Package evaluation to test BEASTDataPrep on Julia 1.14.0-DEV.1893 (b4aba01002*) started at 2026-03-15T23:44:36.190 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.14` Set-up completed after 14.11s ################################################################################ # Installation # Installing BEASTDataPrep... Resolving package versions... Updating `~/.julia/environments/v1.14/Project.toml` [7fe627e2] + BEASTDataPrep v0.2.0 Updating `~/.julia/environments/v1.14/Manifest.toml` [621f4979] + AbstractFFTs v1.5.0 [7d9f7c33] + Accessors v0.1.43 [79e6a3ab] + Adapt v4.5.0 [66dad0bd] + AliasTables v1.1.3 ⌅ [67c07d97] + Automa v0.8.4 [13072b0f] + AxisAlgorithms v1.1.0 [7fe627e2] + BEASTDataPrep v0.2.0 [6e4b80f9] + BenchmarkTools v1.6.3 [47718e42] + BioGenerics v0.1.5 [7e6ae17a] + BioSequences v3.5.1 [3c28c6f8] + BioSymbols v5.2.0 [336ed68f] + CSV v0.10.16 ⌅ [324d7699] + CategoricalArrays v0.10.9 [d360d2e6] + ChainRulesCore v1.26.0 [523fee87] + CodecBzip2 v0.8.5 [944b1d66] + CodecZlib v0.7.8 [3da002f7] + ColorTypes v0.12.1 [5ae59095] + Colors v0.13.1 [861a8166] + Combinatorics v1.1.0 [38540f10] + CommonSolve v0.2.6 [bbf7d656] + CommonSubexpressions v0.3.1 [34da2185] + Compat v4.18.1 [a81c6b42] + Compose v0.9.6 [a33af91c] + CompositionsBase v0.1.2 [187b0558] + ConstructionBase v1.6.0 [d38c429a] + Contour v0.6.3 [7ad07ef1] + CoupledFields v0.3.0 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.8.1 ⌅ [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.123 [ffbed154] + DocStringExtensions v0.9.5 ⌅ [c2308a5c] + FASTX v1.3.0 [b86e33f2] + FFTA v0.3.1 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.16.0 [53c48c17] + FixedPointNumbers v0.8.5 [f6369f11] + ForwardDiff v1.3.2 ⌃ [38e38edf] + GLM v1.8.3 [c91e804a] + Gadfly v1.4.1 [42e2da0e] + Grisu v1.0.2 [a1b4810d] + Hexagons v0.2.0 ⌅ [09f84164] + HypothesisTests v0.10.13 [9b13fd28] + IndirectArrays v1.0.0 [842dd82b] + InlineStrings v1.4.5 [18e54dd8] + IntegerMathUtils v0.1.3 [a98d9a8b] + Interpolations v0.16.2 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 ⌅ [92d709cd] + IrrationalConstants v0.1.1 [c8e1da08] + IterTools v1.10.0 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 ⌅ [682c06a0] + JSON v0.21.4 [5ab0869b] + KernelDensity v0.6.11 [b964fa9f] + LaTeXStrings v1.4.0 ⌅ [7031d0ef] + LazyGrids v0.5.0 ⌃ [4345ca2d] + Loess v0.6.4 [2ab3a3ac] + LogExpFunctions v0.3.29 [1914dd2f] + MacroTools v0.5.16 [b8f27783] + MathOptInterface v1.49.0 [fdba3010] + MathProgBase v0.7.8 [442fdcdd] + Measures v0.3.3 [e1d29d7a] + Missings v1.2.0 [46d2c3a1] + MuladdMacro v0.2.4 [d8a4904e] + MutableArithmetics v1.6.7 ⌅ [76087f3c] + NLopt v0.6.5 [77ba4419] + NaNMath v1.1.3 [6fe1bfb0] + OffsetArrays v1.17.0 [bac558e1] + OrderedCollections v1.8.1 ⌃ [90014a1f] + PDMats v0.11.35 [69de0a69] + Parsers v2.8.3 ⌅ [33ad39ac] + PhyloNetworks v0.14.3 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.2 [08abe8d2] + PrettyTables v3.2.3 [27ebfcd6] + Primes v0.5.7 [43287f4e] + PtrArrays v1.4.0 [1fd47b50] + QuadGK v2.11.2 [c84ed2f1] + Ratios v0.4.5 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 ⌅ [79098fc4] + Rmath v0.7.1 [f2b01f46] + Roots v2.2.13 [91c51154] + SentinelArrays v1.4.9 [1277b4bf] + ShiftedArrays v2.0.0 [992d4aef] + Showoff v1.0.3 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.7.1 [90137ffa] + StaticArrays v1.9.18 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.8.0 ⌅ [2913bbd2] + StatsBase v0.33.21 ⌅ [4c63d2b9] + StatsFuns v0.9.18 ⌅ [3eaba693] + StatsModels v0.6.33 [892a3eda] + StringManipulation v0.4.4 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 ⌅ [3bb67fe8] + TranscodingStreams v0.9.13 [7200193e] + Twiddle v1.1.2 [3a884ed6] + UnPack v1.0.2 [ea10d353] + WeakRefStrings v1.4.2 [efce3f68] + WoodburyMatrices v1.1.0 [76eceee3] + WorkerUtilities v1.6.1 [6e34b625] + Bzip2_jll v1.0.9+0 [079eb43e] + NLopt_jll v2.10.0+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 ⌅ [f50d1b31] + Rmath_jll v0.4.3+0 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.13.0 [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 [de0858da] + Printf v1.11.0 [9abbd945] + Profile v1.11.0 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v1.0.0 [9e88b42a] + Serialization v1.11.0 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.13.0 [f489334b] + StyledStrings v1.13.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [4536629a] + OpenBLAS_jll v0.3.30+0 [05823500] + OpenLibm_jll v0.8.7+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.2+0 [8e850b90] + libblastrampoline_jll v5.15.0+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 6.2s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompiling packages... 2154.5 ms ✓ Loess 2881.8 ms ✓ CoupledFields 2157.6 ms ✓ CodecBzip2 17613.5 ms ✓ FASTX 5895.5 ms ✓ StatsModels 1793.3 ms ✓ Roots → RootsForwardDiffExt 3175.1 ms ✓ Interpolations → InterpolationsForwardDiffExt 6228.4 ms ✓ HypothesisTests 5554.5 ms ✓ KernelDensity 83286.0 ms ✓ MathOptInterface 7648.0 ms ✓ GLM 16918.1 ms ✓ Gadfly 8257.0 ms ✓ NLopt 32571.9 ms ✓ PhyloNetworks 27265.8 ms ✓ BEASTDataPrep 15 dependencies successfully precompiled in 226 seconds. 164 already precompiled. 10 dependencies precompiled but different versions are currently loaded (Base64, Dates, JuliaSyntaxHighlighting, Logging, Markdown, Printf, StyledStrings, TOML, UUIDs and Zlib_jll). Restart julia to access the new versions. Otherwise, 95 dependents of these packages may trigger further precompilation to work with the unexpected versions. Precompilation completed after 249.22s ################################################################################ # Testing # Testing BEASTDataPrep Status `/tmp/jl_lHzeod/Project.toml` [7fe627e2] BEASTDataPrep v0.2.0 [336ed68f] CSV v0.10.16 [a93c6f00] DataFrames v1.8.1 [c91e804a] Gadfly v1.4.1 ⌅ [09f84164] HypothesisTests v0.10.13 ⌅ [33ad39ac] PhyloNetworks v0.14.3 [10745b16] Statistics v1.11.1 [3a884ed6] UnPack v1.0.2 [8dfed614] Test v1.11.0 Status `/tmp/jl_lHzeod/Manifest.toml` [621f4979] AbstractFFTs v1.5.0 [7d9f7c33] Accessors v0.1.43 [79e6a3ab] Adapt v4.5.0 [66dad0bd] AliasTables v1.1.3 ⌅ [67c07d97] Automa v0.8.4 [13072b0f] AxisAlgorithms v1.1.0 [7fe627e2] BEASTDataPrep v0.2.0 [6e4b80f9] BenchmarkTools v1.6.3 [47718e42] BioGenerics v0.1.5 [7e6ae17a] BioSequences v3.5.1 [3c28c6f8] BioSymbols v5.2.0 [336ed68f] CSV v0.10.16 ⌅ [324d7699] CategoricalArrays v0.10.9 [d360d2e6] ChainRulesCore v1.26.0 [523fee87] CodecBzip2 v0.8.5 [944b1d66] CodecZlib v0.7.8 [3da002f7] ColorTypes v0.12.1 [5ae59095] Colors v0.13.1 [861a8166] Combinatorics v1.1.0 [38540f10] CommonSolve v0.2.6 [bbf7d656] CommonSubexpressions v0.3.1 [34da2185] Compat v4.18.1 [a81c6b42] Compose v0.9.6 [a33af91c] CompositionsBase v0.1.2 [187b0558] ConstructionBase v1.6.0 [d38c429a] Contour v0.6.3 [7ad07ef1] CoupledFields v0.3.0 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.8.1 ⌅ [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.123 [ffbed154] DocStringExtensions v0.9.5 ⌅ [c2308a5c] FASTX v1.3.0 [b86e33f2] FFTA v0.3.1 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.16.0 [53c48c17] FixedPointNumbers v0.8.5 [f6369f11] ForwardDiff v1.3.2 ⌃ [38e38edf] GLM v1.8.3 [c91e804a] Gadfly v1.4.1 [42e2da0e] Grisu v1.0.2 [a1b4810d] Hexagons v0.2.0 ⌅ [09f84164] HypothesisTests v0.10.13 [9b13fd28] IndirectArrays v1.0.0 [842dd82b] InlineStrings v1.4.5 [18e54dd8] IntegerMathUtils v0.1.3 [a98d9a8b] Interpolations v0.16.2 [3587e190] InverseFunctions v0.1.17 [41ab1584] InvertedIndices v1.3.1 ⌅ [92d709cd] IrrationalConstants v0.1.1 [c8e1da08] IterTools v1.10.0 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.1 ⌅ [682c06a0] JSON v0.21.4 [5ab0869b] KernelDensity v0.6.11 [b964fa9f] LaTeXStrings v1.4.0 ⌅ [7031d0ef] LazyGrids v0.5.0 ⌃ [4345ca2d] Loess v0.6.4 [2ab3a3ac] LogExpFunctions v0.3.29 [1914dd2f] MacroTools v0.5.16 [b8f27783] MathOptInterface v1.49.0 [fdba3010] MathProgBase v0.7.8 [442fdcdd] Measures v0.3.3 [e1d29d7a] Missings v1.2.0 [46d2c3a1] MuladdMacro v0.2.4 [d8a4904e] MutableArithmetics v1.6.7 ⌅ [76087f3c] NLopt v0.6.5 [77ba4419] NaNMath v1.1.3 [6fe1bfb0] OffsetArrays v1.17.0 [bac558e1] OrderedCollections v1.8.1 ⌃ [90014a1f] PDMats v0.11.35 [69de0a69] Parsers v2.8.3 ⌅ [33ad39ac] PhyloNetworks v0.14.3 [2dfb63ee] PooledArrays v1.4.3 [aea7be01] PrecompileTools v1.3.3 [21216c6a] Preferences v1.5.2 [08abe8d2] PrettyTables v3.2.3 [27ebfcd6] Primes v0.5.7 [43287f4e] PtrArrays v1.4.0 [1fd47b50] QuadGK v2.11.2 [c84ed2f1] Ratios v0.4.5 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 ⌅ [79098fc4] Rmath v0.7.1 [f2b01f46] Roots v2.2.13 [91c51154] SentinelArrays v1.4.9 [1277b4bf] ShiftedArrays v2.0.0 [992d4aef] Showoff v1.0.3 [a2af1166] SortingAlgorithms v1.2.2 [276daf66] SpecialFunctions v2.7.1 [90137ffa] StaticArrays v1.9.18 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.8.0 ⌅ [2913bbd2] StatsBase v0.33.21 ⌅ [4c63d2b9] StatsFuns v0.9.18 ⌅ [3eaba693] StatsModels v0.6.33 [892a3eda] StringManipulation v0.4.4 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 ⌅ [3bb67fe8] TranscodingStreams v0.9.13 [7200193e] Twiddle v1.1.2 [3a884ed6] UnPack v1.0.2 [ea10d353] WeakRefStrings v1.4.2 [efce3f68] WoodburyMatrices v1.1.0 [76eceee3] WorkerUtilities v1.6.1 [6e34b625] Bzip2_jll v1.0.9+0 [079eb43e] NLopt_jll v2.10.0+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 ⌅ [f50d1b31] Rmath_jll v0.4.3+0 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [8ba89e20] Distributed v1.11.0 [7b1f6079] FileWatching v1.11.0 [9fa8497b] Future v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [ac6e5ff7] JuliaSyntaxHighlighting v1.13.0 [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 [de0858da] Printf v1.11.0 [9abbd945] Profile v1.11.0 [3fa0cd96] REPL v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v1.0.0 [9e88b42a] Serialization v1.11.0 [1a1011a3] SharedArrays v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.13.0 [f489334b] StyledStrings v1.13.0 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.3.0+1 [4536629a] OpenBLAS_jll v0.3.30+0 [05823500] OpenLibm_jll v0.8.7+0 [bea87d4a] SuiteSparse_jll v7.10.1+0 [83775a58] Zlib_jll v1.3.2+0 [8e850b90] libblastrampoline_jll v5.15.0+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... Test Summary: | Total Time BEASTDataPrep.jl | 0 0.8s Testing BEASTDataPrep tests passed Testing completed after 35.56s PkgEval succeeded after 319.9s