Package evaluation of CausalityTools on Julia 1.13.0-DEV.1072 (de815ed1fa*) started at 2025-09-03T20:15:16.644 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 9.88s ################################################################################ # Installation # Installing CausalityTools... Resolving package versions... Updating `~/.julia/environments/v1.13/Project.toml` [5520caf5] + CausalityTools v3.0.0 Updating `~/.julia/environments/v1.13/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 v1.26.0 [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 [38540f10] + CommonSolve v0.2.4 [34da2185] + Compat v4.18.0 ⌃ [ab4b797d] + ComplexityMeasures v3.6.6 [a33af91c] + CompositionsBase v0.1.2 [187b0558] + ConstructionBase v1.6.0 [d38c429a] + Contour v0.6.3 [a8cc5b0e] + Crayons v4.1.1 ⌅ [717857b8] + DSP v0.7.10 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.19.1 ⌃ [5732040d] + DelayEmbeddings v2.7.4 [8bb1440f] + DelimitedFiles v1.9.1 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.120 [ffbed154] + DocStringExtensions v0.9.5 [7a1cc6ca] + FFTW v1.9.0 [1a297f60] + FillArrays v1.13.0 [53c48c17] + FixedPointNumbers v0.8.5 [86223c79] + Graphs v1.13.1 [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 v1.7.1 [2ab3a3ac] + LogExpFunctions v0.3.29 [fc60dff9] + LombScargle v1.0.3 [1914dd2f] + MacroTools v0.5.16 [299715c1] + MarchingCubes v0.1.11 [eff96d63] + Measurements v2.14.0 [e1d29d7a] + Missings v1.2.0 [77ba4419] + NaNMath v1.1.3 [b8a86587] + NearestNeighbors v0.4.22 [645ca80c] + Neighborhood v0.2.4 [6fe1bfb0] + OffsetArrays v1.17.0 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.35 [f27b6e38] + Polynomials v4.1.0 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.0 [92933f4c] + ProgressMeter v1.11.0 [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 v2.2.10 [6c6a2e73] + Scratch v1.3.0 [efcf1570] + Setfield v1.1.2 [699a6c99] + SimpleTraits v0.9.5 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.5.1 ⌅ [40b095a5] + StateSpaceSets v1.5.0 [90137ffa] + StaticArrays v1.9.15 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.6 [4c63d2b9] + StatsFuns v1.5.0 [62fd8b95] + TensorCore v0.1.1 ⌃ [c804724b] + TimeseriesSurrogates v2.7.1 [b8865327] + UnicodePlots v3.8.1 [29a6e085] + Wavelets v0.10.1 [efce3f68] + WoodburyMatrices v1.0.0 [f5851436] + FFTW_jll v3.3.11+0 [1d5cc7b8] + IntelOpenMP_jll v2025.2.0+0 [856f044c] + MKL_jll v2025.2.0+0 [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 v1.13.0 [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 v1.13.0 [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+1 [e37daf67] + LibGit2_jll v1.9.1+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.8.12 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.2+0 [efcefdf7] + PCRE2_jll v10.46.0+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.1+2 [3161d3a3] + Zstd_jll v1.5.7+1 [8e850b90] + libblastrampoline_jll v5.13.1+0 [8e850ede] + nghttp2_jll v1.66.0+0 [3f19e933] + p7zip_jll v17.6.0+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. To see why use `status --outdated -m` Installation completed after 6.11s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 571.58s ################################################################################ # Testing # Testing CausalityTools Status `/tmp/jl_n9aH4Q/Project.toml` ⌃ [8e462317] CausalInference v0.18.0 [5520caf5] CausalityTools v3.0.0 [861a8166] Combinatorics v1.0.3 ⌃ [5732040d] DelayEmbeddings v2.7.4 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.120 ⌃ [6e36e845] DynamicalSystemsBase v2.3.2 [86223c79] Graphs v1.13.1 [09f84164] HypothesisTests v0.11.5 [645ca80c] Neighborhood v0.2.4 [860ef19b] StableRNGs v1.0.3 ⌅ [40b095a5] StateSpaceSets v1.5.0 [10745b16] Statistics v1.11.1 [2913bbd2] StatsBase v0.34.6 ⌃ [c804724b] TimeseriesSurrogates v2.7.1 [37e2e46d] LinearAlgebra v1.13.0 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_n9aH4Q/Manifest.toml` [47edcb42] ADTypes v1.17.0 [621f4979] AbstractFFTs v1.5.0 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.3.0 [66dad0bd] AliasTables v1.1.3 [dce04be8] ArgCheck v2.5.0 [ec485272] 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v2025.2.0+0 [856f044c] MKL_jll v2025.2.0+0 [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 v1.13.0 [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 v1.13.0 [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+1 [e37daf67] LibGit2_jll v1.9.1+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.8.12 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.2+0 [efcefdf7] PCRE2_jll v10.46.0+0 [bea87d4a] SuiteSparse_jll v7.10.1+0 [83775a58] Zlib_jll v1.3.1+2 [3161d3a3] Zstd_jll v1.5.7+1 [8e850b90] libblastrampoline_jll v5.13.1+0 [8e850ede] nghttp2_jll v1.66.0+0 [3f19e933] p7zip_jll v17.6.0+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... 4239.2 ms ✓ RecursiveArrayTools 9428.5 ms ✓ ForwardDiff 2412.8 ms ✓ RecursiveArrayTools → RecursiveArrayToolsSparseArraysExt 2598.5 ms ✓ RecursiveArrayTools → RecursiveArrayToolsFastBroadcastExt 25605.3 ms ✓ SciMLBase 4212.0 ms ✓ ForwardDiff → ForwardDiffStaticArraysExt 3294.9 ms ✓ FastPower → FastPowerForwardDiffExt 1864.2 ms ✓ PreallocationTools → PreallocationToolsForwardDiffExt 1990.7 ms ✓ RecursiveArrayTools → RecursiveArrayToolsForwardDiffExt 6368.6 ms ✓ SciMLBase → SciMLBaseForwardDiffExt 6433.2 ms ✓ SciMLBase → SciMLBaseDistributionsExt 6973.2 ms ✓ DiffEqBase 4488.1 ms ✓ DiffEqBase → DiffEqBaseSparseArraysExt 7701.8 ms ✓ SimpleDiffEq 6456.6 ms ✓ DiffEqBase → DiffEqBaseForwardDiffExt 13545.8 ms ✓ DynamicalSystemsBase 16 dependencies successfully precompiled in 113 seconds. 137 already precompiled. Precompiling packages... 5307.1 ms ✓ RecursiveArrayTools → RecursiveArrayToolsMeasurementsExt 1 dependency successfully precompiled in 6 seconds. 34 already precompiled. Precompiling packages... 3424.1 ms ✓ SciMLBase → SciMLBaseChainRulesCoreExt 1 dependency successfully precompiled in 4 seconds. 58 already precompiled. Precompiling packages... 3416.8 ms ✓ SciMLBase → SciMLBaseMeasurementsExt 1 dependency successfully precompiled in 4 seconds. 57 already precompiled. Precompiling packages... 4406.0 ms ✓ DiffEqBase → DiffEqBaseChainRulesCoreExt 1 dependency successfully precompiled in 5 seconds. 88 already precompiled. Precompiling packages... 4006.5 ms ✓ DiffEqBase → DiffEqBaseMeasurementsExt 1 dependency successfully precompiled in 5 seconds. 90 already precompiled. Precompiling packages... 1965.9 ms ✓ Roots → RootsForwardDiffExt 1 dependency successfully precompiled in 2 seconds. 30 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] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/methods/information/conditional_mutual_informations/cmi_shannon.jl:532 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:741 [inlined] 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(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [6] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/methods/information/conditional_mutual_informations/conditional_mutual_informations.jl:2 [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [8] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/methods/information/information.jl:7 [9] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [10] IncludeInto @ ./Base.jl:310 [inlined] [11] macro expansion @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1945 [inlined] [13] testfile(file::String, testname::String) @ Main ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [14] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/methods/methods.jl:4 [15] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [16] IncludeInto @ ./Base.jl:310 [inlined] [17] macro expansion @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1945 [inlined] [19] testfile(file::String, testname::String) @ Main ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [20] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:7 [21] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1945 [inlined] [22] macro expansion @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:9 [inlined] [23] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [24] top-level scope @ none:6 [25] eval(m::Module, e::Any) @ Core ./boot.jl:489 [26] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [27] _start() @ Base ./client.jl:563 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 Recurrence: Error During Test at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 Got exception outside of a @test LoadError: BoundsError: attempt to access Tuple{SVector{4, Float64}} at index [2] Stacktrace: [1] indexed_iterate(t::Tuple{SVector{4, Float64}}, i::Int64, state::Int64) @ Base ./tuple.jl:163 [2] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/methods/recurrence/RMCD.jl:40 [3] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [4] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/methods/recurrence/recurrence.jl:2 [5] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [6] IncludeInto @ ./Base.jl:310 [inlined] [7] macro expansion @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1945 [inlined] [9] testfile(file::String, testname::String) @ Main ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [10] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/methods/methods.jl:5 [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [12] IncludeInto @ ./Base.jl:310 [inlined] [13] macro expansion @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [inlined] [14] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1945 [inlined] [15] testfile(file::String, testname::String) @ Main ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [16] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:7 [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1945 [inlined] [18] macro expansion @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:9 [inlined] [19] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [20] top-level scope @ none:6 [21] eval(m::Module, e::Any) @ Core ./boot.jl:489 [22] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [23] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/methods/recurrence/RMCD.jl:40 in expression starting at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/methods/recurrence/recurrence.jl:2 ┌ 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 Independence: Error During Test at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 Got exception outside of a @test LoadError: BoundsError: attempt to access Tuple{SVector{4, Float64}} at index [2] Stacktrace: [1] indexed_iterate(t::Tuple{SVector{4, Float64}}, i::Int64, state::Int64) @ Base ./tuple.jl:163 [2] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/independence/LocalPermutationTest/transferentropy.jl:33 [3] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [4] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/independence/LocalPermutationTest/local_permutation_test.jl:7 [5] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [6] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/independence/independence.jl:1 [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [8] IncludeInto @ ./Base.jl:310 [inlined] [9] macro expansion @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [inlined] [10] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1945 [inlined] [11] testfile(file::String, testname::String) @ Main ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [12] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:7 [13] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1945 [inlined] [14] macro expansion @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:10 [inlined] [15] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [16] top-level scope @ none:6 [17] eval(m::Module, e::Any) @ Core ./boot.jl:489 [18] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [19] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/independence/LocalPermutationTest/transferentropy.jl:33 in expression starting at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/independence/LocalPermutationTest/local_permutation_test.jl:7 in expression starting at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/independence/independence.jl: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... Causal graphs: Error During Test at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 Got exception outside of a @test LoadError: BoundsError: attempt to access 0-element Vector{Float64} at index [0] Stacktrace: [1] throw_boundserror(A::Vector{Float64}, I::Tuple{Int64}) @ Base ./essentials.jl:13 [2] checkbounds @ ./essentials.jl:385 [inlined] [3] getindex @ ./essentials.jl:964 [inlined] [4] last @ ./abstractarray.jl:526 [inlined] [5] _broadcast_getindex_evalf @ ./broadcast.jl:701 [inlined] [6] _broadcast_getindex @ ./broadcast.jl:674 [inlined] [7] _getindex @ ./broadcast.jl:622 [inlined] [8] getindex @ ./broadcast.jl:618 [inlined] [9] macro expansion @ ./broadcast.jl:997 [inlined] [10] macro expansion @ ./simdloop.jl:77 [inlined] [11] copyto! @ ./broadcast.jl:996 [inlined] [12] copyto! @ ./broadcast.jl:949 [inlined] [13] copy @ ./broadcast.jl:921 [inlined] [14] materialize @ ./broadcast.jl:896 [inlined] [15] association(::KraskovStögbauerGrassberger1{MIShannon{Int64}, Chebyshev, Chebyshev}, ::SubArray{Float64, 1, SVector{4, Float64}, Tuple{UnitRange{Int64}}, true}, ::Vector{Float64}) @ CausalityTools ~/.julia/packages/CausalityTools/uitzk/src/methods/information/estimators/mutual_info_estimators/KSG1.jl:81 [16] (::CausalityTools.var"#rawmeasure_and_independencetest##0#rawmeasure_and_independencetest##1")(xᵢ::SubArray{Float64, 1, SVector{4, Float64}, Tuple{UnitRange{Int64}}, true}, Pⱼ::Vector{Float64}) @ CausalityTools ~/.julia/packages/CausalityTools/uitzk/src/causal_graphs/oce/OCE.jl:208 [17] select_parent!(alg::OCE{SurrogateAssociationTest{KraskovStögbauerGrassberger1{MIShannon{Int64}, Chebyshev, Chebyshev}, StableRNGs.LehmerRNG, RandomShuffle}, LocalPermutationTest{MesnerShalizi{CMIShannon{Int64}, Chebyshev}, CausalityTools.NeighborCloseness, StableRNGs.LehmerRNG}, Int64}, parents::OCESelectedParents{Vector{Vector{Float64}}, Vector{Int64}, Vector{Int64}, UnitRange{Int64}}, τs::Vector{Int64}, js::Vector{Int64}, 𝒫s::Vector{Vector{Float64}}, xᵢ::SubArray{Float64, 1, SVector{4, Float64}, Tuple{UnitRange{Int64}}, true}, i::Int64; verbose::Bool) @ CausalityTools ~/.julia/packages/CausalityTools/uitzk/src/causal_graphs/oce/OCE.jl:172 [18] select_parent! @ ~/.julia/packages/CausalityTools/uitzk/src/causal_graphs/oce/OCE.jl:160 [inlined] [19] select_parents(alg::OCE{SurrogateAssociationTest{KraskovStögbauerGrassberger1{MIShannon{Int64}, Chebyshev, Chebyshev}, StableRNGs.LehmerRNG, RandomShuffle}, LocalPermutationTest{MesnerShalizi{CMIShannon{Int64}, Chebyshev}, CausalityTools.NeighborCloseness, StableRNGs.LehmerRNG}, Int64}, x::Tuple{SVector{4, Float64}}, i::Int64; verbose::Bool) @ CausalityTools ~/.julia/packages/CausalityTools/uitzk/src/causal_graphs/oce/OCE.jl:129 [20] select_parents @ ~/.julia/packages/CausalityTools/uitzk/src/causal_graphs/oce/OCE.jl:109 [inlined] [21] #254 @ ./none:-1 [inlined] [22] iterate @ ./generator.jl:48 [inlined] [23] collect @ ./array.jl:803 [inlined] [24] #select_parents#252 @ ~/.julia/packages/CausalityTools/uitzk/src/causal_graphs/oce/OCE.jl:105 [inlined] [25] select_parents @ ~/.julia/packages/CausalityTools/uitzk/src/causal_graphs/oce/OCE.jl:103 [inlined] [26] #infer_graph#250 @ ~/.julia/packages/CausalityTools/uitzk/src/causal_graphs/oce/OCE.jl:89 [inlined] [27] kwcall(::@NamedTuple{verbose::Bool}, ::typeof(infer_graph), alg::OCE{SurrogateAssociationTest{KraskovStögbauerGrassberger1{MIShannon{Int64}, Chebyshev, Chebyshev}, StableRNGs.LehmerRNG, RandomShuffle}, LocalPermutationTest{MesnerShalizi{CMIShannon{Int64}, Chebyshev}, CausalityTools.NeighborCloseness, StableRNGs.LehmerRNG}, Int64}, x::Tuple{SVector{4, Float64}}) @ CausalityTools ~/.julia/packages/CausalityTools/uitzk/src/causal_graphs/oce/OCE.jl:87 [28] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/causal_graphs/oce.jl:17 [29] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [30] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/causal_graphs/causal_graphs.jl:1 [31] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [32] IncludeInto @ ./Base.jl:310 [inlined] [33] macro expansion @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [inlined] [34] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1945 [inlined] [35] testfile(file::String, testname::String) @ Main ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:4 [36] top-level scope @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:7 [37] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1945 [inlined] [38] macro expansion @ ~/.julia/packages/CausalityTools/uitzk/test/runtests.jl:11 [inlined] [39] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [40] top-level scope @ none:6 [41] eval(m::Module, e::Any) @ Core ./boot.jl:489 [42] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [43] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/causal_graphs/oce.jl:17 in expression starting at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/causal_graphs/causal_graphs.jl:1 Test Summary: | Pass Error Total Time CausalityTools.jl | 344 5 349 7m58.4s Deprecations | 0 0.0s Methods | 317 3 320 5m14.7s Closeness | 42 42 38.3s Ccm like | 56 56 18.4s Correlation | 17 17 17.7s Information | 166 2 168 2m02.2s JointProbabilities with MIShannon | 4 4 1.7s 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 11.8s EntropyDecomposition with MITsallisMartin | 4 4 0.3s EntropyDecomposition with MITsallisFuruichi | 4 4 0.2s EntropyDecomposition with MIRenyiSarbu | 8 8 0.2s Recurrence | 30 1 31 1m57.6s Deprecations | 6 6 0.1s Independence | 27 1 28 14.7s Causal graphs | 1 1 4.8s RNG of the outermost testset: Xoshiro(0xb1d9aa27becee7db, 0xa4f73f7c9eb9fd75, 0x94ca3ba0235fbf3b, 0x189d8b920d136d3a, 0x350163bca76398f7) ERROR: LoadError: Some tests did not pass: 344 passed, 0 failed, 5 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/CausalityTools/uitzk/test/runtests.jl:6 Testing failed after 501.26s ERROR: LoadError: Package CausalityTools 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:2673 [3] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2522 [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:538 [5] kwcall(::@NamedTuple{julia_args::Cmd, io::IOContext{IO}}, ::typeof(Pkg.API.test), ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:515 [6] 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:168 [7] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:157 [8] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156 [9] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156 [inlined] [10] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:155 [11] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [12] include(mod::Module, _path::String) @ Base ./Base.jl:308 [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:330 [14] _start() @ Base ./client.jl:563 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 1135.74s: package tests unexpectedly errored