If you think that there is an error in how your package is being tested or represented, please file an issue at NewPkgEval.jl , making sure to read the FAQ first.
Results with Julia v1.2.0
Testing was successful .
Last evaluation was ago and took 26 minutes, 31 seconds.
Click here to download the log file.
Click here to show the log contents.
Resolving package versions...
Installed Missings ──────────────────── v0.4.3
Installed DataAPI ───────────────────── v1.1.0
Installed DelayEmbeddings ───────────── v1.2.0
Installed Showoff ───────────────────── v0.3.1
Installed TableTraits ───────────────── v1.0.0
Installed NearestNeighbors ──────────── v0.4.4
Installed Sass ──────────────────────── v0.1.0
Installed CausalityTools ────────────── v0.7.0
Installed LineSearches ──────────────── v7.0.1
Installed Contour ───────────────────── v0.5.1
Installed AbstractFFTs ──────────────── v0.4.1
Installed PDMats ────────────────────── v0.9.10
Installed SimpleDiffEq ──────────────── v0.5.0
Installed DataFrames ────────────────── v0.19.4
Installed Colors ────────────────────── v0.9.6
Installed BinaryProvider ────────────── v0.5.8
Installed Conda ─────────────────────── v1.3.0
Installed Measurements ──────────────── v2.1.1
Installed CommonSubexpressions ──────── v0.2.0
Installed StatsBase ─────────────────── v0.32.0
Installed StatsFuns ─────────────────── v0.9.0
Installed Measures ──────────────────── v0.3.0
Installed Plots ─────────────────────── v0.28.2
Installed Wavelets ──────────────────── v0.8.0
Installed DiffEqBase ────────────────── v6.7.0
Installed AxisAlgorithms ────────────── v1.0.0
Installed Polynomials ───────────────── v0.6.0
Installed ErrorfreeArithmetic ───────── v0.4.0
Installed URIParser ─────────────────── v0.4.0
Installed DocStringExtensions ───────── v0.8.1
Installed SetRounding ───────────────── v0.2.0
Installed NLSolversBase ─────────────── v7.5.0
Installed DataValueInterfaces ───────── v1.0.0
Installed HypothesisTests ───────────── v0.8.0
Installed Requires ──────────────────── v0.5.2
Installed InvertedIndices ───────────── v1.0.0
Installed Reexport ──────────────────── v0.2.0
Installed Simplices ─────────────────── v0.4.1
Installed InplaceOps ────────────────── v0.3.0
Installed PooledArrays ──────────────── v0.5.2
Installed UncertainData ─────────────── v0.9.3
Installed Compat ────────────────────── v2.2.0
Installed Rmath ─────────────────────── v0.5.1
Installed PyCall ────────────────────── v1.91.2
Installed OffsetArrays ──────────────── v0.11.2
Installed FunctionWrappers ──────────── v1.0.0
Installed ForwardDiff ───────────────── v0.10.7
Installed IntervalArithmetic ────────── v0.16.1
Installed CausalityToolsBase ────────── v0.7.0
Installed Tables ────────────────────── v0.2.11
Installed OrderedCollections ────────── v1.1.0
Installed UnicodePlots ──────────────── v1.1.0
Installed KernelDensity ─────────────── v0.5.1
Installed CrossMappings ─────────────── v0.3.4
Installed IterTools ─────────────────── v1.3.0
Installed Calculus ──────────────────── v0.5.1
Installed Bootstrap ─────────────────── v2.2.0
Installed Roots ─────────────────────── v0.8.3
Installed RecurrenceAnalysis ────────── v1.0.3
Installed RecipesBase ───────────────── v0.7.0
Installed DynamicalSystemsBase ──────── v1.3.1
Installed DataStructures ────────────── v0.17.6
Installed Combinatorics ─────────────── v0.7.0
Installed TreeViews ─────────────────── v0.3.0
Installed PerronFrobenius ───────────── v0.6.0
Installed ShiftedArrays ─────────────── v1.0.0
Installed IterativeSolvers ──────────── v0.8.1
Installed Distributions ─────────────── v0.21.9
Installed FixedPointNumbers ─────────── v0.6.1
Installed DiffRules ─────────────────── v0.1.0
Installed FillArrays ────────────────── v0.8.2
Installed DiffEqDiffTools ───────────── v1.5.0
Installed Parsers ───────────────────── v0.3.10
Installed RecursiveFactorization ────── v0.1.0
Installed JSON ──────────────────────── v0.21.0
Installed TransferEntropy ───────────── v0.4.3
Installed FFMPEG ────────────────────── v0.2.3
Installed StatsModels ───────────────── v0.6.7
Installed RecursiveArrayTools ───────── v1.2.0
Installed DSP ───────────────────────── v0.5.2
Installed LaTeXStrings ──────────────── v1.0.3
Installed ArrayInterface ────────────── v2.0.0
Installed Ratios ────────────────────── v0.3.1
Installed DiffResults ───────────────── v0.0.4
Installed FastRounding ──────────────── v0.2.0
Installed MuladdMacro ───────────────── v0.2.1
Installed NaNMath ───────────────────── v0.3.3
Installed StaticArrays ──────────────── v0.11.1
Installed IteratorInterfaceExtensions ─ v1.0.0
Installed Parameters ────────────────── v0.12.0
Installed DocumenterTools ───────────── v0.1.3
Installed Documenter ────────────────── v0.24.2
Installed Interpolations ────────────── v0.12.5
Installed FFTW ──────────────────────── v1.0.1
Installed GeometryTypes ─────────────── v0.7.6
Installed QuadGK ────────────────────── v2.1.1
Installed CategoricalArrays ─────────── v0.7.3
Installed PlotUtils ─────────────────── v0.6.1
Installed WoodburyMatrices ──────────── v0.4.1
Installed SortingAlgorithms ─────────── v0.3.1
Installed ChaosTools ────────────────── v1.6.1
Installed Unitful ───────────────────── v0.17.0
Installed DynamicalSystems ──────────── v1.3.0
Installed VersionParsing ────────────── v1.1.3
Installed ColorTypes ────────────────── v0.8.0
Installed MacroTools ────────────────── v0.5.2
Installed Distances ─────────────────── v0.8.2
Installed PositiveFactorizations ────── v0.2.3
Installed SpecialFunctions ──────────── v0.8.0
Installed BinDeps ───────────────────── v0.8.10
Installed Optim ─────────────────────── v0.19.5
Installed StateSpaceReconstruction ──── v0.4.2
Installed PlotThemes ────────────────── v1.0.0
Installed TimeseriesSurrogates ──────── v0.4.1
Installed GR ────────────────────────── v0.44.0
Installed Arpack ────────────────────── v0.3.1
Installed CRlibm ────────────────────── v0.7.1
Updating `~/.julia/environments/v1.2/Project.toml`
[5520caf5] + CausalityTools v0.7.0
Updating `~/.julia/environments/v1.2/Manifest.toml`
[621f4979] + AbstractFFTs v0.4.1
[7d9fca2a] + Arpack v0.3.1
[4fba245c] + ArrayInterface v2.0.0
[13072b0f] + AxisAlgorithms v1.0.0
[9e28174c] + BinDeps v0.8.10
[b99e7846] + BinaryProvider v0.5.8
[e28b5b4c] + Bootstrap v2.2.0
[96374032] + CRlibm v0.7.1
[49dc2e85] + Calculus v0.5.1
[324d7699] + CategoricalArrays v0.7.3
[5520caf5] + CausalityTools v0.7.0
[b1f25513] + CausalityToolsBase v0.7.0
[608a59af] + ChaosTools v1.6.1
[3da002f7] + ColorTypes v0.8.0
[5ae59095] + Colors v0.9.6
[861a8166] + Combinatorics v0.7.0
[bbf7d656] + CommonSubexpressions v0.2.0
[34da2185] + Compat v2.2.0
[8f4d0f93] + Conda v1.3.0
[d38c429a] + Contour v0.5.1
[7011085d] + CrossMappings v0.3.4
[717857b8] + DSP v0.5.2
[9a962f9c] + DataAPI v1.1.0
[a93c6f00] + DataFrames v0.19.4
[864edb3b] + DataStructures v0.17.6
[e2d170a0] + DataValueInterfaces v1.0.0
[5732040d] + DelayEmbeddings v1.2.0
[2b5f629d] + DiffEqBase v6.7.0
[01453d9d] + DiffEqDiffTools v1.5.0
[163ba53b] + DiffResults v0.0.4
[b552c78f] + DiffRules v0.1.0
[b4f34e82] + Distances v0.8.2
[31c24e10] + Distributions v0.21.9
[ffbed154] + DocStringExtensions v0.8.1
[e30172f5] + Documenter v0.24.2
[35a29f4d] + DocumenterTools v0.1.3
[61744808] + DynamicalSystems v1.3.0
[6e36e845] + DynamicalSystemsBase v1.3.1
[90fa49ef] + ErrorfreeArithmetic v0.4.0
[c87230d0] + FFMPEG v0.2.3
[7a1cc6ca] + FFTW v1.0.1
[fa42c844] + FastRounding v0.2.0
[1a297f60] + FillArrays v0.8.2
[53c48c17] + FixedPointNumbers v0.6.1
[f6369f11] + ForwardDiff v0.10.7
[069b7b12] + FunctionWrappers v1.0.0
[28b8d3ca] + GR v0.44.0
[4d00f742] + GeometryTypes v0.7.6
[09f84164] + HypothesisTests v0.8.0
[505f98c9] + InplaceOps v0.3.0
[a98d9a8b] + Interpolations v0.12.5
[d1acc4aa] + IntervalArithmetic v0.16.1
[41ab1584] + InvertedIndices v1.0.0
[c8e1da08] + IterTools v1.3.0
[42fd0dbc] + IterativeSolvers v0.8.1
[82899510] + IteratorInterfaceExtensions v1.0.0
[682c06a0] + JSON v0.21.0
[5ab0869b] + KernelDensity v0.5.1
[b964fa9f] + LaTeXStrings v1.0.3
[d3d80556] + LineSearches v7.0.1
[1914dd2f] + MacroTools v0.5.2
[eff96d63] + Measurements v2.1.1
[442fdcdd] + Measures v0.3.0
[e1d29d7a] + Missings v0.4.3
[46d2c3a1] + MuladdMacro v0.2.1
[d41bc354] + NLSolversBase v7.5.0
[77ba4419] + NaNMath v0.3.3
[b8a86587] + NearestNeighbors v0.4.4
[6fe1bfb0] + OffsetArrays v0.11.2
[429524aa] + Optim v0.19.5
[bac558e1] + OrderedCollections v1.1.0
[90014a1f] + PDMats v0.9.10
[d96e819e] + Parameters v0.12.0
[69de0a69] + Parsers v0.3.10
[260eed61] + PerronFrobenius v0.6.0
[ccf2f8ad] + PlotThemes v1.0.0
[995b91a9] + PlotUtils v0.6.1
[91a5bcdd] + Plots v0.28.2
[f27b6e38] + Polynomials v0.6.0
[2dfb63ee] + PooledArrays v0.5.2
[85a6dd25] + PositiveFactorizations v0.2.3
[438e738f] + PyCall v1.91.2
[1fd47b50] + QuadGK v2.1.1
[c84ed2f1] + Ratios v0.3.1
[3cdcf5f2] + RecipesBase v0.7.0
[639c3291] + RecurrenceAnalysis v1.0.3
[731186ca] + RecursiveArrayTools v1.2.0
[f2c3362d] + RecursiveFactorization v0.1.0
[189a3867] + Reexport v0.2.0
[ae029012] + Requires v0.5.2
[79098fc4] + Rmath v0.5.1
[f2b01f46] + Roots v0.8.3
[322a6be2] + Sass v0.1.0
[3cc68bcd] + SetRounding v0.2.0
[1277b4bf] + ShiftedArrays v1.0.0
[992d4aef] + Showoff v0.3.1
[05bca326] + SimpleDiffEq v0.5.0
[d5428e67] + Simplices v0.4.1
[a2af1166] + SortingAlgorithms v0.3.1
[276daf66] + SpecialFunctions v0.8.0
[1441a9f6] + StateSpaceReconstruction v0.4.2
[90137ffa] + StaticArrays v0.11.1
[2913bbd2] + StatsBase v0.32.0
[4c63d2b9] + StatsFuns v0.9.0
[3eaba693] + StatsModels v0.6.7
[3783bdb8] + TableTraits v1.0.0
[bd369af6] + Tables v0.2.11
[c804724b] + TimeseriesSurrogates v0.4.1
[ea221983] + TransferEntropy v0.4.3
[a2a6695c] + TreeViews v0.3.0
[30578b45] + URIParser v0.4.0
[dcd9ba68] + UncertainData v0.9.3
[b8865327] + UnicodePlots v1.1.0
[1986cc42] + Unitful v0.17.0
[81def892] + VersionParsing v1.1.3
[29a6e085] + Wavelets v0.8.0
[efce3f68] + WoodburyMatrices v0.4.1
[2a0f44e3] + Base64
[ade2ca70] + Dates
[8bb1440f] + DelimitedFiles
[8ba89e20] + Distributed
[7b1f6079] + FileWatching
[9fa8497b] + Future
[b77e0a4c] + InteractiveUtils
[76f85450] + LibGit2
[8f399da3] + Libdl
[37e2e46d] + LinearAlgebra
[56ddb016] + Logging
[d6f4376e] + Markdown
[a63ad114] + Mmap
[44cfe95a] + Pkg
[de0858da] + Printf
[3fa0cd96] + REPL
[9a3f8284] + Random
[ea8e919c] + SHA
[9e88b42a] + Serialization
[1a1011a3] + SharedArrays
[6462fe0b] + Sockets
[2f01184e] + SparseArrays
[10745b16] + Statistics
[4607b0f0] + SuiteSparse
[8dfed614] + Test
[cf7118a7] + UUIDs
[4ec0a83e] + Unicode
Building SpecialFunctions → `~/.julia/packages/SpecialFunctions/ne2iw/deps/build.log`
Building Arpack ──────────→ `~/.julia/packages/Arpack/cu5By/deps/build.log`
Building Rmath ───────────→ `~/.julia/packages/Rmath/4wt82/deps/build.log`
Building Conda ───────────→ `~/.julia/packages/Conda/kLXeC/deps/build.log`
Building PyCall ──────────→ `~/.julia/packages/PyCall/ttONZ/deps/build.log`
Building CRlibm ──────────→ `~/.julia/packages/CRlibm/2S9DB/deps/build.log`
Building FFTW ────────────→ `~/.julia/packages/FFTW/MJ7kl/deps/build.log`
Building Sass ────────────→ `~/.julia/packages/Sass/EZMlY/deps/build.log`
Building GR ──────────────→ `~/.julia/packages/GR/oiZD3/deps/build.log`
Building FFMPEG ──────────→ `~/.julia/packages/FFMPEG/bkWgb/deps/build.log`
Building Plots ───────────→ `~/.julia/packages/Plots/2KhB2/deps/build.log`
Building CausalityTools ──→ `~/.julia/packages/CausalityTools/QdNB8/deps/build.log`
Testing CausalityTools
Resolving package versions...
Status `/tmp/jl_Agrd9w/Manifest.toml`
[621f4979] AbstractFFTs v0.4.1
[7d9fca2a] Arpack v0.3.1
[4fba245c] ArrayInterface v2.0.0
[13072b0f] AxisAlgorithms v1.0.0
[9e28174c] BinDeps v0.8.10
[b99e7846] BinaryProvider v0.5.8
[e28b5b4c] Bootstrap v2.2.0
[96374032] CRlibm v0.7.1
[49dc2e85] Calculus v0.5.1
[324d7699] CategoricalArrays v0.7.3
[5520caf5] CausalityTools v0.7.0
[b1f25513] CausalityToolsBase v0.7.0
[608a59af] ChaosTools v1.6.1
[3da002f7] ColorTypes v0.8.0
[5ae59095] Colors v0.9.6
[861a8166] Combinatorics v0.7.0
[bbf7d656] CommonSubexpressions v0.2.0
[34da2185] Compat v2.2.0
[8f4d0f93] Conda v1.3.0
[d38c429a] Contour v0.5.1
[7011085d] CrossMappings v0.3.4
[717857b8] DSP v0.5.2
[9a962f9c] DataAPI v1.1.0
[a93c6f00] DataFrames v0.19.4
[864edb3b] DataStructures v0.17.6
[e2d170a0] DataValueInterfaces v1.0.0
[5732040d] DelayEmbeddings v1.2.0
[2b5f629d] DiffEqBase v6.7.0
[01453d9d] DiffEqDiffTools v1.5.0
[163ba53b] DiffResults v0.0.4
[b552c78f] DiffRules v0.1.0
[b4f34e82] Distances v0.8.2
[31c24e10] Distributions v0.21.9
[ffbed154] DocStringExtensions v0.8.1
[e30172f5] Documenter v0.24.2
[35a29f4d] DocumenterTools v0.1.3
[61744808] DynamicalSystems v1.3.0
[6e36e845] DynamicalSystemsBase v1.3.1
[90fa49ef] ErrorfreeArithmetic v0.4.0
[c87230d0] FFMPEG v0.2.3
[7a1cc6ca] FFTW v1.0.1
[fa42c844] FastRounding v0.2.0
[1a297f60] FillArrays v0.8.2
[53c48c17] FixedPointNumbers v0.6.1
[f6369f11] ForwardDiff v0.10.7
[069b7b12] FunctionWrappers v1.0.0
[28b8d3ca] GR v0.44.0
[4d00f742] GeometryTypes v0.7.6
[09f84164] HypothesisTests v0.8.0
[505f98c9] InplaceOps v0.3.0
[a98d9a8b] Interpolations v0.12.5
[d1acc4aa] IntervalArithmetic v0.16.1
[41ab1584] InvertedIndices v1.0.0
[c8e1da08] IterTools v1.3.0
[42fd0dbc] IterativeSolvers v0.8.1
[82899510] IteratorInterfaceExtensions v1.0.0
[682c06a0] JSON v0.21.0
[5ab0869b] KernelDensity v0.5.1
[b964fa9f] LaTeXStrings v1.0.3
[d3d80556] LineSearches v7.0.1
[1914dd2f] MacroTools v0.5.2
[eff96d63] Measurements v2.1.1
[442fdcdd] Measures v0.3.0
[e1d29d7a] Missings v0.4.3
[46d2c3a1] MuladdMacro v0.2.1
[d41bc354] NLSolversBase v7.5.0
[77ba4419] NaNMath v0.3.3
[b8a86587] NearestNeighbors v0.4.4
[6fe1bfb0] OffsetArrays v0.11.2
[429524aa] Optim v0.19.5
[bac558e1] OrderedCollections v1.1.0
[90014a1f] PDMats v0.9.10
[d96e819e] Parameters v0.12.0
[69de0a69] Parsers v0.3.10
[260eed61] PerronFrobenius v0.6.0
[ccf2f8ad] PlotThemes v1.0.0
[995b91a9] PlotUtils v0.6.1
[91a5bcdd] Plots v0.28.2
[f27b6e38] Polynomials v0.6.0
[2dfb63ee] PooledArrays v0.5.2
[85a6dd25] PositiveFactorizations v0.2.3
[438e738f] PyCall v1.91.2
[1fd47b50] QuadGK v2.1.1
[c84ed2f1] Ratios v0.3.1
[3cdcf5f2] RecipesBase v0.7.0
[639c3291] RecurrenceAnalysis v1.0.3
[731186ca] RecursiveArrayTools v1.2.0
[f2c3362d] RecursiveFactorization v0.1.0
[189a3867] Reexport v0.2.0
[ae029012] Requires v0.5.2
[79098fc4] Rmath v0.5.1
[f2b01f46] Roots v0.8.3
[322a6be2] Sass v0.1.0
[3cc68bcd] SetRounding v0.2.0
[1277b4bf] ShiftedArrays v1.0.0
[992d4aef] Showoff v0.3.1
[05bca326] SimpleDiffEq v0.5.0
[d5428e67] Simplices v0.4.1
[a2af1166] SortingAlgorithms v0.3.1
[276daf66] SpecialFunctions v0.8.0
[1441a9f6] StateSpaceReconstruction v0.4.2
[90137ffa] StaticArrays v0.11.1
[2913bbd2] StatsBase v0.32.0
[4c63d2b9] StatsFuns v0.9.0
[3eaba693] StatsModels v0.6.7
[3783bdb8] TableTraits v1.0.0
[bd369af6] Tables v0.2.11
[c804724b] TimeseriesSurrogates v0.4.1
[ea221983] TransferEntropy v0.4.3
[a2a6695c] TreeViews v0.3.0
[30578b45] URIParser v0.4.0
[dcd9ba68] UncertainData v0.9.3
[b8865327] UnicodePlots v1.1.0
[1986cc42] Unitful v0.17.0
[81def892] VersionParsing v1.1.3
[29a6e085] Wavelets v0.8.0
[efce3f68] WoodburyMatrices v0.4.1
[2a0f44e3] Base64 [`@stdlib/Base64`]
[ade2ca70] Dates [`@stdlib/Dates`]
[8bb1440f] DelimitedFiles [`@stdlib/DelimitedFiles`]
[8ba89e20] Distributed [`@stdlib/Distributed`]
[7b1f6079] FileWatching [`@stdlib/FileWatching`]
[9fa8497b] Future [`@stdlib/Future`]
[b77e0a4c] InteractiveUtils [`@stdlib/InteractiveUtils`]
[76f85450] LibGit2 [`@stdlib/LibGit2`]
[8f399da3] Libdl [`@stdlib/Libdl`]
[37e2e46d] LinearAlgebra [`@stdlib/LinearAlgebra`]
[56ddb016] Logging [`@stdlib/Logging`]
[d6f4376e] Markdown [`@stdlib/Markdown`]
[a63ad114] Mmap [`@stdlib/Mmap`]
[44cfe95a] Pkg [`@stdlib/Pkg`]
[de0858da] Printf [`@stdlib/Printf`]
[3fa0cd96] REPL [`@stdlib/REPL`]
[9a3f8284] Random [`@stdlib/Random`]
[ea8e919c] SHA [`@stdlib/SHA`]
[9e88b42a] Serialization [`@stdlib/Serialization`]
[1a1011a3] SharedArrays [`@stdlib/SharedArrays`]
[6462fe0b] Sockets [`@stdlib/Sockets`]
[2f01184e] SparseArrays [`@stdlib/SparseArrays`]
[10745b16] Statistics [`@stdlib/Statistics`]
[4607b0f0] SuiteSparse [`@stdlib/SuiteSparse`]
[8dfed614] Test [`@stdlib/Test`]
[cf7118a7] UUIDs [`@stdlib/UUIDs`]
[4ec0a83e] Unicode [`@stdlib/Unicode`]
Building Conda ─→ `~/.julia/packages/Conda/kLXeC/deps/build.log`
Resolving package versions...
Building PyCall → `~/.julia/packages/PyCall/ttONZ/deps/build.log`
Resolving package versions...
[ Info: Running `conda install -q -y scipy` in root environment
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /root/.julia/conda/3
added / updated specs:
- scipy
The following packages will be downloaded:
package | build
---------------------------|-----------------
scipy-1.3.1 | py37h7c811a0_0 14.0 MB
------------------------------------------------------------
Total: 14.0 MB
The following NEW packages will be INSTALLED:
scipy pkgs/main/linux-64::scipy-1.3.1-py37h7c811a0_0
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Update message: DynamicalSystems v1.3
A method that estimates the predictability properties of a
dynamical system has been implemented, following the work of:
Wernecke, H., Sándor, B. & Gros, C.
*How to test for partially predictable chaos*.
See the function `predictability`.
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: using DelayEmbeddings.AbstractEmbedding in module PerronFrobenius conflicts with an existing identifier.
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
Update message: UncertainData v0.8.0
----------------
New features
----------------
- Added binned resampling methods that uses `BinnedResampling` and
`BinnedMeanResampling` schemes.
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
Update message: CausalityTools v0.7.0
----------------
BREAKING CHANGES!
----------------
- The `ν` keyword for the `ConvergentCrossMappingTest` and `CrossMappingTest` has changed to
`η`, to conform with the convention for the transfer entropy tests.
There are also some breaking changes to the transfer operator and invariant measure
estimators in this release. Other new features:
- Common interface for causality testing with the `causality` function and its methods.
- Integration with UncertainData.jl. `causality` accepts uncertain datasets as inputs.
- Integration with DynamicalSystems.jl. `causality` accepts dynamical systems as inputs.
Check the online documentation for more information!
SYNTAX CHANGES
--------------
Valid inputs
------------
The inputs to the following listed functions should be either a `Dataset` instance,
a `CustomReconstruction` instance, or a vector of `Vector`, `SVector` or `MVector`.
Invariant measures:
- `invariantmeasure(pts, RectangularBinning(ϵ)` where `ϵ` indicates the type of binning.
- `invariantmeasure(pts, RectangularBinning(ϵ)` where `ϵ` indicates the type of binning.
Transfer operators:
- `transferoperator(pts, RectangularBinning(ϵ)` for transfer operators over rectangular
binnings.
- `transferoperator(pts, TriangulationBinning(), ExactIntersection())` for transfer
operators over a triangulation of `pts` using exact simplex intersections to compute
transition probabilities.
- `transferoperator(pts, TriangulationBinning(), ApproxIntersection())` for transfer
operators over a triangulation of `pts` using approximate simplex intersections to compute
transition probabilities.
Test Summary: | Pass Total
Discrete example systems | 26 26
Test Summary: | Pass Total
Continuous example systems | 18 18
Test Summary: | Pass Total
High level wrappers | 11 11
Test Summary: | Pass Total
Causality tests on scalar time series | 25 25
Test Summary: | Pass Total
DynamicalSystems.jl integration | 12 12
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
Test Summary: | Pass Total
UncertainData.jl integration | 237 237
Testing CausalityTools tests passed
Results with Julia v1.3.0
Testing was successful .
Last evaluation was ago and took 25 minutes, 31 seconds.
Click here to download the log file.
Click here to show the log contents.
Resolving package versions...
Installed PlotThemes ────────────────── v1.0.0
Installed Ratios ────────────────────── v0.3.1
Installed KernelDensity ─────────────── v0.5.1
Installed URIParser ─────────────────── v0.4.0
Installed DocumenterTools ───────────── v0.1.3
Installed Arpack ────────────────────── v0.3.1
Installed CausalityTools ────────────── v0.7.0
Installed UncertainData ─────────────── v0.9.3
Installed SortingAlgorithms ─────────── v0.3.1
Installed DiffResults ───────────────── v0.0.4
Installed FastRounding ──────────────── v0.2.0
Installed DataStructures ────────────── v0.17.6
Installed AxisAlgorithms ────────────── v1.0.0
Installed Unitful ───────────────────── v0.17.0
Installed StaticArrays ──────────────── v0.11.1
Installed Wavelets ──────────────────── v0.8.0
Installed LineSearches ──────────────── v7.0.1
Installed QuadGK ────────────────────── v2.1.1
Installed DocStringExtensions ───────── v0.8.1
Installed Roots ─────────────────────── v0.8.3
Installed Compat ────────────────────── v2.2.0
Installed FFTW ──────────────────────── v1.0.1
Installed CategoricalArrays ─────────── v0.7.3
Installed StatsFuns ─────────────────── v0.9.0
Installed FunctionWrappers ──────────── v1.0.0
Installed Parsers ───────────────────── v0.3.10
Installed BinaryProvider ────────────── v0.5.8
Installed InvertedIndices ───────────── v1.0.0
Installed NLSolversBase ─────────────── v7.5.0
Installed Simplices ─────────────────── v0.4.1
Installed HypothesisTests ───────────── v0.8.0
Installed IterTools ─────────────────── v1.3.0
Installed NearestNeighbors ──────────── v0.4.4
Installed Combinatorics ─────────────── v0.7.0
Installed Missings ──────────────────── v0.4.3
Installed MacroTools ────────────────── v0.5.2
Installed Rmath ─────────────────────── v0.5.1
Installed TreeViews ─────────────────── v0.3.0
Installed Distributions ─────────────── v0.21.9
Installed DSP ───────────────────────── v0.5.2
Installed TableTraits ───────────────── v1.0.0
Installed Parameters ────────────────── v0.12.0
Installed PositiveFactorizations ────── v0.2.3
Installed PyCall ────────────────────── v1.91.2
Installed OrderedCollections ────────── v1.1.0
Installed CRlibm ────────────────────── v0.7.1
Installed FixedPointNumbers ─────────── v0.6.1
Installed Plots ─────────────────────── v0.28.2
Installed SpecialFunctions ──────────── v0.8.0
Installed DynamicalSystemsBase ──────── v1.3.1
Installed Showoff ───────────────────── v0.3.1
Installed TransferEntropy ───────────── v0.4.3
Installed Measurements ──────────────── v2.1.1
Installed DelayEmbeddings ───────────── v1.2.0
Installed PlotUtils ─────────────────── v0.6.1
Installed CausalityToolsBase ────────── v0.7.0
Installed JSON ──────────────────────── v0.21.0
Installed RecurrenceAnalysis ────────── v1.0.3
Installed BinDeps ───────────────────── v0.8.10
Installed SetRounding ───────────────── v0.2.0
Installed ColorTypes ────────────────── v0.8.0
Installed InplaceOps ────────────────── v0.3.0
Installed Interpolations ────────────── v0.12.5
Installed CommonSubexpressions ──────── v0.2.0
Installed RecipesBase ───────────────── v0.7.0
Installed Distances ─────────────────── v0.8.2
Installed Tables ────────────────────── v0.2.11
Installed DataAPI ───────────────────── v1.1.0
Installed ShiftedArrays ─────────────── v1.0.0
Installed Bootstrap ─────────────────── v2.2.0
Installed Polynomials ───────────────── v0.6.0
Installed IntervalArithmetic ────────── v0.16.1
Installed ForwardDiff ───────────────── v0.10.7
Installed NaNMath ───────────────────── v0.3.3
Installed PerronFrobenius ───────────── v0.6.0
Installed DataValueInterfaces ───────── v1.0.0
Installed ErrorfreeArithmetic ───────── v0.4.0
Installed Optim ─────────────────────── v0.19.5
Installed TimeseriesSurrogates ──────── v0.4.1
Installed SimpleDiffEq ──────────────── v0.5.0
Installed StatsModels ───────────────── v0.6.7
Installed Documenter ────────────────── v0.24.2
Installed DiffRules ─────────────────── v0.1.0
Installed LaTeXStrings ──────────────── v1.0.3
Installed Colors ────────────────────── v0.9.6
Installed DiffEqDiffTools ───────────── v1.5.0
Installed UnicodePlots ──────────────── v1.1.0
Installed ArrayInterface ────────────── v2.0.0
Installed Calculus ──────────────────── v0.5.1
Installed ChaosTools ────────────────── v1.6.1
Installed Conda ─────────────────────── v1.3.0
Installed Requires ──────────────────── v0.5.2
Installed DiffEqBase ────────────────── v6.7.0
Installed Measures ──────────────────── v0.3.0
Installed VersionParsing ────────────── v1.1.3
Installed CrossMappings ─────────────── v0.3.4
Installed Sass ──────────────────────── v0.1.0
Installed MuladdMacro ───────────────── v0.2.1
Installed GR ────────────────────────── v0.44.0
Installed IteratorInterfaceExtensions ─ v1.0.0
Installed GeometryTypes ─────────────── v0.7.6
Installed Contour ───────────────────── v0.5.1
Installed RecursiveArrayTools ───────── v1.2.0
Installed PooledArrays ──────────────── v0.5.2
Installed Reexport ──────────────────── v0.2.0
Installed OffsetArrays ──────────────── v0.11.2
Installed RecursiveFactorization ────── v0.1.0
Installed PDMats ────────────────────── v0.9.10
Installed FFMPEG ────────────────────── v0.2.3
Installed DataFrames ────────────────── v0.19.4
Installed FillArrays ────────────────── v0.8.2
Installed StatsBase ─────────────────── v0.32.0
Installed WoodburyMatrices ──────────── v0.4.1
Installed IterativeSolvers ──────────── v0.8.1
Installed DynamicalSystems ──────────── v1.3.0
Installed AbstractFFTs ──────────────── v0.4.1
Installed StateSpaceReconstruction ──── v0.4.2
Updating `~/.julia/environments/v1.3/Project.toml`
[5520caf5] + CausalityTools v0.7.0
Updating `~/.julia/environments/v1.3/Manifest.toml`
[621f4979] + AbstractFFTs v0.4.1
[7d9fca2a] + Arpack v0.3.1
[4fba245c] + ArrayInterface v2.0.0
[13072b0f] + AxisAlgorithms v1.0.0
[9e28174c] + BinDeps v0.8.10
[b99e7846] + BinaryProvider v0.5.8
[e28b5b4c] + Bootstrap v2.2.0
[96374032] + CRlibm v0.7.1
[49dc2e85] + Calculus v0.5.1
[324d7699] + CategoricalArrays v0.7.3
[5520caf5] + CausalityTools v0.7.0
[b1f25513] + CausalityToolsBase v0.7.0
[608a59af] + ChaosTools v1.6.1
[3da002f7] + ColorTypes v0.8.0
[5ae59095] + Colors v0.9.6
[861a8166] + Combinatorics v0.7.0
[bbf7d656] + CommonSubexpressions v0.2.0
[34da2185] + Compat v2.2.0
[8f4d0f93] + Conda v1.3.0
[d38c429a] + Contour v0.5.1
[7011085d] + CrossMappings v0.3.4
[717857b8] + DSP v0.5.2
[9a962f9c] + DataAPI v1.1.0
[a93c6f00] + DataFrames v0.19.4
[864edb3b] + DataStructures v0.17.6
[e2d170a0] + DataValueInterfaces v1.0.0
[5732040d] + DelayEmbeddings v1.2.0
[2b5f629d] + DiffEqBase v6.7.0
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[163ba53b] + DiffResults v0.0.4
[b552c78f] + DiffRules v0.1.0
[b4f34e82] + Distances v0.8.2
[31c24e10] + Distributions v0.21.9
[ffbed154] + DocStringExtensions v0.8.1
[e30172f5] + Documenter v0.24.2
[35a29f4d] + DocumenterTools v0.1.3
[61744808] + DynamicalSystems v1.3.0
[6e36e845] + DynamicalSystemsBase v1.3.1
[90fa49ef] + ErrorfreeArithmetic v0.4.0
[c87230d0] + FFMPEG v0.2.3
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[fa42c844] + FastRounding v0.2.0
[1a297f60] + FillArrays v0.8.2
[53c48c17] + FixedPointNumbers v0.6.1
[f6369f11] + ForwardDiff v0.10.7
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[eff96d63] + Measurements v2.1.1
[442fdcdd] + Measures v0.3.0
[e1d29d7a] + Missings v0.4.3
[46d2c3a1] + MuladdMacro v0.2.1
[d41bc354] + NLSolversBase v7.5.0
[77ba4419] + NaNMath v0.3.3
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[429524aa] + Optim v0.19.5
[bac558e1] + OrderedCollections v1.1.0
[90014a1f] + PDMats v0.9.10
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[69de0a69] + Parsers v0.3.10
[260eed61] + PerronFrobenius v0.6.0
[ccf2f8ad] + PlotThemes v1.0.0
[995b91a9] + PlotUtils v0.6.1
[91a5bcdd] + Plots v0.28.2
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[2dfb63ee] + PooledArrays v0.5.2
[85a6dd25] + PositiveFactorizations v0.2.3
[438e738f] + PyCall v1.91.2
[1fd47b50] + QuadGK v2.1.1
[c84ed2f1] + Ratios v0.3.1
[3cdcf5f2] + RecipesBase v0.7.0
[639c3291] + RecurrenceAnalysis v1.0.3
[731186ca] + RecursiveArrayTools v1.2.0
[f2c3362d] + RecursiveFactorization v0.1.0
[189a3867] + Reexport v0.2.0
[ae029012] + Requires v0.5.2
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[05bca326] + SimpleDiffEq v0.5.0
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[a2af1166] + SortingAlgorithms v0.3.1
[276daf66] + SpecialFunctions v0.8.0
[1441a9f6] + StateSpaceReconstruction v0.4.2
[90137ffa] + StaticArrays v0.11.1
[2913bbd2] + StatsBase v0.32.0
[4c63d2b9] + StatsFuns v0.9.0
[3eaba693] + StatsModels v0.6.7
[3783bdb8] + TableTraits v1.0.0
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[c804724b] + TimeseriesSurrogates v0.4.1
[ea221983] + TransferEntropy v0.4.3
[a2a6695c] + TreeViews v0.3.0
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[2a0f44e3] + Base64
[ade2ca70] + Dates
[8bb1440f] + DelimitedFiles
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[7b1f6079] + FileWatching
[9fa8497b] + Future
[b77e0a4c] + InteractiveUtils
[76f85450] + LibGit2
[8f399da3] + Libdl
[37e2e46d] + LinearAlgebra
[56ddb016] + Logging
[d6f4376e] + Markdown
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[44cfe95a] + Pkg
[de0858da] + Printf
[3fa0cd96] + REPL
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[6462fe0b] + Sockets
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[10745b16] + Statistics
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Building SpecialFunctions → `~/.julia/packages/SpecialFunctions/ne2iw/deps/build.log`
Building Arpack ──────────→ `~/.julia/packages/Arpack/cu5By/deps/build.log`
Building Rmath ───────────→ `~/.julia/packages/Rmath/4wt82/deps/build.log`
Building Conda ───────────→ `~/.julia/packages/Conda/kLXeC/deps/build.log`
Building PyCall ──────────→ `~/.julia/packages/PyCall/ttONZ/deps/build.log`
Building CRlibm ──────────→ `~/.julia/packages/CRlibm/2S9DB/deps/build.log`
Building FFTW ────────────→ `~/.julia/packages/FFTW/MJ7kl/deps/build.log`
Building Sass ────────────→ `~/.julia/packages/Sass/EZMlY/deps/build.log`
Building GR ──────────────→ `~/.julia/packages/GR/oiZD3/deps/build.log`
Building FFMPEG ──────────→ `~/.julia/packages/FFMPEG/bkWgb/deps/build.log`
Building Plots ───────────→ `~/.julia/packages/Plots/2KhB2/deps/build.log`
Building CausalityTools ──→ `~/.julia/packages/CausalityTools/QdNB8/deps/build.log`
Testing CausalityTools
Resolving package versions...
Status `/tmp/jl_StYktp/Manifest.toml`
[621f4979] AbstractFFTs v0.4.1
[7d9fca2a] Arpack v0.3.1
[4fba245c] ArrayInterface v2.0.0
[13072b0f] AxisAlgorithms v1.0.0
[9e28174c] BinDeps v0.8.10
[b99e7846] BinaryProvider v0.5.8
[e28b5b4c] Bootstrap v2.2.0
[96374032] CRlibm v0.7.1
[49dc2e85] Calculus v0.5.1
[324d7699] CategoricalArrays v0.7.3
[5520caf5] CausalityTools v0.7.0
[b1f25513] CausalityToolsBase v0.7.0
[608a59af] ChaosTools v1.6.1
[3da002f7] ColorTypes v0.8.0
[5ae59095] Colors v0.9.6
[861a8166] Combinatorics v0.7.0
[bbf7d656] CommonSubexpressions v0.2.0
[34da2185] Compat v2.2.0
[8f4d0f93] Conda v1.3.0
[d38c429a] Contour v0.5.1
[7011085d] CrossMappings v0.3.4
[717857b8] DSP v0.5.2
[9a962f9c] DataAPI v1.1.0
[a93c6f00] DataFrames v0.19.4
[864edb3b] DataStructures v0.17.6
[e2d170a0] DataValueInterfaces v1.0.0
[5732040d] DelayEmbeddings v1.2.0
[2b5f629d] DiffEqBase v6.7.0
[01453d9d] DiffEqDiffTools v1.5.0
[163ba53b] DiffResults v0.0.4
[b552c78f] DiffRules v0.1.0
[b4f34e82] Distances v0.8.2
[31c24e10] Distributions v0.21.9
[ffbed154] DocStringExtensions v0.8.1
[e30172f5] Documenter v0.24.2
[35a29f4d] DocumenterTools v0.1.3
[61744808] DynamicalSystems v1.3.0
[6e36e845] DynamicalSystemsBase v1.3.1
[90fa49ef] ErrorfreeArithmetic v0.4.0
[c87230d0] FFMPEG v0.2.3
[7a1cc6ca] FFTW v1.0.1
[fa42c844] FastRounding v0.2.0
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[f6369f11] ForwardDiff v0.10.7
[069b7b12] FunctionWrappers v1.0.0
[28b8d3ca] GR v0.44.0
[4d00f742] GeometryTypes v0.7.6
[09f84164] HypothesisTests v0.8.0
[505f98c9] InplaceOps v0.3.0
[a98d9a8b] Interpolations v0.12.5
[d1acc4aa] IntervalArithmetic v0.16.1
[41ab1584] InvertedIndices v1.0.0
[c8e1da08] IterTools v1.3.0
[42fd0dbc] IterativeSolvers v0.8.1
[82899510] IteratorInterfaceExtensions v1.0.0
[682c06a0] JSON v0.21.0
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[b964fa9f] LaTeXStrings v1.0.3
[d3d80556] LineSearches v7.0.1
[1914dd2f] MacroTools v0.5.2
[eff96d63] Measurements v2.1.1
[442fdcdd] Measures v0.3.0
[e1d29d7a] Missings v0.4.3
[46d2c3a1] MuladdMacro v0.2.1
[d41bc354] NLSolversBase v7.5.0
[77ba4419] NaNMath v0.3.3
[b8a86587] NearestNeighbors v0.4.4
[6fe1bfb0] OffsetArrays v0.11.2
[429524aa] Optim v0.19.5
[bac558e1] OrderedCollections v1.1.0
[90014a1f] PDMats v0.9.10
[d96e819e] Parameters v0.12.0
[69de0a69] Parsers v0.3.10
[260eed61] PerronFrobenius v0.6.0
[ccf2f8ad] PlotThemes v1.0.0
[995b91a9] PlotUtils v0.6.1
[91a5bcdd] Plots v0.28.2
[f27b6e38] Polynomials v0.6.0
[2dfb63ee] PooledArrays v0.5.2
[85a6dd25] PositiveFactorizations v0.2.3
[438e738f] PyCall v1.91.2
[1fd47b50] QuadGK v2.1.1
[c84ed2f1] Ratios v0.3.1
[3cdcf5f2] RecipesBase v0.7.0
[639c3291] RecurrenceAnalysis v1.0.3
[731186ca] RecursiveArrayTools v1.2.0
[f2c3362d] RecursiveFactorization v0.1.0
[189a3867] Reexport v0.2.0
[ae029012] Requires v0.5.2
[79098fc4] Rmath v0.5.1
[f2b01f46] Roots v0.8.3
[322a6be2] Sass v0.1.0
[3cc68bcd] SetRounding v0.2.0
[1277b4bf] ShiftedArrays v1.0.0
[992d4aef] Showoff v0.3.1
[05bca326] SimpleDiffEq v0.5.0
[d5428e67] Simplices v0.4.1
[a2af1166] SortingAlgorithms v0.3.1
[276daf66] SpecialFunctions v0.8.0
[1441a9f6] StateSpaceReconstruction v0.4.2
[90137ffa] StaticArrays v0.11.1
[2913bbd2] StatsBase v0.32.0
[4c63d2b9] StatsFuns v0.9.0
[3eaba693] StatsModels v0.6.7
[3783bdb8] TableTraits v1.0.0
[bd369af6] Tables v0.2.11
[c804724b] TimeseriesSurrogates v0.4.1
[ea221983] TransferEntropy v0.4.3
[a2a6695c] TreeViews v0.3.0
[30578b45] URIParser v0.4.0
[dcd9ba68] UncertainData v0.9.3
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[1986cc42] Unitful v0.17.0
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[29a6e085] Wavelets v0.8.0
[efce3f68] WoodburyMatrices v0.4.1
[2a0f44e3] Base64 [`@stdlib/Base64`]
[ade2ca70] Dates [`@stdlib/Dates`]
[8bb1440f] DelimitedFiles [`@stdlib/DelimitedFiles`]
[8ba89e20] Distributed [`@stdlib/Distributed`]
[7b1f6079] FileWatching [`@stdlib/FileWatching`]
[9fa8497b] Future [`@stdlib/Future`]
[b77e0a4c] InteractiveUtils [`@stdlib/InteractiveUtils`]
[76f85450] LibGit2 [`@stdlib/LibGit2`]
[8f399da3] Libdl [`@stdlib/Libdl`]
[37e2e46d] LinearAlgebra [`@stdlib/LinearAlgebra`]
[56ddb016] Logging [`@stdlib/Logging`]
[d6f4376e] Markdown [`@stdlib/Markdown`]
[a63ad114] Mmap [`@stdlib/Mmap`]
[44cfe95a] Pkg [`@stdlib/Pkg`]
[de0858da] Printf [`@stdlib/Printf`]
[3fa0cd96] REPL [`@stdlib/REPL`]
[9a3f8284] Random [`@stdlib/Random`]
[ea8e919c] SHA [`@stdlib/SHA`]
[9e88b42a] Serialization [`@stdlib/Serialization`]
[1a1011a3] SharedArrays [`@stdlib/SharedArrays`]
[6462fe0b] Sockets [`@stdlib/Sockets`]
[2f01184e] SparseArrays [`@stdlib/SparseArrays`]
[10745b16] Statistics [`@stdlib/Statistics`]
[4607b0f0] SuiteSparse [`@stdlib/SuiteSparse`]
[8dfed614] Test [`@stdlib/Test`]
[cf7118a7] UUIDs [`@stdlib/UUIDs`]
[4ec0a83e] Unicode [`@stdlib/Unicode`]
Building Conda ─→ `~/.julia/packages/Conda/kLXeC/deps/build.log`
Resolving package versions...
Building PyCall → `~/.julia/packages/PyCall/ttONZ/deps/build.log`
Resolving package versions...
[ Info: Running `conda install -q -y scipy` in root environment
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /root/.julia/conda/3
added / updated specs:
- scipy
The following packages will be downloaded:
package | build
---------------------------|-----------------
scipy-1.3.1 | py37h7c811a0_0 14.0 MB
------------------------------------------------------------
Total: 14.0 MB
The following NEW packages will be INSTALLED:
scipy pkgs/main/linux-64::scipy-1.3.1-py37h7c811a0_0
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Update message: DynamicalSystems v1.3
A method that estimates the predictability properties of a
dynamical system has been implemented, following the work of:
Wernecke, H., Sándor, B. & Gros, C.
*How to test for partially predictable chaos*.
See the function `predictability`.
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: using DelayEmbeddings.AbstractEmbedding in module PerronFrobenius conflicts with an existing identifier.
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
Update message: UncertainData v0.8.0
----------------
New features
----------------
- Added binned resampling methods that uses `BinnedResampling` and
`BinnedMeanResampling` schemes.
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
Update message: CausalityTools v0.7.0
----------------
BREAKING CHANGES!
----------------
- The `ν` keyword for the `ConvergentCrossMappingTest` and `CrossMappingTest` has changed to
`η`, to conform with the convention for the transfer entropy tests.
There are also some breaking changes to the transfer operator and invariant measure
estimators in this release. Other new features:
- Common interface for causality testing with the `causality` function and its methods.
- Integration with UncertainData.jl. `causality` accepts uncertain datasets as inputs.
- Integration with DynamicalSystems.jl. `causality` accepts dynamical systems as inputs.
Check the online documentation for more information!
SYNTAX CHANGES
--------------
Valid inputs
------------
The inputs to the following listed functions should be either a `Dataset` instance,
a `CustomReconstruction` instance, or a vector of `Vector`, `SVector` or `MVector`.
Invariant measures:
- `invariantmeasure(pts, RectangularBinning(ϵ)` where `ϵ` indicates the type of binning.
- `invariantmeasure(pts, RectangularBinning(ϵ)` where `ϵ` indicates the type of binning.
Transfer operators:
- `transferoperator(pts, RectangularBinning(ϵ)` for transfer operators over rectangular
binnings.
- `transferoperator(pts, TriangulationBinning(), ExactIntersection())` for transfer
operators over a triangulation of `pts` using exact simplex intersections to compute
transition probabilities.
- `transferoperator(pts, TriangulationBinning(), ApproxIntersection())` for transfer
operators over a triangulation of `pts` using approximate simplex intersections to compute
transition probabilities.
Test Summary: | Pass Total
Discrete example systems | 26 26
Test Summary: | Pass Total
Continuous example systems | 18 18
Test Summary: | Pass Total
High level wrappers | 11 11
Test Summary: | Pass Total
Causality tests on scalar time series | 25 25
Test Summary: | Pass Total
DynamicalSystems.jl integration | 12 12
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
Test Summary: | Pass Total
UncertainData.jl integration | 237 237
Testing CausalityTools tests passed
Results with Julia v1.3.1-pre-7704df0a5a
Testing was successful .
Last evaluation was ago and took 26 minutes, 4 seconds.
Click here to download the log file.
Click here to show the log contents.
Resolving package versions...
Installed FastRounding ──────────────── v0.2.0
Installed Ratios ────────────────────── v0.3.1
Installed ColorTypes ────────────────── v0.8.0
Installed Conda ─────────────────────── v1.3.0
Installed GeometryTypes ─────────────── v0.7.6
Installed Plots ─────────────────────── v0.28.2
Installed Colors ────────────────────── v0.9.6
Installed CausalityTools ────────────── v0.7.0
Installed DataStructures ────────────── v0.17.6
Installed PyCall ────────────────────── v1.91.2
Installed QuadGK ────────────────────── v2.1.1
Installed SetRounding ───────────────── v0.2.0
Installed FunctionWrappers ──────────── v1.0.0
Installed Optim ─────────────────────── v0.19.5
Installed IterativeSolvers ──────────── v0.8.1
Installed Unitful ───────────────────── v0.17.0
Installed NaNMath ───────────────────── v0.3.3
Installed CausalityToolsBase ────────── v0.7.0
Installed SpecialFunctions ──────────── v0.8.0
Installed Tables ────────────────────── v0.2.11
Installed StatsModels ───────────────── v0.6.7
Installed DynamicalSystemsBase ──────── v1.3.1
Installed RecurrenceAnalysis ────────── v1.0.3
Installed DataFrames ────────────────── v0.19.4
Installed ErrorfreeArithmetic ───────── v0.4.0
Installed Polynomials ───────────────── v0.6.0
Installed Compat ────────────────────── v2.2.0
Installed Sass ──────────────────────── v0.1.0
Installed BinDeps ───────────────────── v0.8.10
Installed StaticArrays ──────────────── v0.11.1
Installed IterTools ─────────────────── v1.3.0
Installed Roots ─────────────────────── v0.8.3
Installed DiffResults ───────────────── v0.0.4
Installed FixedPointNumbers ─────────── v0.6.1
Installed MacroTools ────────────────── v0.5.2
Installed StatsBase ─────────────────── v0.32.0
Installed Showoff ───────────────────── v0.3.1
Installed LaTeXStrings ──────────────── v1.0.3
Installed FillArrays ────────────────── v0.8.2
Installed AxisAlgorithms ────────────── v1.0.0
Installed ForwardDiff ───────────────── v0.10.7
Installed LineSearches ──────────────── v7.0.1
Installed OffsetArrays ──────────────── v0.11.2
Installed Calculus ──────────────────── v0.5.1
Installed TransferEntropy ───────────── v0.4.3
Installed Arpack ────────────────────── v0.3.1
Installed URIParser ─────────────────── v0.4.0
Installed Missings ──────────────────── v0.4.3
Installed CrossMappings ─────────────── v0.3.4
Installed FFTW ──────────────────────── v1.0.1
Installed TableTraits ───────────────── v1.0.0
Installed ShiftedArrays ─────────────── v1.0.0
Installed PooledArrays ──────────────── v0.5.2
Installed CommonSubexpressions ──────── v0.2.0
Installed StatsFuns ─────────────────── v0.9.0
Installed BinaryProvider ────────────── v0.5.8
Installed IntervalArithmetic ────────── v0.16.1
Installed DocStringExtensions ───────── v0.8.1
Installed UncertainData ─────────────── v0.9.3
Installed MuladdMacro ───────────────── v0.2.1
Installed DocumenterTools ───────────── v0.1.3
Installed InplaceOps ────────────────── v0.3.0
Installed ChaosTools ────────────────── v1.6.1
Installed Interpolations ────────────── v0.12.5
Installed Parameters ────────────────── v0.12.0
Installed NLSolversBase ─────────────── v7.5.0
Installed Rmath ─────────────────────── v0.5.1
Installed InvertedIndices ───────────── v1.0.0
Installed FFMPEG ────────────────────── v0.2.3
Installed Measures ──────────────────── v0.3.0
Installed AbstractFFTs ──────────────── v0.4.1
Installed Bootstrap ─────────────────── v2.2.0
Installed DiffRules ─────────────────── v0.1.0
Installed Requires ──────────────────── v0.5.2
Installed ArrayInterface ────────────── v2.0.0
Installed Measurements ──────────────── v2.1.1
Installed Distances ─────────────────── v0.8.2
Installed RecursiveArrayTools ───────── v1.2.0
Installed RecursiveFactorization ────── v0.1.0
Installed HypothesisTests ───────────── v0.8.0
Installed SimpleDiffEq ──────────────── v0.5.0
Installed DataValueInterfaces ───────── v1.0.0
Installed Simplices ─────────────────── v0.4.1
Installed Combinatorics ─────────────── v0.7.0
Installed Reexport ──────────────────── v0.2.0
Installed PlotUtils ─────────────────── v0.6.1
Installed Distributions ─────────────── v0.21.9
Installed KernelDensity ─────────────── v0.5.1
Installed Contour ───────────────────── v0.5.1
Installed Wavelets ──────────────────── v0.8.0
Installed PositiveFactorizations ────── v0.2.3
Installed CategoricalArrays ─────────── v0.7.3
Installed PlotThemes ────────────────── v1.0.0
Installed RecipesBase ───────────────── v0.7.0
Installed IteratorInterfaceExtensions ─ v1.0.0
Installed DiffEqBase ────────────────── v6.7.0
Installed WoodburyMatrices ──────────── v0.4.1
Installed DataAPI ───────────────────── v1.1.0
Installed Documenter ────────────────── v0.24.2
Installed UnicodePlots ──────────────── v1.1.0
Installed JSON ──────────────────────── v0.21.0
Installed PDMats ────────────────────── v0.9.10
Installed OrderedCollections ────────── v1.1.0
Installed NearestNeighbors ──────────── v0.4.4
Installed PerronFrobenius ───────────── v0.6.0
Installed Parsers ───────────────────── v0.3.10
Installed CRlibm ────────────────────── v0.7.1
Installed GR ────────────────────────── v0.44.0
Installed VersionParsing ────────────── v1.1.3
Installed TreeViews ─────────────────── v0.3.0
Installed SortingAlgorithms ─────────── v0.3.1
Installed DiffEqDiffTools ───────────── v1.5.0
Installed DelayEmbeddings ───────────── v1.2.0
Installed StateSpaceReconstruction ──── v0.4.2
Installed DynamicalSystems ──────────── v1.3.0
Installed DSP ───────────────────────── v0.5.2
Installed TimeseriesSurrogates ──────── v0.4.1
Updating `~/.julia/environments/v1.3/Project.toml`
[5520caf5] + CausalityTools v0.7.0
Updating `~/.julia/environments/v1.3/Manifest.toml`
[621f4979] + AbstractFFTs v0.4.1
[7d9fca2a] + Arpack v0.3.1
[4fba245c] + ArrayInterface v2.0.0
[13072b0f] + AxisAlgorithms v1.0.0
[9e28174c] + BinDeps v0.8.10
[b99e7846] + BinaryProvider v0.5.8
[e28b5b4c] + Bootstrap v2.2.0
[96374032] + CRlibm v0.7.1
[49dc2e85] + Calculus v0.5.1
[324d7699] + CategoricalArrays v0.7.3
[5520caf5] + CausalityTools v0.7.0
[b1f25513] + CausalityToolsBase v0.7.0
[608a59af] + ChaosTools v1.6.1
[3da002f7] + ColorTypes v0.8.0
[5ae59095] + Colors v0.9.6
[861a8166] + Combinatorics v0.7.0
[bbf7d656] + CommonSubexpressions v0.2.0
[34da2185] + Compat v2.2.0
[8f4d0f93] + Conda v1.3.0
[d38c429a] + Contour v0.5.1
[7011085d] + CrossMappings v0.3.4
[717857b8] + DSP v0.5.2
[9a962f9c] + DataAPI v1.1.0
[a93c6f00] + DataFrames v0.19.4
[864edb3b] + DataStructures v0.17.6
[e2d170a0] + DataValueInterfaces v1.0.0
[5732040d] + DelayEmbeddings v1.2.0
[2b5f629d] + DiffEqBase v6.7.0
[01453d9d] + DiffEqDiffTools v1.5.0
[163ba53b] + DiffResults v0.0.4
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[b4f34e82] + Distances v0.8.2
[31c24e10] + Distributions v0.21.9
[ffbed154] + DocStringExtensions v0.8.1
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[35a29f4d] + DocumenterTools v0.1.3
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[6e36e845] + DynamicalSystemsBase v1.3.1
[90fa49ef] + ErrorfreeArithmetic v0.4.0
[c87230d0] + FFMPEG v0.2.3
[7a1cc6ca] + FFTW v1.0.1
[fa42c844] + FastRounding v0.2.0
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[53c48c17] + FixedPointNumbers v0.6.1
[f6369f11] + ForwardDiff v0.10.7
[069b7b12] + FunctionWrappers v1.0.0
[28b8d3ca] + GR v0.44.0
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[d1acc4aa] + IntervalArithmetic v0.16.1
[41ab1584] + InvertedIndices v1.0.0
[c8e1da08] + IterTools v1.3.0
[42fd0dbc] + IterativeSolvers v0.8.1
[82899510] + IteratorInterfaceExtensions v1.0.0
[682c06a0] + JSON v0.21.0
[5ab0869b] + KernelDensity v0.5.1
[b964fa9f] + LaTeXStrings v1.0.3
[d3d80556] + LineSearches v7.0.1
[1914dd2f] + MacroTools v0.5.2
[eff96d63] + Measurements v2.1.1
[442fdcdd] + Measures v0.3.0
[e1d29d7a] + Missings v0.4.3
[46d2c3a1] + MuladdMacro v0.2.1
[d41bc354] + NLSolversBase v7.5.0
[77ba4419] + NaNMath v0.3.3
[b8a86587] + NearestNeighbors v0.4.4
[6fe1bfb0] + OffsetArrays v0.11.2
[429524aa] + Optim v0.19.5
[bac558e1] + OrderedCollections v1.1.0
[90014a1f] + PDMats v0.9.10
[d96e819e] + Parameters v0.12.0
[69de0a69] + Parsers v0.3.10
[260eed61] + PerronFrobenius v0.6.0
[ccf2f8ad] + PlotThemes v1.0.0
[995b91a9] + PlotUtils v0.6.1
[91a5bcdd] + Plots v0.28.2
[f27b6e38] + Polynomials v0.6.0
[2dfb63ee] + PooledArrays v0.5.2
[85a6dd25] + PositiveFactorizations v0.2.3
[438e738f] + PyCall v1.91.2
[1fd47b50] + QuadGK v2.1.1
[c84ed2f1] + Ratios v0.3.1
[3cdcf5f2] + RecipesBase v0.7.0
[639c3291] + RecurrenceAnalysis v1.0.3
[731186ca] + RecursiveArrayTools v1.2.0
[f2c3362d] + RecursiveFactorization v0.1.0
[189a3867] + Reexport v0.2.0
[ae029012] + Requires v0.5.2
[79098fc4] + Rmath v0.5.1
[f2b01f46] + Roots v0.8.3
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[05bca326] + SimpleDiffEq v0.5.0
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[a2af1166] + SortingAlgorithms v0.3.1
[276daf66] + SpecialFunctions v0.8.0
[1441a9f6] + StateSpaceReconstruction v0.4.2
[90137ffa] + StaticArrays v0.11.1
[2913bbd2] + StatsBase v0.32.0
[4c63d2b9] + StatsFuns v0.9.0
[3eaba693] + StatsModels v0.6.7
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[bd369af6] + Tables v0.2.11
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[ea221983] + TransferEntropy v0.4.3
[a2a6695c] + TreeViews v0.3.0
[30578b45] + URIParser v0.4.0
[dcd9ba68] + UncertainData v0.9.3
[b8865327] + UnicodePlots v1.1.0
[1986cc42] + Unitful v0.17.0
[81def892] + VersionParsing v1.1.3
[29a6e085] + Wavelets v0.8.0
[efce3f68] + WoodburyMatrices v0.4.1
[2a0f44e3] + Base64
[ade2ca70] + Dates
[8bb1440f] + DelimitedFiles
[8ba89e20] + Distributed
[7b1f6079] + FileWatching
[9fa8497b] + Future
[b77e0a4c] + InteractiveUtils
[76f85450] + LibGit2
[8f399da3] + Libdl
[37e2e46d] + LinearAlgebra
[56ddb016] + Logging
[d6f4376e] + Markdown
[a63ad114] + Mmap
[44cfe95a] + Pkg
[de0858da] + Printf
[3fa0cd96] + REPL
[9a3f8284] + Random
[ea8e919c] + SHA
[9e88b42a] + Serialization
[1a1011a3] + SharedArrays
[6462fe0b] + Sockets
[2f01184e] + SparseArrays
[10745b16] + Statistics
[4607b0f0] + SuiteSparse
[8dfed614] + Test
[cf7118a7] + UUIDs
[4ec0a83e] + Unicode
Building SpecialFunctions → `~/.julia/packages/SpecialFunctions/ne2iw/deps/build.log`
Building Arpack ──────────→ `~/.julia/packages/Arpack/cu5By/deps/build.log`
Building Rmath ───────────→ `~/.julia/packages/Rmath/4wt82/deps/build.log`
Building Conda ───────────→ `~/.julia/packages/Conda/kLXeC/deps/build.log`
Building PyCall ──────────→ `~/.julia/packages/PyCall/ttONZ/deps/build.log`
Building CRlibm ──────────→ `~/.julia/packages/CRlibm/2S9DB/deps/build.log`
Building FFTW ────────────→ `~/.julia/packages/FFTW/MJ7kl/deps/build.log`
Building Sass ────────────→ `~/.julia/packages/Sass/EZMlY/deps/build.log`
Building GR ──────────────→ `~/.julia/packages/GR/oiZD3/deps/build.log`
Building FFMPEG ──────────→ `~/.julia/packages/FFMPEG/bkWgb/deps/build.log`
Building Plots ───────────→ `~/.julia/packages/Plots/2KhB2/deps/build.log`
Building CausalityTools ──→ `~/.julia/packages/CausalityTools/QdNB8/deps/build.log`
Testing CausalityTools
Resolving package versions...
Status `/tmp/jl_sayR97/Manifest.toml`
[621f4979] AbstractFFTs v0.4.1
[7d9fca2a] Arpack v0.3.1
[4fba245c] ArrayInterface v2.0.0
[13072b0f] AxisAlgorithms v1.0.0
[9e28174c] BinDeps v0.8.10
[b99e7846] BinaryProvider v0.5.8
[e28b5b4c] Bootstrap v2.2.0
[96374032] CRlibm v0.7.1
[49dc2e85] Calculus v0.5.1
[324d7699] CategoricalArrays v0.7.3
[5520caf5] CausalityTools v0.7.0
[b1f25513] CausalityToolsBase v0.7.0
[608a59af] ChaosTools v1.6.1
[3da002f7] ColorTypes v0.8.0
[5ae59095] Colors v0.9.6
[861a8166] Combinatorics v0.7.0
[bbf7d656] CommonSubexpressions v0.2.0
[34da2185] Compat v2.2.0
[8f4d0f93] Conda v1.3.0
[d38c429a] Contour v0.5.1
[7011085d] CrossMappings v0.3.4
[717857b8] DSP v0.5.2
[9a962f9c] DataAPI v1.1.0
[a93c6f00] DataFrames v0.19.4
[864edb3b] DataStructures v0.17.6
[e2d170a0] DataValueInterfaces v1.0.0
[5732040d] DelayEmbeddings v1.2.0
[2b5f629d] DiffEqBase v6.7.0
[01453d9d] DiffEqDiffTools v1.5.0
[163ba53b] DiffResults v0.0.4
[b552c78f] DiffRules v0.1.0
[b4f34e82] Distances v0.8.2
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[ffbed154] DocStringExtensions v0.8.1
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[61744808] DynamicalSystems v1.3.0
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[41ab1584] InvertedIndices v1.0.0
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[d96e819e] Parameters v0.12.0
[69de0a69] Parsers v0.3.10
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[438e738f] PyCall v1.91.2
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[3cdcf5f2] RecipesBase v0.7.0
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[731186ca] RecursiveArrayTools v1.2.0
[f2c3362d] RecursiveFactorization v0.1.0
[189a3867] Reexport v0.2.0
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[3cc68bcd] SetRounding v0.2.0
[1277b4bf] ShiftedArrays v1.0.0
[992d4aef] Showoff v0.3.1
[05bca326] SimpleDiffEq v0.5.0
[d5428e67] Simplices v0.4.1
[a2af1166] SortingAlgorithms v0.3.1
[276daf66] SpecialFunctions v0.8.0
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[90137ffa] StaticArrays v0.11.1
[2913bbd2] StatsBase v0.32.0
[4c63d2b9] StatsFuns v0.9.0
[3eaba693] StatsModels v0.6.7
[3783bdb8] TableTraits v1.0.0
[bd369af6] Tables v0.2.11
[c804724b] TimeseriesSurrogates v0.4.1
[ea221983] TransferEntropy v0.4.3
[a2a6695c] TreeViews v0.3.0
[30578b45] URIParser v0.4.0
[dcd9ba68] UncertainData v0.9.3
[b8865327] UnicodePlots v1.1.0
[1986cc42] Unitful v0.17.0
[81def892] VersionParsing v1.1.3
[29a6e085] Wavelets v0.8.0
[efce3f68] WoodburyMatrices v0.4.1
[2a0f44e3] Base64 [`@stdlib/Base64`]
[ade2ca70] Dates [`@stdlib/Dates`]
[8bb1440f] DelimitedFiles [`@stdlib/DelimitedFiles`]
[8ba89e20] Distributed [`@stdlib/Distributed`]
[7b1f6079] FileWatching [`@stdlib/FileWatching`]
[9fa8497b] Future [`@stdlib/Future`]
[b77e0a4c] InteractiveUtils [`@stdlib/InteractiveUtils`]
[76f85450] LibGit2 [`@stdlib/LibGit2`]
[8f399da3] Libdl [`@stdlib/Libdl`]
[37e2e46d] LinearAlgebra [`@stdlib/LinearAlgebra`]
[56ddb016] Logging [`@stdlib/Logging`]
[d6f4376e] Markdown [`@stdlib/Markdown`]
[a63ad114] Mmap [`@stdlib/Mmap`]
[44cfe95a] Pkg [`@stdlib/Pkg`]
[de0858da] Printf [`@stdlib/Printf`]
[3fa0cd96] REPL [`@stdlib/REPL`]
[9a3f8284] Random [`@stdlib/Random`]
[ea8e919c] SHA [`@stdlib/SHA`]
[9e88b42a] Serialization [`@stdlib/Serialization`]
[1a1011a3] SharedArrays [`@stdlib/SharedArrays`]
[6462fe0b] Sockets [`@stdlib/Sockets`]
[2f01184e] SparseArrays [`@stdlib/SparseArrays`]
[10745b16] Statistics [`@stdlib/Statistics`]
[4607b0f0] SuiteSparse [`@stdlib/SuiteSparse`]
[8dfed614] Test [`@stdlib/Test`]
[cf7118a7] UUIDs [`@stdlib/UUIDs`]
[4ec0a83e] Unicode [`@stdlib/Unicode`]
Building Conda ─→ `~/.julia/packages/Conda/kLXeC/deps/build.log`
Resolving package versions...
Building PyCall → `~/.julia/packages/PyCall/ttONZ/deps/build.log`
Resolving package versions...
[ Info: Running `conda install -q -y scipy` in root environment
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /root/.julia/conda/3
added / updated specs:
- scipy
The following packages will be downloaded:
package | build
---------------------------|-----------------
scipy-1.3.1 | py37h7c811a0_0 14.0 MB
------------------------------------------------------------
Total: 14.0 MB
The following NEW packages will be INSTALLED:
scipy pkgs/main/linux-64::scipy-1.3.1-py37h7c811a0_0
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Update message: DynamicalSystems v1.3
A method that estimates the predictability properties of a
dynamical system has been implemented, following the work of:
Wernecke, H., Sándor, B. & Gros, C.
*How to test for partially predictable chaos*.
See the function `predictability`.
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
WARNING: using DelayEmbeddings.AbstractEmbedding in module PerronFrobenius conflicts with an existing identifier.
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
Update message: UncertainData v0.8.0
----------------
New features
----------------
- Added binned resampling methods that uses `BinnedResampling` and
`BinnedMeanResampling` schemes.
WARNING: Method definition (::Type{PyCall.PyObject})(LinearAlgebra.Adjoint{T, S} where S where T) in module PyCall at /root/.julia/packages/PyCall/ttONZ/src/numpy.jl:227 overwritten in module Delaunay at /root/.julia/packages/Simplices/HqUrD/src/Delaunay.jl:11.
** incremental compilation may be fatally broken for this module **
Update message: CausalityTools v0.7.0
----------------
BREAKING CHANGES!
----------------
- The `ν` keyword for the `ConvergentCrossMappingTest` and `CrossMappingTest` has changed to
`η`, to conform with the convention for the transfer entropy tests.
There are also some breaking changes to the transfer operator and invariant measure
estimators in this release. Other new features:
- Common interface for causality testing with the `causality` function and its methods.
- Integration with UncertainData.jl. `causality` accepts uncertain datasets as inputs.
- Integration with DynamicalSystems.jl. `causality` accepts dynamical systems as inputs.
Check the online documentation for more information!
SYNTAX CHANGES
--------------
Valid inputs
------------
The inputs to the following listed functions should be either a `Dataset` instance,
a `CustomReconstruction` instance, or a vector of `Vector`, `SVector` or `MVector`.
Invariant measures:
- `invariantmeasure(pts, RectangularBinning(ϵ)` where `ϵ` indicates the type of binning.
- `invariantmeasure(pts, RectangularBinning(ϵ)` where `ϵ` indicates the type of binning.
Transfer operators:
- `transferoperator(pts, RectangularBinning(ϵ)` for transfer operators over rectangular
binnings.
- `transferoperator(pts, TriangulationBinning(), ExactIntersection())` for transfer
operators over a triangulation of `pts` using exact simplex intersections to compute
transition probabilities.
- `transferoperator(pts, TriangulationBinning(), ApproxIntersection())` for transfer
operators over a triangulation of `pts` using approximate simplex intersections to compute
transition probabilities.
Test Summary: | Pass Total
Discrete example systems | 26 26
Test Summary: | Pass Total
Continuous example systems | 18 18
Test Summary: | Pass Total
High level wrappers | 11 11
Test Summary: | Pass Total
Causality tests on scalar time series | 25 25
Test Summary: | Pass Total
DynamicalSystems.jl integration | 12 12
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Neither `source` nor `target` are uncertain. Not constraining them.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/validate_constraints.jl:43
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
┌ Warning: Performing causality test on uncertain index-value datasets without explicitly providing sequential sampling constraints. Results may be nonsensical, because the values are not sampled according to increasing indices.
└ @ CausalityTools.IntegrationUncertainData ~/.julia/packages/CausalityTools/QdNB8/src/integration_uncertaindata/integration_with_uncertaindata_using_schemes.jl:13
Test Summary: | Pass Total
UncertainData.jl integration | 237 237
Testing CausalityTools tests passed