Package evaluation of CausalityTools on Julia 1.11.4 (a71dd056e0*) started at 2025-04-08T17:55:11.693 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 9.0s ################################################################################ # Installation # Installing CausalityTools... Resolving package versions... Updating `~/.julia/environments/v1.11/Project.toml` [5520caf5] + CausalityTools v3.0.0 Updating `~/.julia/environments/v1.11/Manifest.toml` [621f4979] + AbstractFFTs v1.5.0 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.3.0 [66dad0bd] + AliasTables v1.1.3 [ec485272] + ArnoldiMethod v0.4.0 [13072b0f] + AxisAlgorithms v1.1.0 [49dc2e85] + Calculus v0.5.2 [5520caf5] + CausalityTools v3.0.0 [d360d2e6] + ChainRulesCore v1.25.1 [35d6a980] + ColorSchemes v3.29.0 [3da002f7] + ColorTypes v0.12.1 [c3611d14] + ColorVectorSpace v0.11.0 [5ae59095] + Colors v0.13.0 [861a8166] + Combinatorics v1.0.2 [38540f10] + CommonSolve v0.2.4 [34da2185] + Compat v4.16.0 ⌃ [ab4b797d] + ComplexityMeasures v3.6.6 [a33af91c] + CompositionsBase v0.1.2 [187b0558] + ConstructionBase v1.5.8 [d38c429a] + Contour v0.6.3 [a8cc5b0e] + Crayons v4.1.1 ⌅ [717857b8] + DSP v0.7.10 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.18.22 ⌃ [5732040d] + DelayEmbeddings v2.7.4 [8bb1440f] + DelimitedFiles v1.9.1 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.118 [ffbed154] + DocStringExtensions v0.9.4 [7a1cc6ca] + FFTW v1.8.1 [1a297f60] + FillArrays v1.13.0 [53c48c17] + FixedPointNumbers v0.8.5 [86223c79] + Graphs v1.12.1 [34004b35] + HypergeometricFunctions v0.3.28 [09f84164] + HypothesisTests v0.11.5 [d25df0c9] + Inflate v0.1.5 [a98d9a8b] + Interpolations v0.15.1 [3587e190] + InverseFunctions v0.1.17 [92d709cd] + IrrationalConstants v0.2.4 [c8e1da08] + IterTools v1.10.0 [692b3bcd] + JLLWrappers v1.7.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [fc60dff9] + LombScargle v1.0.3 [1914dd2f] + MacroTools v0.5.15 [299715c1] + MarchingCubes v0.1.11 [eff96d63] + Measurements v2.12.0 [e1d29d7a] + Missings v1.2.0 [77ba4419] + NaNMath v1.1.3 [b8a86587] + NearestNeighbors v0.4.21 [645ca80c] + Neighborhood v0.2.4 [6fe1bfb0] + OffsetArrays v1.16.0 [bac558e1] + OrderedCollections v1.8.0 [90014a1f] + PDMats v0.11.33 [f27b6e38] + Polynomials v4.0.19 ⌅ [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.4.3 [92933f4c] + ProgressMeter v1.10.4 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [c84ed2f1] + Ratios v0.4.5 [3cdcf5f2] + RecipesBase v1.3.4 ⌃ [639c3291] + RecurrenceAnalysis v2.0.8 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [79098fc4] + Rmath v0.8.0 [f2b01f46] + Roots v2.2.7 [6c6a2e73] + Scratch v1.2.1 [efcf1570] + Setfield v1.1.2 [699a6c99] + SimpleTraits v0.9.4 [a2af1166] + SortingAlgorithms v1.2.1 [276daf66] + SpecialFunctions v2.5.0 ⌅ [40b095a5] + StateSpaceSets v1.5.0 [90137ffa] + StaticArrays v1.9.13 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.0 [2913bbd2] + StatsBase v0.34.4 [4c63d2b9] + StatsFuns v1.4.0 [62fd8b95] + TensorCore v0.1.1 ⌃ [c804724b] + TimeseriesSurrogates v2.7.1 [b8865327] + UnicodePlots v3.7.2 [29a6e085] + Wavelets v0.10.1 [efce3f68] + WoodburyMatrices v1.0.0 [f5851436] + FFTW_jll v3.3.11+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 v1.6.0 [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 [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. To see why use `status --outdated -m` Installation completed after 5.01s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 265.89s ################################################################################ # Testing # Testing CausalityTools Status `/tmp/jl_cNqNIC/Project.toml` [8e462317] CausalInference v0.19.1 [5520caf5] CausalityTools v3.0.0 [861a8166] Combinatorics v1.0.2 ⌃ [5732040d] DelayEmbeddings v2.7.4 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.118 ⌃ [6e36e845] DynamicalSystemsBase v3.10.0 [86223c79] Graphs v1.12.1 [09f84164] HypothesisTests v0.11.5 [645ca80c] Neighborhood v0.2.4 [860ef19b] StableRNGs v1.0.2 ⌅ [40b095a5] StateSpaceSets v1.5.0 [10745b16] Statistics v1.11.1 [2913bbd2] StatsBase v0.34.4 ⌃ [c804724b] TimeseriesSurrogates v2.7.1 [37e2e46d] LinearAlgebra v1.11.0 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_cNqNIC/Manifest.toml` [47edcb42] ADTypes v1.14.0 [14f7f29c] AMD v0.5.3 [621f4979] AbstractFFTs v1.5.0 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.3.0 [66dad0bd] AliasTables 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[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... Precompiling DynamicalSystemsBase... 960.1 ms ✓ SciMLOperators → SciMLOperatorsStaticArraysCoreExt 3558.7 ms ✓ RecursiveArrayTools 6164.7 ms ✓ ForwardDiff 1781.8 ms ✓ RecursiveArrayTools → RecursiveArrayToolsFastBroadcastExt 1304.4 ms ✓ RecursiveArrayTools → RecursiveArrayToolsSparseArraysExt 22662.3 ms ✓ SciMLBase 2206.4 ms ✓ ForwardDiff → ForwardDiffStaticArraysExt 1585.6 ms ✓ FastPower → FastPowerForwardDiffExt 1621.0 ms ✓ Roots → RootsForwardDiffExt 1842.3 ms ✓ RecursiveArrayTools → RecursiveArrayToolsForwardDiffExt 7136.5 ms ✓ DiffEqBase 4227.1 ms ✓ DiffEqBase → DiffEqBaseForwardDiffExt 3461.0 ms ✓ DiffEqBase → DiffEqBaseSparseArraysExt 7927.4 ms ✓ OrdinaryDiffEqCore 4152.7 ms ✓ OrdinaryDiffEqCore → OrdinaryDiffEqCoreEnzymeCoreExt 14864.7 ms ✓ OrdinaryDiffEqTsit5 7046.8 ms ✓ DynamicalSystemsBase 17 dependencies successfully precompiled in 94 seconds. 122 already precompiled. Precompiling RecursiveArrayToolsMeasurementsExt... 1217.0 ms ✓ RecursiveArrayTools → RecursiveArrayToolsMeasurementsExt 1 dependency successfully precompiled in 1 seconds. 40 already precompiled. Precompiling SciMLBaseChainRulesCoreExt... 2382.9 ms ✓ SciMLBase → SciMLBaseChainRulesCoreExt 1 dependency successfully precompiled in 3 seconds. 60 already precompiled. Precompiling FastPowerMeasurementsExt... 818.0 ms ✓ FastPower → FastPowerMeasurementsExt 1 dependency successfully precompiled in 1 seconds. 5 already precompiled. Precompiling DiffEqBaseDistributionsExt... 5995.5 ms ✓ DiffEqBase → DiffEqBaseDistributionsExt 1 dependency successfully precompiled in 8 seconds. 124 already precompiled. Precompiling DiffEqBaseChainRulesCoreExt... 3478.7 ms ✓ DiffEqBase → DiffEqBaseChainRulesCoreExt 1 dependency successfully precompiled in 4 seconds. 93 already precompiled. Precompiling DiffEqBaseMeasurementsExt... 2998.4 ms ✓ DiffEqBase → DiffEqBaseMeasurementsExt 1 dependency successfully precompiled in 4 seconds. 94 already precompiled. ┌ Warning: Convenience function `jdd` is deprecated. Use `association(JointDistanceDistribution(; kwargs...), x, y)` instead. └ @ CausalityTools ~/.julia/packages/CausalityTools/uitzk/src/deprecations/v3/joint_distance_distribution.jl:13 ┌ Warning: jdd(::OneSampleTTest, x, y; kwargs...) is deprecated. Instead, do `measure = JointDistanceDistribution(); independence(JointDistanceDistributionTest(measure), x, y)`. └ @ CausalityTools ~/.julia/packages/CausalityTools/uitzk/src/deprecations/v3/joint_distance_distribution.jl:29 ┌ Warning: Passing `m` as an argument to `OrdinalPattern...(m = ...)` is deprecated. Pass it as a type parameter instead: `OrdinalPattern...{m}`. └ @ ComplexityMeasures ~/.julia/packages/ComplexityMeasures/qgP6s/src/deprecations.jl:97 ┌ Warning: Passing `m` as an argument to `OrdinalPattern...(m = ...)` is deprecated. Pass it as a type parameter instead: `OrdinalPattern...{m}`. └ @ ComplexityMeasures ~/.julia/packages/ComplexityMeasures/qgP6s/src/deprecations.jl:97 ┌ Warning: Passing `m` as an argument to `OrdinalPattern...(m = ...)` is deprecated. Pass it as a type parameter instead: `OrdinalPattern...{m}`. └ @ ComplexityMeasures ~/.julia/packages/ComplexityMeasures/qgP6s/src/deprecations.jl:97 ┌ Warning: Assignment to `c` in soft scope is ambiguous because a global variable by the same name exists: `c` will be treated as a new local. Disambiguate by using `local c` to suppress this warning or `global c` to assign to the existing global variable. └ @ ~/.julia/packages/CausalityTools/uitzk/test/methods/information/core/counts.jl:16 ┌ Warning: Passing `m` as an argument to `OrdinalPattern...(m = ...)` is deprecated. Pass it as a type parameter instead: `OrdinalPattern...{m}`. └ @ ComplexityMeasures ~/.julia/packages/ComplexityMeasures/qgP6s/src/deprecations.jl:97 ┌ Warning: Passing `m` as an argument to `OrdinalPattern...(m = ...)` is deprecated. Pass it as a type parameter instead: `OrdinalPattern...{m}`. └ @ ComplexityMeasures ~/.julia/packages/ComplexityMeasures/qgP6s/src/deprecations.jl:97 Information: Error During Test at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/methods/information/conditional_mutual_informations/cmi_shannon.jl:32 Test threw exception Expression: association(est, x, y, z) ≥ 0 MethodError: no method matching Probabilities(::Array{Int64, 3}, ::Tuple{Vector{String}, Vector{String}, Vector{Int64}}, ::Tuple{Symbol, Symbol, Symbol}) The type `Probabilities` exists, but no method is defined for this combination of argument types when trying to construct it. Closest candidates are: Probabilities(::AbstractArray{T, N}, !Matched::NTuple{N, V} where V, ::NTuple{N, S}; normed) where {T, N, S} @ ComplexityMeasures ~/.julia/packages/ComplexityMeasures/qgP6s/src/core/probabilities.jl:59 Probabilities(::AbstractArray{T, N}, ::Tuple; normed) where {T, N} @ ComplexityMeasures ~/.julia/packages/ComplexityMeasures/qgP6s/src/core/probabilities.jl:92 Probabilities(!Matched::AbstractVector, !Matched::AbstractVector, ::Any; normed) @ ComplexityMeasures ~/.julia/packages/ComplexityMeasures/qgP6s/src/core/probabilities.jl:114 ... Stacktrace: [1] Probabilities(x::Counts{Int64, 3, Symbol}) @ ComplexityMeasures ~/.julia/packages/ComplexityMeasures/qgP6s/src/core/probabilities.jl:107 [2] probabilities @ ~/.julia/packages/CausalityTools/uitzk/src/methods/information/counts_and_probs/probabilities.jl:59 [inlined] [3] association(est::JointProbabilities{CMIShannon{Int64}, UniqueElements, RelativeAmount}, x::Vector{String}, y::Vector{String}, z::Vector{Int64}) @ CausalityTools ~/.julia/packages/CausalityTools/uitzk/src/methods/information/definitions/conditional_mutual_informations/CMIShannon.jl:67 [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:676 [inlined] [5] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/methods/information/conditional_mutual_informations/cmi_shannon.jl:515 Information: Error During Test at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 Got exception outside of a @test LoadError: MethodError: no method matching Probabilities(::Array{Int64, 3}, ::Tuple{Vector{String}, Vector{String}, Vector{Int64}}, ::Tuple{Symbol, Symbol, Symbol}) The type `Probabilities` exists, but no method is defined for this combination of argument types when trying to construct it. Closest candidates are: Probabilities(::AbstractArray{T, N}, !Matched::NTuple{N, V} where V, ::NTuple{N, S}; normed) where {T, N, S} @ ComplexityMeasures ~/.julia/packages/ComplexityMeasures/qgP6s/src/core/probabilities.jl:59 Probabilities(::AbstractArray{T, N}, ::Tuple; normed) where {T, N} @ ComplexityMeasures ~/.julia/packages/ComplexityMeasures/qgP6s/src/core/probabilities.jl:92 Probabilities(!Matched::AbstractVector, !Matched::AbstractVector, ::Any; normed) @ ComplexityMeasures ~/.julia/packages/ComplexityMeasures/qgP6s/src/core/probabilities.jl:114 ... Stacktrace: [1] Probabilities(x::Counts{Int64, 3, Symbol}) @ ComplexityMeasures ~/.julia/packages/ComplexityMeasures/qgP6s/src/core/probabilities.jl:107 [2] probabilities(est::RelativeAmount, c::Counts{Int64, 3, Symbol}) @ CausalityTools ~/.julia/packages/CausalityTools/uitzk/src/methods/information/counts_and_probs/probabilities.jl:62 [3] probabilities(::Vector{String}, ::Vector{String}, ::Vector{Int64}) @ CausalityTools ~/.julia/packages/CausalityTools/uitzk/src/methods/information/counts_and_probs/probabilities.jl:73 [4] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/methods/information/conditional_mutual_informations/cmi_tsallis_papetrou.jl:19 [5] include(fname::String) @ Main ./sysimg.jl:38 [6] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/methods/information/conditional_mutual_informations/conditional_mutual_informations.jl:2 [7] include(fname::String) @ Main ./sysimg.jl:38 [8] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/methods/information/information.jl:7 [9] include @ ./sysimg.jl:38 [inlined] [10] macro expansion @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [inlined] [11] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:1704 [inlined] [12] testfile(file::String, testname::String) @ Main ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [13] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/methods/methods.jl:4 [14] include @ ./sysimg.jl:38 [inlined] [15] macro expansion @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [inlined] [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:1704 [inlined] [17] testfile(file::String, testname::String) @ Main ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [18] macro expansion @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:9 [inlined] [19] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:1704 [inlined] [20] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:7 [21] include(fname::String) @ Main ./sysimg.jl:38 [22] top-level scope @ none:6 [23] eval @ ./boot.jl:430 [inlined] [24] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [25] _start() @ Base ./client.jl:531 in expression starting at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/methods/information/conditional_mutual_informations/cmi_tsallis_papetrou.jl:19 in expression starting at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/methods/information/conditional_mutual_informations/conditional_mutual_informations.jl:2 in expression starting at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/methods/information/information.jl:7 ┌ Warning: `PMI` is deprecated, use `PartialMutualInformation` instead. │ caller = top-level scope at part_mutual_information.jl:13 └ @ Core ~/.julia/packages/CausalityTools/uitzk/test/independence/LocalPermutationTest/part_mutual_information.jl:13 ┌ Warning: `PMI` is deprecated, use `PartialMutualInformation` instead. │ caller = top-level scope at part_mutual_information.jl:14 └ @ Core ~/.julia/packages/CausalityTools/uitzk/test/independence/LocalPermutationTest/part_mutual_information.jl:14 ┌ Warning: `PMI` is deprecated, use `PartialMutualInformation` instead. │ caller = top-level scope at part_mutual_information.jl:15 └ @ Core ~/.julia/packages/CausalityTools/uitzk/test/independence/LocalPermutationTest/part_mutual_information.jl:15 Inferring parents using optimal causation entropy (OCE) Notation: a ⫫ b | c := `a` is conditionally independent of `b`, given `c` a !⫫ b | c := `a` is conditionally dependent of `b`, given `c` * xᵢ(τ) := target variable at lag τ * pⱼ(τ) := candidate variable at lag τ * 𝒫ᵢ(τ) := parent set of xᵢ(τ) Inferring parents for x1(0) ˧ Querying pairwise associations... x₁(0) !⫫ x₁(-1) | ∅ ˧ Querying new variables conditioned on already selected variables... x₁(0) ⫫ x₁(-2) | {x₁(-1)} x₁(0) ⫫ x₂(-1) | {x₁(-1)} x₁(0) ⫫ x₂(-2) | {x₁(-1)} x₁(0) ⫫ x₃(-1) | {x₁(-1)} x₁(0) ⫫ x₃(-2) | {x₁(-1)} x₁(0) ⫫ x₄(-1) | {x₁(-1)} x₁(0) ⫫ x₄(-2) | {x₁(-1)} Inferring parents for x2(0) ˧ Querying pairwise associations... x₂(0) !⫫ x₁(-2) | ∅ ˧ Querying new variables conditioned on already selected variables... x₂(0) !⫫ x₂(-1) | {x₁(-2)} x₂(0) ⫫ x₁(-1) | {x₁(-2), x₂(-1)} x₂(0) ⫫ x₂(-2) | {x₁(-2), x₂(-1)} x₂(0) ⫫ x₃(-1) | {x₁(-2), x₂(-1)} x₂(0) ⫫ x₃(-2) | {x₁(-2), x₂(-1)} x₂(0) ⫫ x₄(-1) | {x₁(-2), x₂(-1)} x₂(0) ⫫ x₄(-2) | {x₁(-2), x₂(-1)} ˧ Backwards elimination... Before elimination, parents of x₂(0) are 𝒫₂(0) = {x₁(-2), x₂(-1)} Commencing with backward elimination... x₂(0) ⫫ x₁(-2) | {x₂(-1)} → Keeping x₁(-2) in parent set x₂(0) ⫫ x₂(-1) | {x₁(-2)} → Keeping x₂(-1) in parent set After elimination, parents of x₂(0) are 𝒫₂(0) = {x₁(-2), x₂(-1)} Inferring parents for x3(0) ˧ Querying pairwise associations... x₃(0) !⫫ x₃(-1) | ∅ ˧ Querying new variables conditioned on already selected variables... x₃(0) ⫫ x₁(-1) | {x₃(-1)} x₃(0) ⫫ x₁(-2) | {x₃(-1)} x₃(0) ⫫ x₂(-1) | {x₃(-1)} x₃(0) ⫫ x₂(-2) | {x₃(-1)} x₃(0) ⫫ x₃(-2) | {x₃(-1)} x₃(0) ⫫ x₄(-1) | {x₃(-1)} x₃(0) ⫫ x₄(-2) | {x₃(-1)} Inferring parents for x4(0) ˧ Querying pairwise associations... x₄(0) !⫫ x₄(-1) | ∅ ˧ Querying new variables conditioned on already selected variables... x₄(0) ⫫ x₁(-1) | {x₄(-1)} x₄(0) ⫫ x₁(-2) | {x₄(-1)} x₄(0) ⫫ x₂(-1) | {x₄(-1)} x₄(0) ⫫ x₂(-2) | {x₄(-1)} x₄(0) ⫫ x₃(-1) | {x₄(-1)} x₄(0) ⫫ x₃(-2) | {x₄(-1)} x₄(0) ⫫ x₄(-2) | {x₄(-1)} Inferring parents using optimal causation entropy (OCE) Notation: a ⫫ b | c := `a` is conditionally independent of `b`, given `c` a !⫫ b | c := `a` is conditionally dependent of `b`, given `c` * xᵢ(τ) := target variable at lag τ * pⱼ(τ) := candidate variable at lag τ * 𝒫ᵢ(τ) := parent set of xᵢ(τ) Inferring parents for x1(0) ˧ Querying pairwise associations... x₁(0) !⫫ x₁(-1) | ∅ ˧ Querying new variables conditioned on already selected variables... x₁(0) ⫫ x₁(-2) | {x₁(-1)} x₁(0) ⫫ x₂(-1) | {x₁(-1)} x₁(0) ⫫ x₂(-2) | {x₁(-1)} x₁(0) ⫫ x₃(-1) | {x₁(-1)} x₁(0) ⫫ x₃(-2) | {x₁(-1)} x₁(0) ⫫ x₄(-1) | {x₁(-1)} x₁(0) ⫫ x₄(-2) | {x₁(-1)} Inferring parents for x2(0) ˧ Querying pairwise associations... x₂(0) !⫫ x₂(-1) | ∅ ˧ Querying new variables conditioned on already selected variables... x₂(0) !⫫ x₁(-1) | {x₂(-1)} x₂(0) ⫫ x₁(-2) | {x₂(-1), x₁(-1)} x₂(0) ⫫ x₂(-2) | {x₂(-1), x₁(-1)} x₂(0) ⫫ x₃(-1) | {x₂(-1), x₁(-1)} x₂(0) ⫫ x₃(-2) | {x₂(-1), x₁(-1)} x₂(0) ⫫ x₄(-1) | {x₂(-1), x₁(-1)} x₂(0) ⫫ x₄(-2) | {x₂(-1), x₁(-1)} ˧ Backwards elimination... Before elimination, parents of x₂(0) are 𝒫₂(0) = {x₂(-1), x₁(-1)} Commencing with backward elimination... x₂(0) ⫫ x₂(-1) | {x₁(-1)} → Keeping x₂(-1) in parent set x₂(0) ⫫ x₁(-1) | {x₂(-1)} → Keeping x₁(-1) in parent set After elimination, parents of x₂(0) are 𝒫₂(0) = {x₂(-1), x₁(-1)} Inferring parents for x3(0) ˧ Querying pairwise associations... x₃(0) !⫫ x₃(-1) | ∅ ˧ Querying new variables conditioned on already selected variables... x₃(0) ⫫ x₁(-1) | {x₃(-1)} x₃(0) ⫫ x₁(-2) | {x₃(-1)} x₃(0) ⫫ x₂(-1) | {x₃(-1)} x₃(0) ⫫ x₂(-2) | {x₃(-1)} x₃(0) ⫫ x₃(-2) | {x₃(-1)} x₃(0) ⫫ x₄(-1) | {x₃(-1)} x₃(0) ⫫ x₄(-2) | {x₃(-1)} Inferring parents for x4(0) ˧ Querying pairwise associations... x₄(0) !⫫ x₄(-1) | ∅ ˧ Querying new variables conditioned on already selected variables... x₄(0) ⫫ x₁(-1) | {x₄(-1)} x₄(0) ⫫ x₁(-2) | {x₄(-1)} x₄(0) ⫫ x₂(-1) | {x₄(-1)} x₄(0) ⫫ x₂(-2) | {x₄(-1)} x₄(0) ⫫ x₃(-1) | {x₄(-1)} x₄(0) ⫫ x₃(-2) | {x₄(-1)} x₄(0) ⫫ x₄(-2) | {x₄(-1)} Inferring parents using optimal causation entropy (OCE) Notation: a ⫫ b | c := `a` is conditionally independent of `b`, given `c` a !⫫ b | c := `a` is conditionally dependent of `b`, given `c` * xᵢ(τ) := target variable at lag τ * pⱼ(τ) := candidate variable at lag τ * 𝒫ᵢ(τ) := parent set of xᵢ(τ) Inferring parents for x1(0) ˧ Querying pairwise associations... x₁(0) !⫫ x₁(-1) | ∅ ˧ Querying new variables conditioned on already selected variables... x₁(0) ⫫ x₂(-1) | {x₁(-1)} Inferring parents for x2(0) ˧ Querying pairwise associations... x₂(0) !⫫ x₁(-1) | ∅ ˧ Querying new variables conditioned on already selected variables... x₂(0) ⫫ x₂(-1) | {x₁(-1)} x₁(0) ← {x₁(-1)}x₂(0) ← {x₁(-1)}Precompiling CausalInference... 2180.1 ms ✓ BitBasis 7070.4 ms ✓ MetaGraphs 3086.0 ms ✓ Metis → MetisGraphs 3358.8 ms ✓ TreeWidthSolver 4134.5 ms ✓ CliqueTrees 47023.6 ms ✓ CausalInference 6 dependencies successfully precompiled in 71 seconds. 135 already precompiled. WARNING: Method definition _dummy_backedge() in module Memoization at /home/pkgeval/.julia/packages/Memoization/ON3Za/src/Memoization.jl:49 overwritten at /home/pkgeval/.julia/packages/Memoization/ON3Za/src/Memoization.jl:65. Precompiling LogarithmicNumbersForwardDiffExt... 1553.1 ms ✓ LogarithmicNumbers → LogarithmicNumbersForwardDiffExt 1 dependency successfully precompiled in 2 seconds. 21 already precompiled. Skeleton (conditional, level 𝓁=1): Removing Edge 1 => 4 and Edge 4 => 1 (p = 0.18636079041680942) Skeleton (conditional, level 𝓁=1): Removing Edge 1 => 5 and Edge 5 => 1 (p = 0.948753842549287) Skeleton (conditional, level 𝓁=1): Removing Edge 2 => 3 and Edge 3 => 2 (p = 0.7237613298100423) Skeleton (conditional, level 𝓁=1): Removing Edge 2 => 5 and Edge 5 => 2 (p = 0.7226954522836686) Skeleton (conditional, level 𝓁=1): Removing Edge 3 => 2 and Edge 2 => 3 (p = 0.7237613298100423) Skeleton (conditional, level 𝓁=1): Removing Edge 3 => 5 and Edge 5 => 3 (p = 0.06959590969265217) Skeleton (conditional, level 𝓁=1): Removing Edge 4 => 1 and Edge 1 => 4 (p = 0.18636079041720977) Skeleton (conditional, level 𝓁=1): Removing Edge 5 => 1 and Edge 1 => 5 (p = 0.948753842549287) Skeleton (conditional, level 𝓁=1): Removing Edge 5 => 2 and Edge 2 => 5 (p = 0.7226954522836713) Skeleton (conditional, level 𝓁=1): Removing Edge 5 => 3 and Edge 3 => 5 (p = 0.06959590969265306) Orienting v-structures... (Rule 0) Oriented 2 ↔ 4 ↔ 3 as 2 → 4 ← 3 Applying rules sequentially ... (#1) (Rule 1) Oriented 2 → 4 ↔ 5 as 2 → 4 → 5 Applying rules sequentially ... (#2) No edge was redirected in this iteration. Stopping. Finished orientiation! Test Summary: | Pass Error Total Time CausalityTools.jl | 469 2 471 11m36.6s Deprecations | 0 0.0s Methods | 318 2 320 5m28.7s Closeness | 42 42 36.1s Ccm like | 56 56 16.3s Correlation | 17 17 20.5s Information | 166 2 168 2m05.7s JointProbabilities with MIShannon | 4 4 0.9s JointProbabilities with MIRenyiJizba | 4 4 0.1s JointProbabilities with MIRenyiSarbu | 4 4 0.1s JointProbabilities with MITsallisFuruichi | 4 4 0.1s JointProbabilities with MITsallisMartin | 4 4 0.1s EntropyDecomposition with MIShannon | 4 4 10.2s EntropyDecomposition with MITsallisMartin | 4 4 0.4s EntropyDecomposition with MITsallisFuruichi | 4 4 0.3s EntropyDecomposition with MIRenyiSarbu | 8 8 0.2s Recurrence | 31 31 2m10.0s Deprecations | 6 6 0.1s Independence | 122 122 1m37.1s Causal graphs | 29 29 2m28.9s ERROR: LoadError: Some tests did not pass: 469 passed, 0 failed, 2 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/runtests.jl:6 Testing failed after 712.75s ERROR: LoadError: Package CausalityTools errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Types.jl:68 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.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/v1.11/Pkg/src/Operations.jl:2124 [3] test @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2007 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.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/v1.11/Pkg/src/API.jl:481 [5] test(pkgs::Vector{Pkg.Types.PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:159 [6] test @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:147 [inlined] [7] #test#74 @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:146 [inlined] [8] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 1022.11s: package tests unexpectedly errored