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StructuralIdentifiability fails to precompile under Julia v1.11 #364

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B-LIE opened this issue Oct 10, 2024 · 11 comments
Closed

StructuralIdentifiability fails to precompile under Julia v1.11 #364

B-LIE opened this issue Oct 10, 2024 · 11 comments
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@B-LIE
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B-LIE commented Oct 10, 2024

StructuralIdentifiability fails to precompile under Julia v1.11 🐞

I get an error message regarding precompilation.

Expected behavior

Precompilation without error message

Minimal Reproducible Example 👇

See below:

(@v1.11) pkg> precompile StructuralIdentifiability
Precompiling StructuralIdentifiability...
  ✗ StructuralIdentifiability
  0 dependencies successfully precompiled in 174 seconds. 78 already precompiled.

ERROR: The following 1 direct dependency failed to precompile:

StructuralIdentifiability

Failed to precompile StructuralIdentifiability [220ca800-aa68-49bb-acd8-6037fa93a544] to "C:\\Users\\Bernt_Lie\\.julia\\compiled\\v1.11\\StructuralIdentifiability\\jl_A804.tmp".

Error & Stacktrace ⚠️
See above.

Environment (please complete the following information):

  • Output of using Pkg; Pkg.status()
julia> using Pkg; Pkg.status()
Status `C:\Users\Bernt_Lie\.julia\environments\v1.11\Project.toml`
  [6e4b80f9] BenchmarkTools v1.5.0
  [336ed68f] CSV v0.10.14
  [a6e380b2] ControlSystems v1.10.4
  [687d7614] ControlSystemsMTK v2.2.1
  [a93c6f00] DataFrames v1.7.0
  [82cc6244] DataInterpolations v6.4.5
  [0c46a032] DifferentialEquations v7.14.0
  [31c24e10] Distributions v0.25.112
  [b964fa9f] LaTeXStrings v1.3.1
  [23fbe1c1] Latexify v0.16.5
  [2fda8390] LsqFit v0.15.0
  [add582a8] MLJ v0.20.7
  [961ee093] ModelingToolkit v9.43.0
  [16a59e39] ModelingToolkitStandardLibrary v2.15.0
  [0987c9cc] MonteCarloMeasurements v1.2.1
  [8913a72c] NonlinearSolve v3.15.1
  [6fe1bfb0] OffsetArrays v1.14.1
  [429524aa] Optim v1.9.4
  [1dea7af3] OrdinaryDiffEq v6.89.0
  [91a5bcdd] Plots v1.40.8
  [98d1487c] PolyesterForwardDiff v0.1.2
  [f27b6e38] Polynomials v4.0.11
  [10745b16] Statistics v1.11.1
  [220ca800] StructuralIdentifiability v0.5.9
  [0c5d862f] Symbolics v6.13.1
  [bd369af6] Tables v1.12.0
  [37e2e46d] LinearAlgebra v1.11.0
  [2f01184e] SparseArrays v1.11.0
  • Output of using Pkg; Pkg.status(; mode = PKGMODE_MANIFEST)
julia> Pkg.status(; mode=PKGMODE_MANIFEST)
Status `C:\Users\Bernt_Lie\.julia\environments\v1.11\Manifest.toml`
  [47edcb42] ADTypes v1.9.0
  [da404889] ARFFFiles v1.4.1
⌅ [c3fe647b] AbstractAlgebra v0.41.11
  [621f4979] AbstractFFTs v1.5.0
  [1520ce14] AbstractTrees v0.4.5
  [7d9f7c33] Accessors v0.1.38
  [79e6a3ab] Adapt v4.0.4
  [66dad0bd] AliasTables v1.1.3
  [dce04be8] ArgCheck v2.3.0
  [ec485272] ArnoldiMethod v0.4.0
  [4fba245c] ArrayInterface v7.16.0
  [4c555306] ArrayLayouts v1.10.3
  [a9b6321e] Atomix v0.1.0
  [aae01518] BandedMatrices v1.7.5
⌅ [198e06fe] BangBang v0.3.40
  [9718e550] Baselet v0.1.1
  [6e4b80f9] BenchmarkTools v1.5.0
  [e2ed5e7c] Bijections v0.1.9
  [d1d4a3ce] BitFlags v0.1.9
  [62783981] BitTwiddlingConvenienceFunctions v0.1.6
  [8e7c35d0] BlockArrays v1.1.1
  [764a87c0] BoundaryValueDiffEq v5.10.0
  [fa961155] CEnum v0.5.0
  [2a0fbf3d] CPUSummary v0.2.6
  [00ebfdb7] CSTParser v3.4.3
  [336ed68f] CSV v0.10.14
  [324d7699] CategoricalArrays v0.10.8
  [af321ab8] CategoricalDistributions v0.1.15
  [d360d2e6] ChainRulesCore v1.25.0
  [fb6a15b2] CloseOpenIntervals v0.1.13
  [944b1d66] CodecZlib v0.7.6
  [35d6a980] ColorSchemes v3.26.0
  [3da002f7] ColorTypes v0.11.5
  [c3611d14] ColorVectorSpace v0.10.0
  [5ae59095] Colors v0.12.11
  [861a8166] Combinatorics v1.0.2
  [a80b9123] CommonMark v0.8.15
  [38540f10] CommonSolve v0.2.4
  [bbf7d656] CommonSubexpressions v0.3.1
  [f70d9fcc] CommonWorldInvalidations v1.0.0
  [34da2185] Compat v4.16.0
  [b0b7db55] ComponentArrays v0.15.17
  [b152e2b5] CompositeTypes v0.1.4
  [a33af91c] CompositionsBase v0.1.2
  [ed09eef8] ComputationalResources v0.3.2
  [2569d6c7] ConcreteStructs v0.2.3
  [f0e56b4a] ConcurrentUtilities v2.4.2
  [187b0558] ConstructionBase v1.5.8
  [6add18c4] ContextVariablesX v0.1.3
  [d38c429a] Contour v0.6.3
  [a6e380b2] ControlSystems v1.10.4
  [aaaaaaaa] ControlSystemsBase v1.10.3
  [687d7614] ControlSystemsMTK v2.2.1
  [adafc99b] CpuId v0.3.1
  [a8cc5b0e] Crayons v4.1.1
  [717857b8] DSP v0.7.10
  [9a962f9c] DataAPI v1.16.0
  [a93c6f00] DataFrames v1.7.0
  [82cc6244] DataInterpolations v6.4.5
  [864edb3b] DataStructures v0.18.20
  [e2d170a0] DataValueInterfaces v1.0.0
  [244e2a9f] DefineSingletons v0.1.2
  [bcd4f6db] DelayDiffEq v5.48.1
  [8bb1440f] DelimitedFiles v1.9.1
  [a81e2ce2] DescriptorSystems v1.4.4
  [2b5f629d] DiffEqBase v6.157.0
⌅ [459566f4] DiffEqCallbacks v3.9.1
  [77a26b50] DiffEqNoiseProcess v5.23.0
  [163ba53b] DiffResults v1.1.0
  [b552c78f] DiffRules v1.15.1
  [0c46a032] DifferentialEquations v7.14.0
  [a0c0ee7d] DifferentiationInterface v0.6.7
  [8d63f2c5] DispatchDoctor v0.4.15
  [b4f34e82] Distances v0.10.11
  [31c24e10] Distributions v0.25.112
  [ffbed154] DocStringExtensions v0.9.3
  [5b8099bc] DomainSets v0.7.14
  [7c1d4256] DynamicPolynomials v0.6.0
  [06fc5a27] DynamicQuantities v1.1.0
  [792122b4] EarlyStopping v0.3.0
  [4e289a0a] EnumX v1.0.4
  [f151be2c] EnzymeCore v0.8.4
  [460bff9d] ExceptionUnwrapping v0.1.10
  [d4d017d3] ExponentialUtilities v1.26.1
  [e2ba6199] ExprTools v0.1.10
⌅ [6b7a57c9] Expronicon v0.8.5
  [c87230d0] FFMPEG v0.4.2
  [7a1cc6ca] FFTW v1.8.0
  [cc61a311] FLoops v0.2.2
  [b9860ae5] FLoopsBase v0.1.1
  [9d29842c] FastAlmostBandedMatrices v0.1.4
  [7034ab61] FastBroadcast v0.3.5
  [9aa1b823] FastClosures v0.3.2
  [29a986be] FastLapackInterface v2.0.4
  [33837fe5] FeatureSelection v0.2.2
  [48062228] FilePathsBase v0.9.22
  [1a297f60] FillArrays v1.13.0
  [64ca27bc] FindFirstFunctions v1.4.1
  [6a86dc24] FiniteDiff v2.26.0
  [53c48c17] FixedPointNumbers v0.8.5
  [1fa38f19] Format v1.3.7
  [f6369f11] ForwardDiff v0.10.36
  [069b7b12] FunctionWrappers v1.1.3
  [77dc65aa] FunctionWrappersWrappers v0.1.3
  [d9f16b24] Functors v0.4.12
  [46192b85] GPUArraysCore v0.1.6
  [28b8d3ca] GR v0.73.7
  [c145ed77] GenericSchur v0.5.4
  [c27321d9] Glob v1.3.1
  [86223c79] Graphs v1.12.0
  [42e2da0e] Grisu v1.0.2
⌅ [0b43b601] Groebner v0.7.5
  [cd3eb016] HTTP v1.10.8
  [3e5b6fbb] HostCPUFeatures v0.1.17
  [e91730f6] Hungarian v0.7.0
  [34004b35] HypergeometricFunctions v0.3.24
  [615f187c] IfElse v0.1.1
  [d25df0c9] Inflate v0.1.5
  [22cec73e] InitialValues v0.3.1
  [842dd82b] InlineStrings v1.4.2
  [18e54dd8] IntegerMathUtils v0.1.2
  [8197267c] IntervalSets v0.7.10
  [3587e190] InverseFunctions v0.1.17
  [41ab1584] InvertedIndices v1.3.0
  [92d709cd] IrrationalConstants v0.2.2
  [c8e1da08] IterTools v1.10.0
  [b3c1a2ee] IterationControl v0.5.4
  [82899510] IteratorInterfaceExtensions v1.0.0
  [1019f520] JLFzf v0.1.8
  [692b3bcd] JLLWrappers v1.6.0
  [682c06a0] JSON v0.21.4
  [98e50ef6] JuliaFormatter v1.0.61
  [b14d175d] JuliaVariables v0.2.4
  [ccbc3e58] JumpProcesses v9.13.7
  [ef3ab10e] KLU v0.6.0
  [63c18a36] KernelAbstractions v0.9.28
  [ba0b0d4f] Krylov v0.9.6
  [929cbde3] LLVM v9.1.2
  [b964fa9f] LaTeXStrings v1.3.1
⌅ [984bce1d] LambertW v0.4.6
  [23fbe1c1] Latexify v0.16.5
  [a5e1c1ea] LatinHypercubeSampling v1.9.0
  [10f19ff3] LayoutPointers v0.1.17
  [5078a376] LazyArrays v2.2.1
  [92ad9a40] LearnAPI v0.1.0
  [2d8b4e74] LevyArea v1.0.0
  [87fe0de2] LineSearch v0.1.3
  [d3d80556] LineSearches v7.3.0
  [7a12625a] LinearMaps v3.11.3
  [7ed4a6bd] LinearSolve v2.35.0
  [2ab3a3ac] LogExpFunctions v0.3.28
  [e6f89c97] LoggingExtras v1.0.3
  [bdcacae8] LoopVectorization v0.12.171
  [2fda8390] LsqFit v0.15.0
  [64a0f543] MLFlowClient v0.5.1
  [add582a8] MLJ v0.20.7
  [45f359ea] MLJBalancing v0.1.5
  [a7f614a8] MLJBase v1.7.0
  [50ed68f4] MLJEnsembles v0.4.3
  [7b7b8358] MLJFlow v0.5.0
  [614be32b] MLJIteration v0.6.3
  [e80e1ace] MLJModelInterface v1.11.0
  [d491faf4] MLJModels v0.17.4
  [03970b2e] MLJTuning v0.8.8
  [d8e11817] MLStyle v0.4.17
  [f1d291b0] MLUtils v0.4.4
  [1914dd2f] MacroTools v0.5.13
  [d125e4d3] ManualMemory v0.1.8
  [99c1a7ee] MatrixEquations v2.4.2
  [a3b82374] MatrixFactorizations v3.0.1
  [48965c70] MatrixPencils v1.8.0
  [bb5d69b7] MaybeInplace v0.1.4
  [739be429] MbedTLS v1.1.9
  [442fdcdd] Measures v0.3.2
⌅ [128add7d] MicroCollections v0.1.4
  [e1d29d7a] Missings v1.2.0
  [961ee093] ModelingToolkit v9.43.0
  [16a59e39] ModelingToolkitStandardLibrary v2.15.0
  [0987c9cc] MonteCarloMeasurements v1.2.1
  [46d2c3a1] MuladdMacro v0.2.4
  [102ac46a] MultivariatePolynomials v0.5.6
  [d8a4904e] MutableArithmetics v1.5.0
  [d41bc354] NLSolversBase v7.8.3
  [2774e3e8] NLsolve v4.5.1
  [872c559c] NNlib v0.9.24
  [77ba4419] NaNMath v1.0.2
  [71a1bf82] NameResolution v0.1.5
⌅ [2edaba10] Nemo v0.45.7
  [8913a72c] NonlinearSolve v3.15.1
  [6fe1bfb0] OffsetArrays v1.14.1
  [8b6db2d4] OpenML v0.3.1
  [4d8831e6] OpenSSL v1.4.3
  [429524aa] Optim v1.9.4
  [bac558e1] OrderedCollections v1.6.3
  [1dea7af3] OrdinaryDiffEq v6.89.0
  [89bda076] OrdinaryDiffEqAdamsBashforthMoulton v1.1.0
  [6ad6398a] OrdinaryDiffEqBDF v1.1.2
  [bbf590c4] OrdinaryDiffEqCore v1.7.0
  [50262376] OrdinaryDiffEqDefault v1.1.0
  [4302a76b] OrdinaryDiffEqDifferentiation v1.1.0
  [9286f039] OrdinaryDiffEqExplicitRK v1.1.0
  [e0540318] OrdinaryDiffEqExponentialRK v1.1.0
  [becaefa8] OrdinaryDiffEqExtrapolation v1.1.0
  [5960d6e9] OrdinaryDiffEqFIRK v1.1.1
  [101fe9f7] OrdinaryDiffEqFeagin v1.1.0
  [d3585ca7] OrdinaryDiffEqFunctionMap v1.1.1
  [d28bc4f8] OrdinaryDiffEqHighOrderRK v1.1.0
  [9f002381] OrdinaryDiffEqIMEXMultistep v1.1.0
  [521117fe] OrdinaryDiffEqLinear v1.1.0
  [1344f307] OrdinaryDiffEqLowOrderRK v1.2.0
  [b0944070] OrdinaryDiffEqLowStorageRK v1.2.1
  [127b3ac7] OrdinaryDiffEqNonlinearSolve v1.2.1
  [c9986a66] OrdinaryDiffEqNordsieck v1.1.0
  [5dd0a6cf] OrdinaryDiffEqPDIRK v1.1.0
  [5b33eab2] OrdinaryDiffEqPRK v1.1.0
  [04162be5] OrdinaryDiffEqQPRK v1.1.0
  [af6ede74] OrdinaryDiffEqRKN v1.1.0
  [43230ef6] OrdinaryDiffEqRosenbrock v1.2.0
  [2d112036] OrdinaryDiffEqSDIRK v1.1.0
  [669c94d9] OrdinaryDiffEqSSPRK v1.2.0
  [e3e12d00] OrdinaryDiffEqStabilizedIRK v1.1.0
  [358294b1] OrdinaryDiffEqStabilizedRK v1.1.0
  [fa646aed] OrdinaryDiffEqSymplecticRK v1.1.0
  [b1df2697] OrdinaryDiffEqTsit5 v1.1.0
  [79d7bb75] OrdinaryDiffEqVerner v1.1.1
  [90014a1f] PDMats v0.11.31
  [65ce6f38] PackageExtensionCompat v1.0.2
⌅ [3e851597] ParamPunPam v0.4.1
  [d96e819e] Parameters v0.12.3
  [69de0a69] Parsers v2.8.1
  [b98c9c47] Pipe v1.3.0
  [ccf2f8ad] PlotThemes v3.2.0
  [995b91a9] PlotUtils v1.4.1
  [91a5bcdd] Plots v1.40.8
  [e409e4f3] PoissonRandom v0.4.4
  [f517fe37] Polyester v0.7.16
  [98d1487c] PolyesterForwardDiff v0.1.2
  [1d0040c9] PolyesterWeave v0.2.2
  [f27b6e38] Polynomials v4.0.11
  [2dfb63ee] PooledArrays v1.4.3
  [85a6dd25] PositiveFactorizations v0.2.4
  [d236fae5] PreallocationTools v0.4.24
  [aea7be01] PrecompileTools v1.2.1
  [21216c6a] Preferences v1.4.3
  [8162dcfd] PrettyPrint v0.2.0
  [54e16d92] PrettyPrinting v0.4.2
  [08abe8d2] PrettyTables v2.4.0
  [27ebfcd6] Primes v0.5.6
  [92933f4c] ProgressMeter v1.10.2
  [43287f4e] PtrArrays v1.2.1
  [1fd47b50] QuadGK v2.11.1
  [74087812] Random123 v1.7.0
  [fb686558] RandomExtensions v0.4.4
  [e6cf234a] RandomNumbers v1.6.0
  [3cdcf5f2] RecipesBase v1.3.4
  [01d81517] RecipesPipeline v0.6.12
  [731186ca] RecursiveArrayTools v3.27.0
  [f2c3362d] RecursiveFactorization v0.2.23
  [189a3867] Reexport v1.2.2
  [05181044] RelocatableFolders v1.0.1
  [ae029012] Requires v1.3.0
  [ae5879a3] ResettableStacks v1.1.1
  [79098fc4] Rmath v0.8.0
  [21fd56a4] RobustAndOptimalControl v0.4.31
  [7e49a35a] RuntimeGeneratedFunctions v0.5.13
  [94e857df] SIMDTypes v0.1.0
  [476501e8] SLEEFPirates v0.6.43
  [0bca4576] SciMLBase v2.56.1
  [19f34311] SciMLJacobianOperators v0.1.0
  [c0aeaf25] SciMLOperators v0.3.10
  [53ae85a6] SciMLStructures v1.5.0
  [321657f4] ScientificTypes v3.0.2
  [30f210dd] ScientificTypesBase v3.0.0
  [6c6a2e73] Scratch v1.2.1
  [91c51154] SentinelArrays v1.4.5
  [efcf1570] Setfield v1.1.1
  [605ecd9f] ShowCases v0.1.0
  [992d4aef] Showoff v1.0.3
  [777ac1f9] SimpleBufferStream v1.2.0
  [727e6d20] SimpleNonlinearSolve v1.12.3
  [699a6c99] SimpleTraits v0.9.4
  [ce78b400] SimpleUnPack v1.1.0
  [a2af1166] SortingAlgorithms v1.2.1
  [9f842d2f] SparseConnectivityTracer v0.6.6
  [47a9eef4] SparseDiffTools v2.22.0
  [0a514795] SparseMatrixColorings v0.4.7
  [e56a9233] Sparspak v0.3.9
  [276daf66] SpecialFunctions v2.4.0
  [171d559e] SplittablesBase v0.1.15
  [860ef19b] StableRNGs v1.0.2
  [aedffcd0] Static v1.1.1
  [0d7ed370] StaticArrayInterface v1.8.0
  [90137ffa] StaticArrays v1.9.7
  [1e83bf80] StaticArraysCore v1.4.3
  [a19d573c] StatisticalMeasures v0.1.7
  [c062fc1d] StatisticalMeasuresBase v0.1.1
  [64bff920] StatisticalTraits v3.4.0
  [10745b16] Statistics v1.11.1
  [82ae8749] StatsAPI v1.7.0
  [2913bbd2] StatsBase v0.34.3
  [4c63d2b9] StatsFuns v1.3.2
  [9672c7b4] SteadyStateDiffEq v2.4.1
  [789caeaf] StochasticDiffEq v6.69.1
  [7792a7ef] StrideArraysCore v0.5.7
  [892a3eda] StringManipulation v0.4.0
  [220ca800] StructuralIdentifiability v0.5.9
  [c3572dad] Sundials v4.25.0
  [2efcf032] SymbolicIndexingInterface v0.3.31
  [19f23fe9] SymbolicLimits v0.2.2
  [d1185830] SymbolicUtils v3.7.1
  [0c5d862f] Symbolics v6.13.1
  [3783bdb8] TableTraits v1.0.1
  [bd369af6] Tables v1.12.0
  [62fd8b95] TensorCore v0.1.1
  [8ea1fca8] TermInterface v2.0.0
  [1c621080] TestItems v1.0.0
  [8290d209] ThreadingUtilities v0.5.2
  [a759f4b9] TimerOutputs v0.5.25
  [0796e94c] Tokenize v0.5.29
  [3bb67fe8] TranscodingStreams v0.11.3
⌃ [28d57a85] Transducers v0.4.80
  [d5829a12] TriangularSolve v0.2.1
  [410a4b4d] Tricks v0.1.9
  [781d530d] TruncatedStacktraces v1.4.0
  [5c2747f8] URIs v1.5.1
  [3a884ed6] UnPack v1.0.2
  [1cfade01] UnicodeFun v0.4.1
  [1986cc42] Unitful v1.21.0
  [45397f5d] UnitfulLatexify v1.6.4
  [a7c27f48] Unityper v0.1.6
  [013be700] UnsafeAtomics v0.2.1
  [d80eeb9a] UnsafeAtomicsLLVM v0.2.1
  [41fe7b60] Unzip v0.2.0
  [3d5dd08c] VectorizationBase v0.21.70
  [19fa3120] VertexSafeGraphs v0.2.0
  [ea10d353] WeakRefStrings v1.4.2
  [76eceee3] WorkerUtilities v1.6.1
  [6e34b625] Bzip2_jll v1.0.8+1
  [83423d85] Cairo_jll v1.18.2+1
  [ee1fde0b] Dbus_jll v1.14.10+0
  [2702e6a9] EpollShim_jll v0.0.20230411+0
  [2e619515] Expat_jll v2.6.2+0
⌅ [b22a6f82] FFMPEG_jll v4.4.4+1
  [f5851436] FFTW_jll v3.3.10+1
  [e134572f] FLINT_jll v300.100.300+0
  [a3f928ae] Fontconfig_jll v2.13.96+0
  [d7e528f0] FreeType2_jll v2.13.2+0
  [559328eb] FriBidi_jll v1.0.14+0
  [0656b61e] GLFW_jll v3.4.0+1
  [d2c73de3] GR_jll v0.73.7+0
  [78b55507] Gettext_jll v0.21.0+0
  [7746bdde] Glib_jll v2.80.5+0
  [3b182d85] Graphite2_jll v1.3.14+0
  [2e76f6c2] HarfBuzz_jll v8.3.1+0
  [1d5cc7b8] IntelOpenMP_jll v2024.2.1+0
  [aacddb02] JpegTurbo_jll v3.0.4+0
  [c1c5ebd0] LAME_jll v3.100.2+0
⌅ [88015f11] LERC_jll v3.0.0+1
  [dad2f222] LLVMExtra_jll v0.0.34+0
  [1d63c593] LLVMOpenMP_jll v18.1.7+0
  [dd4b983a] LZO_jll v2.10.2+1
⌅ [e9f186c6] Libffi_jll v3.2.2+1
  [d4300ac3] Libgcrypt_jll v1.8.11+0
  [7e76a0d4] Libglvnd_jll v1.6.0+0
  [7add5ba3] Libgpg_error_jll v1.49.0+0
  [94ce4f54] Libiconv_jll v1.17.0+0
  [4b2f31a3] Libmount_jll v2.40.1+0
⌅ [89763e89] Libtiff_jll v4.5.1+1
  [38a345b3] Libuuid_jll v2.40.1+0
  [856f044c] MKL_jll v2024.2.0+0
  [e7412a2a] Ogg_jll v1.3.5+1
  [656ef2d0] OpenBLAS32_jll v0.3.28+3
  [458c3c95] OpenSSL_jll v3.0.15+1
  [efe28fd5] OpenSpecFun_jll v0.5.5+0
  [91d4177d] Opus_jll v1.3.3+0
  [36c8627f] Pango_jll v1.54.1+0
  [30392449] Pixman_jll v0.43.4+0
  [c0090381] Qt6Base_jll v6.7.1+1
  [629bc702] Qt6Declarative_jll v6.7.1+2
  [ce943373] Qt6ShaderTools_jll v6.7.1+1
  [e99dba38] Qt6Wayland_jll v6.7.1+1
  [f50d1b31] Rmath_jll v0.5.1+0
⌅ [fb77eaff] Sundials_jll v5.2.3+0
  [a44049a8] Vulkan_Loader_jll v1.3.243+0
  [a2964d1f] Wayland_jll v1.21.0+1
  [2381bf8a] Wayland_protocols_jll v1.31.0+0
  [02c8fc9c] XML2_jll v2.13.3+0
  [aed1982a] XSLT_jll v1.1.41+0
  [ffd25f8a] XZ_jll v5.4.6+0
  [f67eecfb] Xorg_libICE_jll v1.1.1+0
  [c834827a] Xorg_libSM_jll v1.2.4+0
  [4f6342f7] Xorg_libX11_jll v1.8.6+0
  [0c0b7dd1] Xorg_libXau_jll v1.0.11+0
  [935fb764] Xorg_libXcursor_jll v1.2.0+4
  [a3789734] Xorg_libXdmcp_jll v1.1.4+0
  [1082639a] Xorg_libXext_jll v1.3.6+0
  [d091e8ba] Xorg_libXfixes_jll v5.0.3+4
  [a51aa0fd] Xorg_libXi_jll v1.7.10+4
  [d1454406] Xorg_libXinerama_jll v1.1.4+4
  [ec84b674] Xorg_libXrandr_jll v1.5.2+4
  [ea2f1a96] Xorg_libXrender_jll v0.9.11+0
  [14d82f49] Xorg_libpthread_stubs_jll v0.1.1+0
  [c7cfdc94] Xorg_libxcb_jll v1.17.0+0
  [cc61e674] Xorg_libxkbfile_jll v1.1.2+0
  [e920d4aa] Xorg_xcb_util_cursor_jll v0.1.4+0
  [12413925] Xorg_xcb_util_image_jll v0.4.0+1
  [2def613f] Xorg_xcb_util_jll v0.4.0+1
  [975044d2] Xorg_xcb_util_keysyms_jll v0.4.0+1
  [0d47668e] Xorg_xcb_util_renderutil_jll v0.3.9+1
  [c22f9ab0] Xorg_xcb_util_wm_jll v0.4.1+1
  [35661453] Xorg_xkbcomp_jll v1.4.6+0
  [33bec58e] Xorg_xkeyboard_config_jll v2.39.0+0
  [c5fb5394] Xorg_xtrans_jll v1.5.0+0
  [3161d3a3] Zstd_jll v1.5.6+1
  [35ca27e7] eudev_jll v3.2.9+0
  [214eeab7] fzf_jll v0.53.0+0
  [1a1c6b14] gperf_jll v3.1.1+0
  [a4ae2306] libaom_jll v3.9.0+0
  [0ac62f75] libass_jll v0.15.2+0
  [1183f4f0] libdecor_jll v0.2.2+0
  [2db6ffa8] libevdev_jll v1.11.0+0
  [f638f0a6] libfdk_aac_jll v2.0.3+0
  [36db933b] libinput_jll v1.18.0+0
  [b53b4c65] libpng_jll v1.6.44+0
  [f27f6e37] libvorbis_jll v1.3.7+2
  [009596ad] mtdev_jll v1.1.6+0
  [1317d2d5] oneTBB_jll v2021.12.0+0
⌅ [1270edf5] x264_jll v2021.5.5+0
⌅ [dfaa095f] x265_jll v3.5.0+0
  [d8fb68d0] xkbcommon_jll v1.4.1+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
  [9abbd945] Profile 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
  [781609d7] GMP_jll v6.3.0+0
  [deac9b47] LibCURL_jll v8.6.0+0
  [e37daf67] LibGit2_jll v1.7.2+0
  [29816b5a] LibSSH2_jll v1.11.0+1
  [3a97d323] MPFR_jll v4.2.1+0
  [c8ffd9c3] MbedTLS_jll v2.28.6+0
  [14a3606d] MozillaCACerts_jll v2023.12.12
  [4536629a] OpenBLAS_jll v0.3.27+1
  [05823500] OpenLibm_jll v0.8.1+2
  [efcefdf7] PCRE2_jll v10.42.0+1
  [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`
  • Output of versioninfo()
julia> versioninfo()
Julia Version 1.11.0
Commit 501a4f25c2 (2024-10-07 11:40 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Windows (x86_64-w64-mingw32)
  CPU: 16 × Intel(R) Core(TM) i9-9900K CPU @ 3.60GHz
  WORD_SIZE: 64
  LLVM: libLLVM-16.0.6 (ORCJIT, skylake)
Threads: 1 default, 0 interactive, 1 GC (on 16 virtual cores)

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Add any other context about the problem here.

@B-LIE B-LIE added the bug Something isn't working label Oct 10, 2024
@pogudingleb
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@B-LIE
Thanks for reporting !
There seem to be a bug in Julia 1.11.

@Pengfei-Xu-1993
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Thanks for bring this up. I met the same bug.

@pogudingleb
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This should be fixed in 1.11.2

@TugbaAkmanTR
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TugbaAkmanTR commented Dec 1, 2024

Hello,
I'd like to test the code here:
https://docs.sciml.ai/StructuralIdentifiability/stable/tutorials/creating_ode/
I've downloaded Julia 10.5 and Structural Identifiability package. When I run the code (above) in VS code, I got the following error message.
Is there anybody who has solved this issue?
Many thanks!

Precompiling VSCodeServer...
1 dependency successfully precompiled in 20 seconds. 29 already precompiled.
Precompiling StructuralIdentifiability...
Info Given StructuralIdentifiability was explicitly requested, output will be shown live
Please submit a bug report with steps to reproduce this fault, and any error messages that follow (in their entirety). Thanks.
✗ REPL
✗ StructuralIdentifiability
43 dependencies successfully precompiled in 361 seconds. 32 already precompiled.
ERROR: The following 1 direct dependency failed to precompile:
StructuralIdentifiability
Failed to precompile StructuralIdentifiability [220ca800-aa68-49bb-acd8-6037fa93a544] to "C:\Users\Asus\.julia\compiled\v1.11\StructuralIdentifiability\jl_5F07.tmp".
Please submit a bug report with steps to reproduce this fault, and any error messages that follow (in their entirety). Thanks.
Exception: EXCEPTION_STACK_OVERFLOW at 0x7ff8536ab801 -
Precompiling StructuralIdentifiability...
^CProgress [====================> ] 1/2
✗ REPL
◒ StructuralIdentifiability
Interrupted: Exiting precompilation...
[ Info: Waiting for another process (pid: 24236) to finish precompiling StructuralIdentifiability [220ca800-aa68-49bb-acd8-6037fa93a544]. Pidfile: C:\Users\Asus.julia\compiled\v1.11\StructuralIdentifiability\7lGqk_kH8hz.ji.pidfile
Info Given StructuralIdentifiability was explicitly requested, output will be shown live
Please submit a bug report with steps to reproduce this fault, and any error messages that follow (in their entirety). Thanks.
Exception: EXCEPTION_STACK_OVERFLOW at 0x7ff8536b7f07 -- [ Info: Precompiling StructuralIdentifiability [220ca800-aa68-49bb-acd8-6037fa93a544] (edited)

@pogudingleb
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@TugbaAkmanTR
From the error message above, it seems that you are actually using Julia 1.11 (it shows up in the paths). The package does not precompile on 1.11.1 due to an issue in Julia, so you should either wait until 1.112 release (should be soon) or use the 1.10 version. Let us know if the problem persists.

@B-LIE
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B-LIE commented Dec 2, 2024

Julia v1.11.2 just came out. I'm trying to install StructuralIdentifiability.jl. No direct error messages yet, but it downgrades ModelingToolkit.jl and Symbolics.jl a bit. Also, the precompilation seems to hang/take forever:

(@v1.11) pkg> update
    Updating registry at `C:\Users\Bernt\.julia\registries\General.toml`
  No Changes to `C:\Users\Bernt\.julia\environments\v1.11\Project.toml`
  No Changes to `C:\Users\Bernt\.julia\environments\v1.11\Manifest.toml`
Precompiling project...
  Progress [==============>                          ]  1/3
  ◒ StructuralIdentifiability
  ✗ Symbolics  SymbolicsLuxExt

@B-LIE
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B-LIE commented Dec 2, 2024

OK -- I stopped the precompilation, which has been hanging for some 20 minutes as indicated above. When removing StructuralIdentifiability and updating, I get:

(@v1.11) pkg> update
    Updating registry at `C:\Users\Bernt\.julia\registries\General.toml`
   Installed Atomix ─ v1.0.0
    Updating `C:\Users\Bernt\.julia\environments\v1.11\Project.toml`
  [961ee093]  ModelingToolkit v9.51.0  v9.54.0
  [0c5d862f]  Symbolics v6.15.4  v6.22.0
    Updating `C:\Users\Bernt\.julia\environments\v1.11\Manifest.toml`
  [a9b6321e]  Atomix v0.1.0  v1.0.0

So StructuralIdentifiability.jl downgrades ModelingToolkit from v9.54.0 to v9.51.0, and Symbolics from v6.22.0 to v6.15.4. Also, Atomix -- I don't know what that is.

Anyways, still something not quite working. I don't get the error messages I got before, but precompilation hangs.

@pogudingleb
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Thank you for reporting! I will look into this at the end of the week.

@pogudingleb
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So precompilation was hanging. For now, I just removed it and made a new release 0.5.10 which works for me on 1.11.
The incompatibility with the most recent MTK is another story, I will address it shortly.

@pogudingleb
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I'm trying to install StructuralIdentifiability.jl. No direct error messages yet, but it downgrades ModelingToolkit.jl and Symbolics.jl a bit.

The upcoming release (0.5.11, I will make it right away) is compatible with the latest versions of ModelingToolkit and Symbolics.

@sumiya11
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Yaaaay! Thanks Gleb.

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