.0 [9a2c21bd] + NonlinearSolveQuasiNewton v1.6.0 [26075421] + NonlinearSolveSpectralMethods v1.2.0 [6fe1bfb0] + OffsetArrays v1.17.0 [429524aa] + Optim v1.13.2 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.35 [d96e819e] + Parameters v0.12.3 [e409e4f3] + PoissonRandom v0.4.4 [f517fe37] + Polyester v0.7.18 [1d0040c9] + PolyesterWeave v0.2.2 [85a6dd25] + PositiveFactorizations v0.2.4 [aea7be01] + PrecompileTools v1.3.2 [21216c6a] + Preferences v1.4.3 [08abe8d2] + PrettyTables v2.4.0 [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 [3cdcf5f2] + RecipesBase v1.3.4 [731186ca] + RecursiveArrayTools v3.34.1 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [ae5879a3] + ResettableStacks v1.1.1 [79098fc4] + Rmath v0.8.0 [7e49a35a] + RuntimeGeneratedFunctions v0.5.15 [9dfe8606] + SCCNonlinearSolve v1.3.1 [94e857df] + SIMDTypes v0.1.0 [0bca4576] + SciMLBase v2.102.1 [19f34311] + SciMLJacobianOperators v0.1.6 [c0aeaf25] + SciMLOperators v1.3.1 [53ae85a6] + SciMLStructures v1.7.0 [efcf1570] + Setfield v1.1.2 [727e6d20] + SimpleNonlinearSolve v2.5.0 [699a6c99] + SimpleTraits v0.9.4 [a2af1166] + SortingAlgorithms v1.2.1 [0a514795] + SparseMatrixColorings v0.4.21 [276daf66] + SpecialFunctions v2.5.1 [aedffcd0] + Static v1.2.0 [0d7ed370] + StaticArrayInterface v1.8.0 [90137ffa] + StaticArrays v1.9.13 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.5 [4c63d2b9] + StatsFuns v1.5.0 [7792a7ef] + StrideArraysCore v0.5.7 [892a3eda] + StringManipulation v0.4.1 [2efcf032] + SymbolicIndexingInterface v0.3.41 [19f23fe9] + SymbolicLimits v0.2.2 [d1185830] + SymbolicUtils v3.29.0 [0c5d862f] + Symbolics v6.43.0 [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 [410a4b4d] + Tricks v0.1.10 [781d530d] + TruncatedStacktraces v1.4.0 [5c2747f8] + URIs v1.6.1 [3a884ed6] + UnPack v1.0.2 [1986cc42] + Unitful v1.23.1 [a7c27f48] + Unityper v0.1.6 [897b6980] + WeakValueDicts v0.1.0 [1d5cc7b8] + IntelOpenMP_jll v2025.0.4+0 [856f044c] + MKL_jll v2025.0.1+1 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [1317d2d5] + oneTBB_jll v2022.0.0+0 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [f43a241f] + Downloads v1.7.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.12.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.13.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.12.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.14.1+1 [e37daf67] + LibGit2_jll v1.9.1+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.5.20 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.5+0 [458c3c95] + OpenSSL_jll v3.5.1+0 [efcefdf7] + PCRE2_jll v10.45.0+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.13.1+0 [8e850ede] + nghttp2_jll v1.65.0+0 [3f19e933] + p7zip_jll v17.5.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 5.46s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 926.42s ################################################################################ # Testing # Testing Catalyst Status `/tmp/jl_zKYt8f/Project.toml` [479239e8] Catalyst v15.0.8 [861a8166] Combinatorics v1.0.3 [82cc6244] DataInterpolations v8.1.0 [864edb3b] DataStructures v0.18.22 [2b5f629d] DiffEqBase v6.177.2 [459566f4] DiffEqCallbacks v4.8.0 [ffbed154] DocStringExtensions v0.9.5 [5b8099bc] DomainSets v0.7.15 [7c1d4256] DynamicPolynomials v0.6.2 [06fc5a27] DynamicQuantities v1.8.0 [4e289a0a] EnumX v1.0.5 [86223c79] Graphs v1.13.0 [ccbc3e58] JumpProcesses v9.16.1 [b964fa9f] LaTeXStrings v1.4.0 [23fbe1c1] Latexify v0.16.8 [1914dd2f] MacroTools v0.5.16 ⌅ [961ee093] ModelingToolkit v9.82.0 [8913a72c] NonlinearSolve v4.9.0 [6ad6398a] OrdinaryDiffEqBDF v1.6.0 [50262376] OrdinaryDiffEqDefault v1.5.0 [43230ef6] OrdinaryDiffEqRosenbrock v1.11.0 [b1df2697] OrdinaryDiffEqTsit5 v1.1.0 [79d7bb75] OrdinaryDiffEqVerner v1.2.0 [d96e819e] Parameters v0.12.3 [91a5bcdd] Plots v1.40.16 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [7e49a35a] RuntimeGeneratedFunctions v0.5.15 [1bc83da4] SafeTestsets v0.1.0 [0bca4576] SciMLBase v2.102.1 [efcf1570] Setfield v1.1.2 [860ef19b] StableRNGs v1.0.3 [90137ffa] StaticArrays v1.9.13 [10745b16] Statistics v1.11.1 [9672c7b4] SteadyStateDiffEq v2.5.0 [789caeaf] StochasticDiffEq v6.80.0 [d1185830] SymbolicUtils v3.29.0 [0c5d862f] Symbolics v6.43.0 [1986cc42] Unitful v1.23.1 [37e2e46d] LinearAlgebra v1.12.0 [56ddb016] Logging v1.11.0 [44cfe95a] Pkg v1.13.0 [9a3f8284] Random v1.11.0 [2f01184e] SparseArrays v1.12.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_zKYt8f/Manifest.toml` [47edcb42] ADTypes v1.15.0 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.3.0 [66dad0bd] AliasTables v1.1.3 [ec485272] ArnoldiMethod v0.4.0 [4fba245c] ArrayInterface v7.19.0 [4c555306] ArrayLayouts v1.11.1 [e2ed5e7c] Bijections v0.2.2 [d1d4a3ce] BitFlags v0.1.9 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [8e7c35d0] BlockArrays v1.6.3 [70df07ce] BracketingNonlinearSolve v1.3.0 [2a0fbf3d] CPUSummary v0.2.6 [479239e8] Catalyst v15.0.8 [d360d2e6] ChainRulesCore v1.25.2 [fb6a15b2] CloseOpenIntervals v0.1.13 [944b1d66] CodecZlib v0.7.8 [35d6a980] ColorSchemes v3.30.0 [3da002f7] ColorTypes v0.12.1 [c3611d14] ColorVectorSpace v0.11.0 [5ae59095] Colors v0.13.1 [861a8166] Combinatorics v1.0.3 [a80b9123] CommonMark v0.9.1 [38540f10] CommonSolve v0.2.4 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.17.0 [b152e2b5] CompositeTypes v0.1.4 [a33af91c] CompositionsBase v0.1.2 [2569d6c7] ConcreteStructs v0.2.3 [f0e56b4a] ConcurrentUtilities v2.5.0 [187b0558] ConstructionBase v1.6.0 [d38c429a] Contour v0.6.3 [adafc99b] CpuId v0.3.1 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [82cc6244] DataInterpolations v8.1.0 [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [2b5f629d] DiffEqBase v6.177.2 [459566f4] DiffEqCallbacks v4.8.0 [77a26b50] DiffEqNoiseProcess v5.24.1 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 ⌅ [a0c0ee7d] DifferentiationInterface v0.6.54 [8d63f2c5] DispatchDoctor v0.4.26 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.120 [ffbed154] DocStringExtensions v0.9.5 [5b8099bc] DomainSets v0.7.15 [7c1d4256] DynamicPolynomials v0.6.2 [06fc5a27] DynamicQuantities v1.8.0 [4e289a0a] EnumX v1.0.5 [f151be2c] EnzymeCore v0.8.12 [460bff9d] ExceptionUnwrapping v0.1.11 [e2ba6199] ExprTools v0.1.10 [55351af7] ExproniconLite v0.10.14 [c87230d0] FFMPEG v0.4.2 [7034ab61] FastBroadcast v0.3.5 [9aa1b823] FastClosures v0.3.2 [a4df4552] FastPower v1.1.3 [1a297f60] FillArrays v1.13.0 [64ca27bc] FindFirstFunctions v1.4.1 [6a86dc24] FiniteDiff v2.27.0 [53c48c17] FixedPointNumbers v0.8.5 [1fa38f19] Format v1.3.7 ⌅ [f6369f11] ForwardDiff v0.10.38 [069b7b12] FunctionWrappers v1.1.3 [77dc65aa] FunctionWrappersWrappers v0.1.3 [d9f16b24] Functors v0.5.2 [46192b85] GPUArraysCore v0.2.0 [28b8d3ca] GR v0.73.17 [c27321d9] Glob v1.3.1 [86223c79] Graphs v1.13.0 [42e2da0e] Grisu v1.0.2 [cd3eb016] HTTP v1.10.17 [34004b35] HypergeometricFunctions v0.3.28 [615f187c] IfElse v0.1.1 [d25df0c9] Inflate v0.1.5 [18e54dd8] IntegerMathUtils v0.1.3 [8197267c] IntervalSets v0.7.11 [3587e190] InverseFunctions v0.1.17 [92d709cd] IrrationalConstants v0.2.4 [82899510] IteratorInterfaceExtensions v1.0.0 [1019f520] JLFzf v0.1.11 [692b3bcd] JLLWrappers v1.7.0 [682c06a0] JSON v0.21.4 [ae98c720] Jieko v0.2.1 [98e50ef6] JuliaFormatter v2.1.2 ⌅ [70703baa] JuliaSyntax v0.4.10 [ccbc3e58] JumpProcesses v9.16.1 [ba0b0d4f] Krylov v0.10.1 [b964fa9f] LaTeXStrings v1.4.0 [23fbe1c1] Latexify v0.16.8 [10f19ff3] LayoutPointers v0.1.17 [5078a376] LazyArrays v2.6.1 [2d8b4e74] LevyArea v1.0.0 [87fe0de2] LineSearch v0.1.4 [d3d80556] LineSearches v7.4.0 [7ed4a6bd] LinearSolve v3.18.2 [2ab3a3ac] LogExpFunctions v0.3.29 [e6f89c97] LoggingExtras v1.1.0 [d8e11817] MLStyle v0.4.17 [1914dd2f] MacroTools v0.5.16 [d125e4d3] ManualMemory v0.1.8 [bb5d69b7] MaybeInplace v0.1.4 [739be429] MbedTLS v1.1.9 [442fdcdd] Measures v0.3.2 [e1d29d7a] Missings v1.2.0 ⌅ [961ee093] ModelingToolkit v9.82.0 [2e0e35c7] Moshi v0.3.7 [46d2c3a1] MuladdMacro v0.2.4 [102ac46a] MultivariatePolynomials v0.5.9 [d8a4904e] MutableArithmetics v1.6.4 [d41bc354] NLSolversBase v7.10.0 [2774e3e8] NLsolve v4.5.1 [77ba4419] NaNMath v1.1.3 [8913a72c] NonlinearSolve v4.9.0 [be0214bd] NonlinearSolveBase v1.12.0 [5959db7a] NonlinearSolveFirstOrder v1.5.0 [9a2c21bd] NonlinearSolveQuasiNewton v1.6.0 [26075421] NonlinearSolveSpectralMethods v1.2.0 [6fe1bfb0] OffsetArrays v1.17.0 [4d8831e6] OpenSSL v1.5.0 [429524aa] Optim v1.13.2 [bac558e1] OrderedCollections v1.8.1 [6ad6398a] OrdinaryDiffEqBDF v1.6.0 [bbf590c4] OrdinaryDiffEqCore v1.26.2 [50262376] OrdinaryDiffEqDefault v1.5.0 [4302a76b] OrdinaryDiffEqDifferentiation v1.10.0 [127b3ac7] 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libblastrampoline_jll v5.13.1+0 [8e850ede] nghttp2_jll v1.65.0+0 [3f19e933] p7zip_jll v17.5.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... Precompiling packages... 86325.2 ms ✓ Catalyst 1 dependency successfully precompiled in 99 seconds. 303 already precompiled. Test Summary: | Pass Total Time Reaction Structure | 95 95 4m10.0s 250.249576 seconds (66.90 M allocations: 4.261 GiB, 1.24% gc time, 30.69% compilation time: 3% of which was recompilation) Precompiling packages... 2123.7 ms ✓ LevyArea 4381.1 ms ✓ PreallocationTools 5274.4 ms ✓ NLsolve 19707.1 ms ✓ OrdinaryDiffEqDifferentiation 15325.6 ms ✓ NonlinearSolve → NonlinearSolveNLsolveExt 22056.6 ms ✓ OrdinaryDiffEqNonlinearSolve 31573.7 ms ✓ StochasticDiffEq 7 dependencies successfully precompiled in 108 seconds. 246 already precompiled. Precompiling packages... 17656.5 ms ✓ Symbolics → SymbolicsPreallocationToolsExt 1 dependency successfully precompiled in 23 seconds. 158 already precompiled. WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in var"#bareiss_update_virtual_colswap_mtk!#1734"(Any, typeof(ModelingToolkit.bareiss_update_virtual_colswap_mtk!), Any, ModelingToolkit.SparseMatrixCLIL{T, Ti} where Ti<:Integer where T, Any, Any, Any, Any) at /home/pkgeval/.julia/packages/ModelingToolkit/EpUEk/src/systems/sparsematrixclil.jl [ Info: Boundary condition species detected. As constraint equations are not currently supported when converting to SDESystems, the resulting system will be undetermined. Consider using constant species instead. ┌ Warning: JumpProblem(rn::ReactionSystem, prob, ...) is deprecated and will be removed in Catalyst 16. Use JumpProblem(JumpInputs(rn, ...), ...) insead. │ caller = top-level scope at reactionsystem.jl:674 └ @ Core ~/.julia/packages/Catalyst/8qDWw/test/reactionsystem_core/reactionsystem.jl:674 ┌ Warning: JumpInputs has detected the system includes ODEs, variable rate jumps, or continuous events. Please note that currently remake does not work for such problems, and both JumpInputs and then JumpProblem must be called again if you wish to change any parameter or initial condition values. This warning can be disabled by passing JumpInputs the keyword argument `remake_warn = false`. └ @ Catalyst ~/.julia/packages/Catalyst/8qDWw/src/reactionsystem_conversions.jl:996 ┌ Warning: JumpInputs has detected the system includes ODEs, variable rate jumps, or continuous events. Please note that currently remake does not work for such problems, and both JumpInputs and then JumpProblem must be called again if you wish to change any parameter or initial condition values. This warning can be disabled by passing JumpInputs the keyword argument `remake_warn = false`. └ @ Catalyst ~/.julia/packages/Catalyst/8qDWw/src/reactionsystem_conversions.jl:996 ┌ Warning: JumpInputs has detected the system includes ODEs, variable rate jumps, or continuous events. Please note that currently remake does not work for such problems, and both JumpInputs and then JumpProblem must be called again if you wish to change any parameter or initial condition values. This warning can be disabled by passing JumpInputs the keyword argument `remake_warn = false`. └ @ Catalyst ~/.julia/packages/Catalyst/8qDWw/src/reactionsystem_conversions.jl:996 Test Summary: | Pass Broken Total Time ReactionSystem Structure | 302 2 304 13m39.2s 819.250290 seconds (364.02 M allocations: 19.610 GiB, 1.37% gc time, 81.83% compilation time: <1% of which was recompilation) Test Summary: | Pass Total Time Higher Order Reactions | 38 38 46.0s 45.995238 seconds (26.65 M allocations: 1.315 GiB, 1.30% gc time, 91.20% compilation time) Test Summary: | Pass Total Time Symbolic Stoichiometry | 26 26 4m40.0s 279.985873 seconds (143.01 M allocations: 7.664 GiB, 1.71% gc time, 97.36% compilation time) ┌ Warning: DiscreteProblem(rn::ReactionSystem, ...) is deprecated and will be removed in Catalyst 16. Use JumpInputs(rn, ...) instead. │ caller = top-level scope at parameter_type_designation.jl:76 └ @ Core ~/.julia/packages/Catalyst/8qDWw/test/reactionsystem_core/parameter_type_designation.jl:76 Test Summary: | Pass Total Time Parameter Type Designation | 363 363 1m55.8s 115.806849 seconds (62.11 M allocations: 3.334 GiB, 1.27% gc time, 99.36% compilation time: <1% of which was recompilation) Custom CRN Functions: Test Failed at /home/pkgeval/.julia/packages/Catalyst/8qDWw/test/reactionsystem_core/custom_crn_functions.jl:310 Expression: all((aff->begin #= /home/pkgeval/.julia/packages/Catalyst/8qDWw/test/reactionsystem_core/custom_crn_functions.jl:310 =# isequal(aff, affeqs) end), affects) Evaluated: all(Main.var"##Custom CRN Functions#285".var"#48#49"(Core.Box(Symbolics.Equation[Z(t) ~ 1 + Z(t), Y(t) ~ -1 + Y(t), X(t) ~ -1 + X(t)])), Vector{Symbolics.Equation}[[Y(t) ~ -1 + Y(t), X(t) ~ -1 + X(t), Z(t) ~ 1 + Z(t)], [Y(t) ~ -1 + Y(t), X(t) ~ -1 + X(t), Z(t) ~ 1 + Z(t)], [Y(t) ~ -1 + Y(t), X(t) ~ -1 + X(t), Z(t) ~ 1 + Z(t)], [Y(t) ~ -1 + Y(t), X(t) ~ -1 + X(t), Z(t) ~ 1 + Z(t)]]) Stacktrace: [1] top-level scope @ ~/.julia/packages/Catalyst/8qDWw/test/reactionsystem_core/custom_crn_functions.jl:310 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:741 [inlined] [3] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [4] top-level scope @ ~/.julia/packages/SafeTestsets/raUNr/src/SafeTestsets.jl:24 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1855 [inlined] [6] macro expansion @ ~/.julia/packages/Catalyst/8qDWw/test/runtests.jl:24 [inlined] [7] eval(m::Module, e::Any) @ Core ./boot.jl:489 [8] macro expansion @ ~/.julia/packages/SafeTestsets/raUNr/src/SafeTestsets.jl:28 [inlined] [9] macro expansion @ ./timing.jl:645 [inlined] [10] macro expansion @ ~/.julia/packages/Catalyst/8qDWw/test/runtests.jl:24 [inlined] [11] macro expansion @ ./timing.jl:645 [inlined] [12] top-level scope @ ~/.julia/packages/Catalyst/8qDWw/test/runtests.jl:353 Custom CRN Functions: Test Failed at /home/pkgeval/.julia/packages/Catalyst/8qDWw/test/reactionsystem_core/custom_crn_functions.jl:319 Expression: all((aff->begin #= /home/pkgeval/.julia/packages/Catalyst/8qDWw/test/reactionsystem_core/custom_crn_functions.jl:319 =# isequal(aff, affeqs) end), affects) Evaluated: all(Main.var"##Custom CRN Functions#285".var"#50#51"(Core.Box(Symbolics.Equation[Z(t) ~ 1 + Z(t), Y(t) ~ -1 + Y(t), X(t) ~ -1 + X(t)])), Vector{Symbolics.Equation}[[Y(t) ~ -1 + Y(t), X(t) ~ -1 + X(t), Z(t) ~ 1 + Z(t)], [Y(t) ~ -1 + Y(t), X(t) ~ -1 + X(t), Z(t) ~ 1 + Z(t)], [Y(t) ~ -1 + Y(t), X(t) ~ -1 + X(t), Z(t) ~ 1 + Z(t)], [Y(t) ~ -1 + Y(t), X(t) ~ -1 + X(t), Z(t) ~ 1 + Z(t)]]) Stacktrace: [1] top-level scope @ ~/.julia/packages/Catalyst/8qDWw/test/reactionsystem_core/custom_crn_functions.jl:319 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:741 [inlined] [3] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [4] top-level scope @ ~/.julia/packages/SafeTestsets/raUNr/src/SafeTestsets.jl:24 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1855 [inlined] [6] macro expansion @ ~/.julia/packages/Catalyst/8qDWw/test/runtests.jl:24 [inlined] [7] eval(m::Module, e::Any) @ Core ./boot.jl:489 [8] macro expansion @ ~/.julia/packages/SafeTestsets/raUNr/src/SafeTestsets.jl:28 [inlined] [9] macro expansion @ ./timing.jl:645 [inlined] [10] macro expansion @ ~/.julia/packages/Catalyst/8qDWw/test/runtests.jl:24 [inlined] [11] macro expansion @ ./timing.jl:645 [inlined] [12] top-level scope @ ~/.julia/packages/Catalyst/8qDWw/test/runtests.jl:353 Test Summary: | Pass Fail Total Time Custom CRN Functions | 107 2 109 59.4s RNG of the outermost testset: Random.Xoshiro(0xc98c997990df59b5, 0x3361d6bfc7895d22, 0x915276bcc948f623, 0x46b38f8a18fb9b41, 0x29375c2f84c97e91) ERROR: LoadError: Some tests did not pass: 107 passed, 2 failed, 0 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/Catalyst/8qDWw/test/runtests.jl:16 Testing failed after 1603.45s ERROR: LoadError: Package Catalyst errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.13/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/v1.13/Pkg/src/Operations.jl:2446 [3] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2301 [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/v1.13/Pkg/src/API.jl:500 [5] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:164 [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:152 [7] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:152 [inlined] [8] #test#81 @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:151 [inlined] [9] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [10] include(mod::Module, _path::String) @ Base ./Base.jl:309 [11] exec_options(opts::Base.JLOptions) @ Base ./client.jl:320 [12] _start() @ Base ./client.jl:553 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 2579.18s: package has test failures