Package evaluation to test PhyNEST on Julia 1.14.0-DEV.81 (f5f4c0174e*) started at 2025-11-15T17:15:15.226 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.59s ################################################################################ # Installation # Installing PhyNEST... Resolving package versions... Installed HarfBuzz_jll ──────────────── v8.5.1+0 Installed Bzip2_jll ─────────────────── v1.0.9+0 Installed Cairo_jll ─────────────────── v1.18.5+0 Installed Libtiff_jll ───────────────── v4.7.2+0 Installed Libuuid_jll ───────────────── v2.41.2+0 Installed InlineStrings ─────────────── v1.4.5 Installed Xorg_libXinerama_jll ──────── v1.1.6+0 Installed Functors ──────────────────── v0.3.0 Installed OrderedCollections ────────── v1.8.1 Installed Graphite2_jll ─────────────── v1.3.15+0 Installed Optim ─────────────────────── v1.13.2 Installed SentinelArrays ────────────── v1.4.8 Installed Fontconfig_jll ────────────── v2.17.1+0 Installed Wayland_protocols_jll ─────── v1.44.0+0 Installed FileIO ────────────────────── v1.17.1 Installed OpenSpecFun_jll ───────────── v0.5.6+0 Installed NaNMath ───────────────────── v1.1.3 Installed Graphics ──────────────────── v1.1.3 Installed QuadGK ────────────────────── v2.11.2 Installed libsass_jll ───────────────── v3.6.6+0 Installed Tables ────────────────────── v1.12.1 Installed Librsvg_jll ───────────────── v2.54.7+0 Installed Xorg_libxcb_jll ───────────── v1.17.1+0 Installed LZO_jll ───────────────────── v2.10.3+0 Installed EnumX ─────────────────────── v1.0.5 Installed Reexport ──────────────────── v1.2.2 Installed NLSolversBase ─────────────── v7.10.0 Installed Preferences ───────────────── v1.5.0 Installed LERC_jll ──────────────────── v4.0.1+0 Installed Missings ──────────────────── v1.2.0 Installed TableTraits ───────────────── v1.0.1 Installed LLVMOpenMP_jll ────────────── v18.1.8+0 Installed EpollShim_jll ─────────────── v0.0.20230411+1 Installed LaTeXStrings ──────────────── v1.4.0 Installed Crayons ───────────────────── v4.1.1 Installed UnPack ────────────────────── v1.0.2 Installed ADTypes ───────────────────── v1.18.0 Installed OpenSSH_jll ───────────────── v10.2.1+0 Installed SortingAlgorithms ─────────── v1.2.2 Installed MacroTools ────────────────── v0.5.16 Installed DiffResults ───────────────── v1.1.0 Installed DataStructures ────────────── v0.18.22 Installed Sass ──────────────────────── v0.2.0 Installed FillArrays ────────────────── v1.15.0 Installed AbstractTrees ─────────────── v0.4.5 Installed CodecZlib ─────────────────── v0.7.8 Installed Xorg_libXau_jll ───────────── v1.0.13+0 Installed Observables ───────────────── v0.5.5 Installed Xorg_libXdamage_jll ───────── v1.1.6+0 Installed DelimitedFiles ────────────── v1.9.1 Installed MethodAnalysis ────────────── v1.0.0 Installed Cairo ─────────────────────── v1.1.1 Installed ArrayInterface ────────────── v7.22.0 Installed StatsBase ─────────────────── v0.33.21 Installed Xorg_libXfixes_jll ────────── v6.0.2+0 Installed CEnum ─────────────────────── v0.5.0 Installed Expat_jll ─────────────────── v2.7.3+0 Installed Pixman_jll ────────────────── v0.44.2+0 Installed DataValueInterfaces ───────── v1.0.0 Installed Libffi_jll ────────────────── v3.4.7+0 Installed CommonSubexpressions ──────── v0.3.1 Installed RoundingIntegers ──────────── v1.1.0 Installed Xorg_libXcursor_jll ───────── v1.2.4+0 Installed IrrationalConstants ───────── v0.2.6 Installed libpng_jll ────────────────── v1.6.50+0 Installed BitFlags ──────────────────── v0.1.9 Installed IOCapture ─────────────────── v0.2.5 Installed Setfield ──────────────────── v1.1.2 Installed Scratch ───────────────────── v1.3.0 Installed GTK4_jll ──────────────────── v4.18.6+0 Installed LeftChildRightSiblingTrees ── v0.2.1 Installed FASTX ─────────────────────── v2.1.7 Installed PooledArrays ──────────────── v1.4.3 Installed BenchmarkTools ────────────── v1.6.3 Installed Graphene_jll ──────────────── v1.10.8+0 Installed PDMats ────────────────────── v0.11.35 Installed WorkerUtilities ───────────── v1.6.1 Installed DocStringExtensions ───────── v0.9.5 Installed adwaita_icon_theme_jll ────── v43.0.1+0 Installed BioSequences ──────────────── v3.5.0 Installed Rmath_jll ─────────────────── v0.5.1+0 Installed ForwardDiff ───────────────── v1.3.0 Installed StatsModels ───────────────── v0.6.33 Installed DifferentiationInterface ──── v0.7.11 Installed Combinatorics ─────────────── v1.0.3 Installed ShiftedArrays ─────────────── v2.0.0 Installed AliasTables ───────────────── v1.1.3 Installed MathOptInterface ──────────── v1.46.0 Installed IteratorInterfaceExtensions ─ v1.0.0 Installed StringViews ───────────────── v1.3.5 Installed Git_LFS_jll ───────────────── v3.7.0+0 Installed DataAPI ───────────────────── v1.16.0 Installed SIMD ──────────────────────── v3.7.2 Installed Xorg_libXi_jll ────────────── v1.8.3+0 Installed InvertedIndices ───────────── v1.3.1 Installed StaticArraysCore ──────────── v1.4.4 Installed Wayland_jll ───────────────── v1.24.0+0 Installed StaticArrays ──────────────── v1.9.15 Installed GtkObservables ────────────── v2.2.1 Installed Twiddle ───────────────────── v1.1.2 Installed Colors ────────────────────── v0.13.1 Installed Xorg_libxkbfile_jll ───────── v1.1.3+0 Installed Libglvnd_jll ──────────────── v1.7.1+1 Installed Documenter ────────────────── v0.27.25 Installed Xorg_xkbcomp_jll ──────────── v1.4.7+0 Installed Glib_jll ──────────────────── v2.86.0+0 Installed Requires ──────────────────── v1.3.1 Installed LogExpFunctions ───────────── v0.3.29 Installed StringManipulation ────────── v0.4.1 Installed ColorTypes ────────────────── v0.12.1 Installed DiffRules ─────────────────── v1.15.1 Installed PrettyTables ──────────────── v3.1.0 Installed Git_jll ───────────────────── v2.51.3+0 Installed JSON ──────────────────────── v0.21.4 Installed Parsers ───────────────────── v2.8.3 Installed Rmath ─────────────────────── v0.9.0 Installed FiniteDiff ────────────────── v2.29.0 Installed Distributions ─────────────── v0.25.122 Installed BioGenerics ───────────────── v0.1.5 Installed CSV ───────────────────────── v0.10.15 Installed StatsFuns ─────────────────── v1.5.2 Installed DocumenterTools ───────────── v0.1.21 Installed Xorg_libXdmcp_jll ─────────── v1.1.6+0 Installed Xorg_xkeyboard_config_jll ─── v2.44.0+0 Installed WeakRefStrings ────────────── v1.4.2 Installed JLLWrappers ───────────────── v1.7.1 Installed XZ_jll ────────────────────── v5.8.1+0 Installed StructTypes ───────────────── v1.11.0 Installed DataFrames ────────────────── v1.8.1 Installed PhyloNetworks ─────────────── v0.15.3 Installed MutableArithmetics ────────── v1.6.7 Installed Pango_jll ─────────────────── v1.57.0+0 Installed Xorg_xtrans_jll ───────────── v1.6.0+0 Installed JpegTurbo_jll ─────────────── v3.1.3+0 Installed FilePathsBase ─────────────── v0.9.24 Installed Adapt ─────────────────────── v4.4.0 Installed Libmount_jll ──────────────── v2.41.2+0 Installed NLopt ─────────────────────── v0.6.5 Installed ConstructionBase ──────────── v1.6.0 Installed HypergeometricFunctions ───── v0.3.28 Installed Gumbo_jll ─────────────────── v0.10.2+0 Installed FlameGraphs ───────────────── v1.1.0 Installed GLM ───────────────────────── v1.8.3 Installed Xorg_libX11_jll ───────────── v1.8.12+0 Installed Suppressor ────────────────── v0.2.8 Installed Compat ────────────────────── v4.18.1 Installed PositiveFactorizations ────── v0.2.4 Installed TranscodingStreams ────────── v0.11.3 Installed Statistics ────────────────── v1.11.1 Installed PrecompileTools ───────────── v1.3.3 Installed StatsAPI ──────────────────── v1.7.1 Installed xkbcommon_jll ─────────────── v1.9.2+0 Installed GettextRuntime_jll ────────── v0.22.4+0 Installed Libepoxy_jll ──────────────── v1.5.11+0 Installed JSON3 ─────────────────────── v1.14.3 Installed FriBidi_jll ───────────────── v1.0.17+0 Installed CodecBzip2 ────────────────── v0.8.5 Installed BioSymbols ────────────────── v5.2.0 Installed ProfileView ───────────────── v1.10.2 Installed Xorg_libXrender_jll ───────── v0.9.12+0 Installed Parameters ────────────────── v0.12.3 Installed PtrArrays ─────────────────── v1.3.0 Installed hicolor_icon_theme_jll ────── v0.18.0+0 Installed XML2_jll ──────────────────── v2.13.9+0 Installed iso_codes_jll ─────────────── v4.18.0+0 Installed Git ───────────────────────── v1.5.0 Installed IntervalSets ──────────────── v0.7.12 Installed SpecialFunctions ──────────── v2.6.1 Installed gdk_pixbuf_jll ────────────── v2.42.13+0 Installed FixedPointNumbers ─────────── v0.8.5 Installed FreeType2_jll ─────────────── v2.13.4+0 Installed Gtk4 ──────────────────────── v0.7.11 Installed Gumbo ─────────────────────── v0.8.3 Installed Libiconv_jll ──────────────── v1.18.0+0 Installed LineSearches ──────────────── v7.4.0 Installed Xorg_libXext_jll ──────────── v1.3.7+0 Installed Xorg_libXrandr_jll ────────── v1.5.5+0 Installed IndirectArrays ────────────── v1.0.0 Installed PhyNEST ───────────────────── v0.1.12 Installed Automa ────────────────────── v1.1.0 Installed MathProgBase ──────────────── v0.7.8 Installed ANSIColoredPrinters ───────── v0.0.1 Installed NLopt_jll ─────────────────── v2.10.0+0 Installing 60 artifacts Installed artifact Libffi 44.2 KiB Installed artifact Pixman 372.2 KiB Installed artifact hicolor_icon_theme 13.2 KiB Installed artifact xkbcommon 263.7 KiB Installed artifact Xorg_xtrans 48.2 KiB Installed artifact Bzip2 503.5 KiB Installed artifact Fontconfig 984.8 KiB Installed artifact FriBidi 78.9 KiB Installed artifact LLVMOpenMP 661.6 KiB Installed artifact Xorg_libXau 36.6 KiB Installed artifact Xorg_libxkbfile 486.7 KiB Installed artifact Xorg_libxcb 2.1 MiB Installed artifact Xorg_libXrender 435.9 KiB Installed artifact Libuuid 3.7 MiB Installed artifact NLopt 322.7 KiB Installed artifact Xorg_libXext 699.9 KiB Installed artifact Libtiff 2.3 MiB Installed artifact libpng 328.4 KiB Installed artifact Librsvg 9.3 MiB Installed artifact XZ 1.5 MiB Installed artifact Xorg_libXfixes 59.0 KiB Installed artifact Xorg_libXrandr 354.5 KiB Installed artifact Libepoxy 504.4 KiB Installed artifact Xorg_libXi 1.6 MiB Installed artifact Libmount 6.5 MiB Installed artifact Xorg_xkeyboard_config 537.5 KiB Installed artifact Rmath 121.9 KiB Installed artifact Expat 283.3 KiB Installed artifact Graphite2 120.2 KiB Installed artifact Libiconv 1.9 MiB Installed artifact GettextRuntime 543.0 KiB Installed artifact Xorg_xkbcomp 274.8 KiB Installed artifact Pango 2.0 MiB Installed artifact iso_codes 7.5 MiB Installed artifact OpenSSH 4.3 MiB Installed artifact Xorg_libXcursor 227.1 KiB Installed artifact Wayland_protocols 185.1 KiB Installed artifact XML2 2.5 MiB Installed artifact Xorg_libXinerama 50.1 KiB Installed artifact LZO 208.9 KiB Installed artifact Wayland 390.6 KiB Installed artifact Libglvnd 833.5 KiB Installed artifact Git_LFS 9.6 MiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact Cairo 2.2 MiB Installed artifact Gumbo 703.8 KiB Installed artifact libsass 8.9 MiB Installed artifact Graphene 223.2 KiB Installed artifact Xorg_libXdmcp 67.7 KiB Installed artifact LERC 272.9 KiB Installed artifact adwaita_icon_theme 5.0 MiB Installed artifact Xorg_libXdamage 50.0 KiB Installed artifact HarfBuzz 1.7 MiB Installed artifact JpegTurbo 1.4 MiB Installed artifact gdk_pixbuf 943.6 KiB Installed artifact FreeType2 1.5 MiB Installed artifact Glib 7.7 MiB Installed artifact GTK4 14.1 MiB Installed artifact Xorg_libX11 13.9 MiB Installed artifact Git 48.9 MiB Updating `~/.julia/environments/v1.14/Project.toml` [115de871] + PhyNEST v0.1.12 Updating `~/.julia/environments/v1.14/Manifest.toml` [47edcb42] + ADTypes v1.18.0 [a4c015fc] + ANSIColoredPrinters v0.0.1 [1520ce14] + AbstractTrees v0.4.5 [79e6a3ab] + Adapt v4.4.0 [66dad0bd] + AliasTables v1.1.3 [4fba245c] + ArrayInterface v7.22.0 [67c07d97] + Automa v1.1.0 [6e4b80f9] + BenchmarkTools v1.6.3 [47718e42] + BioGenerics v0.1.5 [7e6ae17a] + BioSequences v3.5.0 [3c28c6f8] + BioSymbols v5.2.0 [d1d4a3ce] + BitFlags v0.1.9 [fa961155] + CEnum v0.5.0 [336ed68f] + CSV v0.10.15 [159f3aea] + Cairo v1.1.1 [523fee87] + CodecBzip2 v0.8.5 [944b1d66] + CodecZlib v0.7.8 [3da002f7] + ColorTypes v0.12.1 [5ae59095] + Colors v0.13.1 [861a8166] + Combinatorics v1.0.3 [bbf7d656] + CommonSubexpressions v0.3.1 [34da2185] + Compat v4.18.1 [187b0558] + ConstructionBase v1.6.0 [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 [8bb1440f] + DelimitedFiles v1.9.1 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [a0c0ee7d] + DifferentiationInterface v0.7.11 [31c24e10] + Distributions v0.25.122 [ffbed154] + DocStringExtensions v0.9.5 ⌅ [e30172f5] + Documenter v0.27.25 [35a29f4d] + DocumenterTools v0.1.21 [4e289a0a] + EnumX v1.0.5 [c2308a5c] + FASTX v2.1.7 [5789e2e9] + FileIO v1.17.1 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.15.0 [6a86dc24] + FiniteDiff v2.29.0 [53c48c17] + FixedPointNumbers v0.8.5 [08572546] + FlameGraphs v1.1.0 [f6369f11] + ForwardDiff v1.3.0 ⌅ [d9f16b24] + Functors v0.3.0 ⌃ [38e38edf] + GLM v1.8.3 [d7ba0133] + Git v1.5.0 [a2bd30eb] + Graphics v1.1.3 [9db2cae5] + Gtk4 v0.7.11 [8710efd8] + GtkObservables v2.2.1 [708ec375] + Gumbo v0.8.3 [34004b35] + HypergeometricFunctions v0.3.28 ⌅ [b5f81e59] + IOCapture v0.2.5 [9b13fd28] + IndirectArrays v1.0.0 [842dd82b] + InlineStrings v1.4.5 [8197267c] + IntervalSets v0.7.12 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.6 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 ⌅ [682c06a0] + JSON v0.21.4 [0f8b85d8] + JSON3 v1.14.3 [b964fa9f] + LaTeXStrings v1.4.0 [1d6d02ad] + LeftChildRightSiblingTrees v0.2.1 [d3d80556] + LineSearches v7.4.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [1914dd2f] + MacroTools v0.5.16 [b8f27783] + MathOptInterface v1.46.0 [fdba3010] + MathProgBase v0.7.8 [85b6ec6f] + MethodAnalysis v1.0.0 [e1d29d7a] + Missings v1.2.0 [d8a4904e] + MutableArithmetics v1.6.7 [d41bc354] + NLSolversBase v7.10.0 ⌅ [76087f3c] + NLopt v0.6.5 [77ba4419] + NaNMath v1.1.3 [510215fc] + Observables v0.5.5 [429524aa] + Optim v1.13.2 [bac558e1] + OrderedCollections v1.8.1 ⌃ [90014a1f] + PDMats v0.11.35 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.8.3 [115de871] + PhyNEST v0.1.12 ⌅ [33ad39ac] + PhyloNetworks v0.15.3 [2dfb63ee] + PooledArrays v1.4.3 [85a6dd25] + PositiveFactorizations v0.2.4 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.0 [08abe8d2] + PrettyTables v3.1.0 [c46f51b8] + ProfileView v1.10.2 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [79098fc4] + Rmath v0.9.0 [d5f540fe] + RoundingIntegers v1.1.0 [fdea26ae] + SIMD v3.7.2 [322a6be2] + Sass v0.2.0 [6c6a2e73] + Scratch v1.3.0 [91c51154] + SentinelArrays v1.4.8 [efcf1570] + Setfield v1.1.2 [1277b4bf] + ShiftedArrays v2.0.0 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.6.1 [90137ffa] + StaticArrays v1.9.15 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 ⌅ [2913bbd2] + StatsBase v0.33.21 [4c63d2b9] + StatsFuns v1.5.2 ⌅ [3eaba693] + StatsModels v0.6.33 [892a3eda] + StringManipulation v0.4.1 [354b36f9] + StringViews v1.3.5 [856f2bd8] + StructTypes v1.11.0 [fd094767] + Suppressor v0.2.8 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [3bb67fe8] + TranscodingStreams v0.11.3 [7200193e] + Twiddle v1.1.2 [3a884ed6] + UnPack v1.0.2 [ea10d353] + WeakRefStrings v1.4.2 [76eceee3] + WorkerUtilities v1.6.1 [6e34b625] + Bzip2_jll v1.0.9+0 [83423d85] + Cairo_jll v1.18.5+0 [2702e6a9] + EpollShim_jll v0.0.20230411+1 [2e619515] + Expat_jll v2.7.3+0 [a3f928ae] + Fontconfig_jll v2.17.1+0 [d7e528f0] + FreeType2_jll v2.13.4+0 [559328eb] + FriBidi_jll v1.0.17+0 [6ebb71f1] + GTK4_jll v4.18.6+0 [b0724c58] + GettextRuntime_jll v0.22.4+0 [020c3dae] + Git_LFS_jll v3.7.0+0 [f8c6e375] + Git_jll v2.51.3+0 [7746bdde] + Glib_jll v2.86.0+0 [75302f13] + Graphene_jll v1.10.8+0 [3b182d85] + Graphite2_jll v1.3.15+0 [528830af] + Gumbo_jll v0.10.2+0 [2e76f6c2] + HarfBuzz_jll v8.5.1+0 [aacddb02] + JpegTurbo_jll v3.1.3+0 [88015f11] + LERC_jll v4.0.1+0 [1d63c593] + LLVMOpenMP_jll v18.1.8+0 [dd4b983a] + LZO_jll v2.10.3+0 [42c93a91] + Libepoxy_jll v1.5.11+0 [e9f186c6] + Libffi_jll v3.4.7+0 [7e76a0d4] + Libglvnd_jll v1.7.1+1 [94ce4f54] + Libiconv_jll v1.18.0+0 [4b2f31a3] + Libmount_jll v2.41.2+0 [925c91fb] + Librsvg_jll v2.54.7+0 [89763e89] + Libtiff_jll v4.7.2+0 [38a345b3] + Libuuid_jll v2.41.2+0 [079eb43e] + NLopt_jll v2.10.0+0 [9bd350c2] + OpenSSH_jll v10.2.1+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [36c8627f] + Pango_jll v1.57.0+0 ⌅ [30392449] + Pixman_jll v0.44.2+0 [f50d1b31] + Rmath_jll v0.5.1+0 [a2964d1f] + Wayland_jll v1.24.0+0 [2381bf8a] + Wayland_protocols_jll v1.44.0+0 ⌅ [02c8fc9c] + XML2_jll v2.13.9+0 [ffd25f8a] + XZ_jll v5.8.1+0 [4f6342f7] + Xorg_libX11_jll v1.8.12+0 [0c0b7dd1] + Xorg_libXau_jll v1.0.13+0 [935fb764] + Xorg_libXcursor_jll v1.2.4+0 [0aeada51] + Xorg_libXdamage_jll v1.1.6+0 [a3789734] + Xorg_libXdmcp_jll v1.1.6+0 [1082639a] + Xorg_libXext_jll v1.3.7+0 [d091e8ba] + Xorg_libXfixes_jll v6.0.2+0 [a51aa0fd] + Xorg_libXi_jll v1.8.3+0 [d1454406] + Xorg_libXinerama_jll v1.1.6+0 [ec84b674] + Xorg_libXrandr_jll v1.5.5+0 [ea2f1a96] + Xorg_libXrender_jll v0.9.12+0 [c7cfdc94] + Xorg_libxcb_jll v1.17.1+0 [cc61e674] + Xorg_libxkbfile_jll v1.1.3+0 [35661453] + Xorg_xkbcomp_jll v1.4.7+0 [33bec58e] + Xorg_xkeyboard_config_jll v2.44.0+0 [c5fb5394] + Xorg_xtrans_jll v1.6.0+0 [b437f822] + adwaita_icon_theme_jll v43.0.1+0 [da03df04] + gdk_pixbuf_jll v2.42.13+0 [059c91fe] + hicolor_icon_theme_jll v0.18.0+0 [bf975903] + iso_codes_jll v4.18.0+0 [b53b4c65] + libpng_jll v1.6.50+0 [47bcb7c8] + libsass_jll v3.6.6+0 [d8fb68d0] + xkbcommon_jll v1.9.2+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 [b27032c2] + LibCURL v1.0.0 [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 [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 [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 v8.16.0+0 [e37daf67] + LibGit2_jll v1.9.1+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.11.4 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.4+0 [efcefdf7] + PCRE2_jll v10.47.0+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 v5.15.0+0 [8e850ede] + nghttp2_jll v1.68.0+1 [3f19e933] + p7zip_jll v17.7.0+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 29.28s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv. 4665.2 ms ✓ TestEnv 1 dependency successfully precompiled in 5 seconds. 27 already precompiled. 1 dependency had output during precompilation: ┌ TestEnv │ WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv. └ ┌ Error: Failed to use TestEnv.jl; test dependencies will not be precompiled │ exception = │ UndefVarError: `project_rel_path` not defined in `TestEnv` │ Suggestion: this global was defined as `Pkg.Operations.project_rel_path` but not assigned a value. │ Stacktrace: │ [1] get_test_dir(ctx::Pkg.Types.Context, pkgspec::PackageSpec) │ @ TestEnv ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:75 │ [2] test_dir_has_project_file │ @ ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:52 [inlined] │ [3] maybe_gen_project_override! │ @ ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:83 [inlined] │ [4] activate(pkg::String; allow_reresolve::Bool) │ @ TestEnv ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/activate_set.jl:12 │ [5] activate(pkg::String) │ @ TestEnv ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/activate_set.jl:9 │ [6] top-level scope │ @ /PkgEval.jl/scripts/precompile.jl:24 │ [7] include(mod::Module, _path::String) │ @ Base ./Base.jl:309 │ [8] exec_options(opts::Base.JLOptions) │ @ Base ./client.jl:344 │ [9] _start() │ @ Base ./client.jl:577 └ @ Main /PkgEval.jl/scripts/precompile.jl:26 Precompiling package dependencies... Precompiling packages... 4045.3 ms ✓ MacroTools 1637.0 ms ✓ InlineStrings 780.8 ms ✓ Reexport 1069.8 ms ✓ ConstructionBase 1928.5 ms ✓ IrrationalConstants 726.8 ms ✓ DataValueInterfaces 795.7 ms ✓ StatsAPI 960.0 ms ✓ Observables 817.7 ms ✓ Twiddle 994.3 ms ✓ IntervalSets 792.1 ms ✓ CEnum 894.4 ms ✓ Functors 1938.8 ms ✓ Combinatorics 973.1 ms ✓ StringViews 1244.2 ms ✓ TranscodingStreams 773.7 ms ✓ LaTeXStrings 1051.4 ms ✓ Statistics 891.9 ms ✓ StaticArraysCore 759.6 ms ✓ Suppressor 777.4 ms ✓ PtrArrays 949.0 ms ✓ ANSIColoredPrinters 877.0 ms ✓ PositiveFactorizations 804.8 ms ✓ DataAPI 781.9 ms ✓ InvertedIndices 832.7 ms ✓ BitFlags 839.3 ms ✓ ShiftedArrays 1287.6 ms ✓ AbstractTrees 862.1 ms ✓ EnumX 972.2 ms ✓ WorkerUtilities 2120.7 ms ✓ FillArrays 1027.5 ms ✓ IndirectArrays 639.9 ms ✓ RoundingIntegers 685.4 ms ✓ UnPack 1116.4 ms ✓ OrderedCollections 1269.4 ms ✓ ADTypes 1141.4 ms ✓ DocStringExtensions 725.4 ms ✓ IteratorInterfaceExtensions 1757.8 ms ✓ Crayons 822.9 ms ✓ IOCapture 938.2 ms ✓ DelimitedFiles 1031.9 ms ✓ NaNMath 1179.8 ms ✓ Requires 1142.7 ms ✓ SuiteSparse 2028.9 ms ✓ MathProgBase 876.1 ms ✓ Scratch 2628.2 ms ✓ SentinelArrays 1471.0 ms ✓ StructTypes 1086.1 ms ✓ Compat 1080.6 ms ✓ Preferences 10339.1 ms ✓ MutableArithmetics 1674.8 ms ✓ CommonSubexpressions 780.9 ms ✓ ConstructionBase → ConstructionBaseLinearAlgebraExt 745.5 ms ✓ IntervalSets → IntervalSetsRandomExt 760.1 ms ✓ IntervalSets → IntervalSetsPrintfExt 723.3 ms ✓ ConstructionBase → ConstructionBaseIntervalSetsExt 888.1 ms ✓ BioGenerics 884.1 ms ✓ CodecZlib 1278.5 ms ✓ Statistics → SparseArraysExt 3510.6 ms ✓ FixedPointNumbers 750.5 ms ✓ IntervalSets → IntervalSetsStatisticsExt 810.8 ms ✓ DiffResults 907.9 ms ✓ AliasTables 947.7 ms ✓ Missings 989.8 ms ✓ PooledArrays 810.1 ms ✓ LeftChildRightSiblingTrees 996.2 ms ✓ MethodAnalysis 1405.9 ms ✓ FillArrays → FillArraysSparseArraysExt 956.8 ms ✓ FillArrays → FillArraysStatisticsExt 917.6 ms ✓ Parameters 739.8 ms ✓ ADTypes → ADTypesConstructionBaseExt 1784.1 ms ✓ DifferentiationInterface 1266.8 ms ✓ LogExpFunctions 712.0 ms ✓ TableTraits 869.1 ms ✓ Adapt 8308.0 ms ✓ FileIO 1774.1 ms ✓ PDMats 798.1 ms ✓ Compat → CompatLinearAlgebraExt 863.3 ms ✓ PrecompileTools 1152.7 ms ✓ JLLWrappers 2837.8 ms ✓ Setfield 2566.9 ms ✓ ColorTypes 1259.2 ms ✓ DifferentiationInterface → DifferentiationInterfaceSparseArraysExt 1705.2 ms ✓ Tables 1143.3 ms ✓ ArrayInterface 1242.9 ms ✓ Adapt → AdaptSparseArraysExt 1378.5 ms ✓ FillArrays → FillArraysPDMatsExt 2187.9 ms ✓ FilePathsBase 3966.4 ms ✓ DataStructures 2594.5 ms ✓ BioSymbols 3377.0 ms ✓ StringManipulation 14811.1 ms ✓ SIMD 13028.6 ms ✓ StaticArrays 14736.3 ms ✓ Parsers 1363.0 ms ✓ Libffi_jll 1363.0 ms ✓ LZO_jll 1349.6 ms ✓ Bzip2_jll 1457.9 ms ✓ XZ_jll 1395.7 ms ✓ NLopt_jll 1352.9 ms ✓ Rmath_jll 1400.1 ms ✓ OpenSpecFun_jll 1212.6 ms ✓ Xorg_xtrans_jll 1450.5 ms ✓ libpng_jll 1228.8 ms ✓ iso_codes_jll 1115.8 ms ✓ EpollShim_jll 1162.7 ms ✓ Wayland_protocols_jll 1397.0 ms ✓ Libmount_jll 1370.7 ms ✓ Libuuid_jll 1362.4 ms ✓ FriBidi_jll 1382.5 ms ✓ LERC_jll 1386.4 ms ✓ Git_LFS_jll 1423.5 ms ✓ libsass_jll 1325.7 ms ✓ Gumbo_jll 1283.3 ms ✓ Xorg_libXau_jll 1407.7 ms ✓ OpenSSH_jll 1367.7 ms ✓ hicolor_icon_theme_jll 1362.5 ms ✓ Graphite2_jll 1368.1 ms ✓ LLVMOpenMP_jll 1387.5 ms ✓ Libiconv_jll 1358.0 ms ✓ Xorg_libXdmcp_jll 1366.5 ms ✓ Expat_jll 1433.9 ms ✓ JpegTurbo_jll 1251.3 ms ✓ ColorTypes → StyledStringsExt 7474.0 ms ✓ Colors 1724.3 ms ✓ ArrayInterface → ArrayInterfaceStaticArraysCoreExt 1364.9 ms ✓ ArrayInterface → ArrayInterfaceSparseArraysExt 2440.4 ms ✓ FilePathsBase → FilePathsBaseTestExt 932.7 ms ✓ FilePathsBase → FilePathsBaseMmapExt 1513.3 ms ✓ SortingAlgorithms 2733.6 ms ✓ QuadGK 8940.8 ms ✓ BioSequences 38934.1 ms ✓ PrettyTables 21528.5 ms ✓ Automa 1413.3 ms ✓ StaticArrays → StaticArraysStatisticsExt 1396.5 ms ✓ ConstructionBase → ConstructionBaseStaticArraysExt 1451.4 ms ✓ DifferentiationInterface → DifferentiationInterfaceStaticArraysExt 1827.2 ms ✓ Adapt → AdaptStaticArraysExt 13902.9 ms ✓ JSON3 3709.0 ms ✓ JSON 895.8 ms ✓ InlineStrings → ParsersExt 940.8 ms ✓ CodecBzip2 1339.5 ms ✓ FreeType2_jll 1412.1 ms ✓ Rmath 4835.0 ms ✓ SpecialFunctions 1957.6 ms ✓ Sass 1183.7 ms ✓ Gumbo 1371.7 ms ✓ adwaita_icon_theme_jll 1384.3 ms ✓ Pixman_jll 1424.6 ms ✓ XML2_jll 1411.5 ms ✓ GettextRuntime_jll 1463.3 ms ✓ Xorg_libxcb_jll 1418.9 ms ✓ Git_jll 1486.1 ms ✓ Wayland_jll 1475.1 ms ✓ Libtiff_jll 1348.7 ms ✓ Graphics 10311.3 ms ✓ FlameGraphs 1310.4 ms ✓ FiniteDiff 8781.2 ms ✓ StatsBase 88999.8 ms ✓ DataFrames 22019.2 ms ✓ FASTX 8700.5 ms ✓ Documenter 2984.7 ms ✓ BenchmarkTools 2543.6 ms ✓ WeakRefStrings 1478.1 ms ✓ Fontconfig_jll 2369.5 ms ✓ HypergeometricFunctions 1196.1 ms ✓ DiffRules 1390.6 ms ✓ Glib_jll 1313.9 ms ✓ Xorg_libX11_jll 869.4 ms ✓ Git 1365.5 ms ✓ FiniteDiff → FiniteDiffStaticArraysExt 1225.4 ms ✓ FiniteDiff → FiniteDiffSparseArraysExt 943.0 ms ✓ DifferentiationInterface → DifferentiationInterfaceFiniteDiffExt 2421.5 ms ✓ FASTX → BioSequencesExt 27481.0 ms ✓ CSV 2645.7 ms ✓ StatsFuns 6100.1 ms ✓ ForwardDiff 1321.8 ms ✓ Graphene_jll 1296.6 ms ✓ Xorg_libXfixes_jll 1329.4 ms ✓ Xorg_libXrender_jll 1355.2 ms ✓ Xorg_libXext_jll 1315.1 ms ✓ Xorg_libxkbfile_jll 1362.1 ms ✓ gdk_pixbuf_jll 3922.4 ms ✓ DocumenterTools 7544.9 ms ✓ StatsModels 13001.5 ms ✓ Distributions 1831.3 ms ✓ ForwardDiff → ForwardDiffStaticArraysExt 1513.2 ms ✓ DifferentiationInterface → DifferentiationInterfaceForwardDiffExt 73873.3 ms ✓ MathOptInterface 1449.6 ms ✓ Xorg_libXdamage_jll 1462.2 ms ✓ Xorg_libXcursor_jll 1447.2 ms ✓ Xorg_libXrandr_jll 1427.5 ms ✓ Xorg_libXinerama_jll 1433.0 ms ✓ Xorg_libXi_jll 1470.1 ms ✓ Cairo_jll 1412.6 ms ✓ Libglvnd_jll 1511.5 ms ✓ Xorg_xkbcomp_jll 9637.1 ms ✓ GLM 4222.5 ms ✓ Distributions → DistributionsTestExt 2418.5 ms ✓ NLSolversBase 6411.5 ms ✓ NLopt 1413.7 ms ✓ HarfBuzz_jll 1320.8 ms ✓ Libepoxy_jll 1136.4 ms ✓ Xorg_xkeyboard_config_jll 4365.8 ms ✓ LineSearches 30543.1 ms ✓ PhyloNetworks 1470.9 ms ✓ Pango_jll 1424.7 ms ✓ xkbcommon_jll 10904.9 ms ✓ Optim 2606.9 ms ✓ Cairo 1534.0 ms ✓ Librsvg_jll 1591.9 ms ✓ GTK4_jll 6818.4 ms ✓ Optim → OptimMOIExt 49912.7 ms ✓ Gtk4  (julia:1108): Gtk-WARNING **: 17:29:45.991: Unable to acquire session bus: Cannot spawn a message bus without a machine-id: Invalid machine ID in /workspace/destdir/var/lib/dbus/machine-id or /etc/machine-id 25031.7 ms ✓ GtkObservables  (julia:1118): Gtk-WARNING **: 17:30:19.464: Unable to acquire session bus: Cannot spawn a message bus without a machine-id: Invalid machine ID in /workspace/destdir/var/lib/dbus/machine-id or /etc/machine-id 17756.9 ms ✓ ProfileView 23844.2 ms ✓ PhyNEST 215 dependencies successfully precompiled in 871 seconds. 39 already precompiled. 2 dependencies had output during precompilation: ┌ ProfileView │ (julia:1118): Gtk-WARNING **: 17:30:19.464: Unable to acquire session bus: Cannot spawn a message bus without a machine-id: Invalid machine ID in /workspace/destdir/var/lib/dbus/machine-id or /etc/machine-id └ ┌ GtkObservables │ (julia:1108): Gtk-WARNING **: 17:29:45.991: Unable to acquire session bus: Cannot spawn a message bus without a machine-id: Invalid machine ID in /workspace/destdir/var/lib/dbus/machine-id or /etc/machine-id └ Precompilation completed after 881.28s ################################################################################ # Testing # Testing PhyNEST Status `/tmp/jl_hOCYNw/Project.toml` [336ed68f] CSV v0.10.15 [a93c6f00] DataFrames v1.8.1 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.122 ⌅ [e30172f5] Documenter v0.27.25 [35a29f4d] DocumenterTools v0.1.21 [d3d80556] LineSearches v7.4.0 [429524aa] Optim v1.13.2 [115de871] PhyNEST v0.1.12 ⌅ [33ad39ac] PhyloNetworks v0.15.3 [c46f51b8] ProfileView v1.10.2 ⌅ [2913bbd2] StatsBase v0.33.21 [fd094767] Suppressor v0.2.8 [ade2ca70] Dates v1.11.0 [8ba89e20] Distributed v1.11.0 [56ddb016] Logging v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_hOCYNw/Manifest.toml` [47edcb42] ADTypes v1.18.0 [a4c015fc] ANSIColoredPrinters v0.0.1 [1520ce14] AbstractTrees v0.4.5 [79e6a3ab] Adapt v4.4.0 [66dad0bd] AliasTables v1.1.3 [4fba245c] ArrayInterface v7.22.0 [67c07d97] Automa v1.1.0 [6e4b80f9] BenchmarkTools v1.6.3 [47718e42] BioGenerics v0.1.5 [7e6ae17a] BioSequences v3.5.0 [3c28c6f8] BioSymbols v5.2.0 [d1d4a3ce] BitFlags v0.1.9 [fa961155] CEnum v0.5.0 [336ed68f] CSV v0.10.15 [159f3aea] Cairo v1.1.1 [523fee87] CodecBzip2 v0.8.5 [944b1d66] CodecZlib v0.7.8 [3da002f7] ColorTypes v0.12.1 [5ae59095] Colors v0.13.1 [861a8166] Combinatorics v1.0.3 [bbf7d656] CommonSubexpressions v0.3.1 [34da2185] Compat v4.18.1 [187b0558] ConstructionBase v1.6.0 [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 [8bb1440f] DelimitedFiles v1.9.1 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 [a0c0ee7d] DifferentiationInterface v0.7.11 [31c24e10] Distributions v0.25.122 [ffbed154] DocStringExtensions v0.9.5 ⌅ [e30172f5] Documenter v0.27.25 [35a29f4d] DocumenterTools v0.1.21 [4e289a0a] EnumX v1.0.5 [c2308a5c] FASTX v2.1.7 [5789e2e9] FileIO v1.17.1 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.15.0 [6a86dc24] FiniteDiff v2.29.0 [53c48c17] FixedPointNumbers v0.8.5 [08572546] FlameGraphs v1.1.0 [f6369f11] ForwardDiff v1.3.0 ⌅ [d9f16b24] Functors v0.3.0 ⌃ [38e38edf] GLM v1.8.3 [d7ba0133] Git v1.5.0 [a2bd30eb] Graphics v1.1.3 [9db2cae5] Gtk4 v0.7.11 [8710efd8] GtkObservables v2.2.1 [708ec375] Gumbo v0.8.3 [34004b35] HypergeometricFunctions v0.3.28 ⌅ [b5f81e59] IOCapture v0.2.5 [9b13fd28] IndirectArrays v1.0.0 [842dd82b] InlineStrings v1.4.5 [8197267c] IntervalSets v0.7.12 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.6 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.1 ⌅ [682c06a0] JSON v0.21.4 [0f8b85d8] JSON3 v1.14.3 [b964fa9f] LaTeXStrings v1.4.0 [1d6d02ad] LeftChildRightSiblingTrees v0.2.1 [d3d80556] LineSearches v7.4.0 [2ab3a3ac] LogExpFunctions v0.3.29 [1914dd2f] MacroTools v0.5.16 [b8f27783] MathOptInterface v1.46.0 [fdba3010] MathProgBase v0.7.8 [85b6ec6f] MethodAnalysis v1.0.0 [e1d29d7a] Missings v1.2.0 [d8a4904e] MutableArithmetics v1.6.7 [d41bc354] NLSolversBase v7.10.0 ⌅ [76087f3c] NLopt v0.6.5 [77ba4419] NaNMath v1.1.3 [510215fc] Observables v0.5.5 [429524aa] Optim v1.13.2 [bac558e1] OrderedCollections v1.8.1 ⌃ [90014a1f] PDMats v0.11.35 [d96e819e] Parameters v0.12.3 [69de0a69] Parsers v2.8.3 [115de871] PhyNEST v0.1.12 ⌅ [33ad39ac] PhyloNetworks v0.15.3 [2dfb63ee] PooledArrays v1.4.3 [85a6dd25] PositiveFactorizations v0.2.4 [aea7be01] PrecompileTools v1.3.3 [21216c6a] Preferences v1.5.0 [08abe8d2] PrettyTables v3.1.0 [c46f51b8] ProfileView v1.10.2 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [79098fc4] Rmath v0.9.0 [d5f540fe] RoundingIntegers v1.1.0 [fdea26ae] SIMD v3.7.2 [322a6be2] Sass v0.2.0 [6c6a2e73] Scratch v1.3.0 [91c51154] SentinelArrays v1.4.8 [efcf1570] Setfield v1.1.2 [1277b4bf] ShiftedArrays v2.0.0 [a2af1166] SortingAlgorithms v1.2.2 [276daf66] SpecialFunctions v2.6.1 [90137ffa] StaticArrays v1.9.15 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.1 ⌅ [2913bbd2] StatsBase v0.33.21 [4c63d2b9] StatsFuns v1.5.2 ⌅ [3eaba693] StatsModels v0.6.33 [892a3eda] StringManipulation v0.4.1 [354b36f9] StringViews v1.3.5 [856f2bd8] StructTypes v1.11.0 [fd094767] Suppressor v0.2.8 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [3bb67fe8] TranscodingStreams v0.11.3 [7200193e] Twiddle v1.1.2 [3a884ed6] UnPack v1.0.2 [ea10d353] WeakRefStrings v1.4.2 [76eceee3] WorkerUtilities v1.6.1 [6e34b625] Bzip2_jll v1.0.9+0 [83423d85] Cairo_jll v1.18.5+0 [2702e6a9] EpollShim_jll v0.0.20230411+1 [2e619515] Expat_jll v2.7.3+0 [a3f928ae] Fontconfig_jll v2.17.1+0 [d7e528f0] FreeType2_jll v2.13.4+0 [559328eb] FriBidi_jll v1.0.17+0 [6ebb71f1] GTK4_jll v4.18.6+0 [b0724c58] GettextRuntime_jll v0.22.4+0 [020c3dae] Git_LFS_jll v3.7.0+0 [f8c6e375] Git_jll v2.51.3+0 [7746bdde] Glib_jll v2.86.0+0 [75302f13] Graphene_jll v1.10.8+0 [3b182d85] Graphite2_jll v1.3.15+0 [528830af] Gumbo_jll v0.10.2+0 [2e76f6c2] HarfBuzz_jll v8.5.1+0 [aacddb02] JpegTurbo_jll v3.1.3+0 [88015f11] LERC_jll v4.0.1+0 [1d63c593] LLVMOpenMP_jll v18.1.8+0 [dd4b983a] LZO_jll v2.10.3+0 [42c93a91] Libepoxy_jll v1.5.11+0 [e9f186c6] Libffi_jll v3.4.7+0 [7e76a0d4] Libglvnd_jll v1.7.1+1 [94ce4f54] Libiconv_jll v1.18.0+0 [4b2f31a3] Libmount_jll v2.41.2+0 [925c91fb] Librsvg_jll v2.54.7+0 [89763e89] Libtiff_jll v4.7.2+0 [38a345b3] Libuuid_jll v2.41.2+0 [079eb43e] NLopt_jll v2.10.0+0 [9bd350c2] OpenSSH_jll v10.2.1+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [36c8627f] Pango_jll v1.57.0+0 ⌅ [30392449] Pixman_jll v0.44.2+0 [f50d1b31] Rmath_jll v0.5.1+0 [a2964d1f] Wayland_jll v1.24.0+0 [2381bf8a] Wayland_protocols_jll v1.44.0+0 ⌅ [02c8fc9c] XML2_jll v2.13.9+0 [ffd25f8a] XZ_jll v5.8.1+0 [4f6342f7] Xorg_libX11_jll v1.8.12+0 [0c0b7dd1] Xorg_libXau_jll v1.0.13+0 [935fb764] Xorg_libXcursor_jll v1.2.4+0 [0aeada51] Xorg_libXdamage_jll v1.1.6+0 [a3789734] Xorg_libXdmcp_jll v1.1.6+0 [1082639a] Xorg_libXext_jll v1.3.7+0 [d091e8ba] Xorg_libXfixes_jll v6.0.2+0 [a51aa0fd] Xorg_libXi_jll v1.8.3+0 [d1454406] Xorg_libXinerama_jll v1.1.6+0 [ec84b674] Xorg_libXrandr_jll v1.5.5+0 [ea2f1a96] Xorg_libXrender_jll v0.9.12+0 [c7cfdc94] Xorg_libxcb_jll v1.17.1+0 [cc61e674] Xorg_libxkbfile_jll v1.1.3+0 [35661453] Xorg_xkbcomp_jll v1.4.7+0 [33bec58e] Xorg_xkeyboard_config_jll v2.44.0+0 [c5fb5394] Xorg_xtrans_jll v1.6.0+0 [b437f822] adwaita_icon_theme_jll v43.0.1+0 [da03df04] gdk_pixbuf_jll v2.42.13+0 [059c91fe] hicolor_icon_theme_jll v0.18.0+0 [bf975903] iso_codes_jll v4.18.0+0 [b53b4c65] libpng_jll v1.6.50+0 [47bcb7c8] libsass_jll v3.6.6+0 [d8fb68d0] xkbcommon_jll v1.9.2+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 [b27032c2] LibCURL v1.0.0 [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 [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 [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 v8.16.0+0 [e37daf67] LibGit2_jll v1.9.1+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.11.4 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.4+0 [efcefdf7] PCRE2_jll v10.47.0+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 v5.15.0+0 [8e850ede] nghttp2_jll v1.68.0+1 [3f19e933] p7zip_jll v17.7.0+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: | Pass Total Time Testing misc.function get_average | 100 100 1.7s Test Summary: | Pass Total Time Testing site pattern proabilities | 1000 1000 0.2s Testing Method-of-moment estimates of speciation times: Test Failed at /home/pkgeval/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:54 Expression: isapprox(est2, t2, atol = tol) Evaluated: isapprox(5.2326906732661636, 5.5449; atol = 0.2) Stacktrace: [1] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:753 [inlined] [2] macro expansion @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:54 [inlined] [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:1961 [inlined] [4] top-level scope @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:41 Testing Method-of-moment estimates of speciation times: Test Failed at /home/pkgeval/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:60 Expression: isapprox(est3, t3, atol = tol) Evaluated: isapprox(8.64333311944925, 9.0281; atol = 0.2) Stacktrace: [1] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:753 [inlined] [2] macro expansion @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:60 [inlined] [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:1961 [inlined] [4] top-level scope @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:41 Testing Method-of-moment estimates of speciation times: Test Failed at /home/pkgeval/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:63 Expression: isapprox(est1, t1, atol = tol) Evaluated: isapprox(2.3733555072558006, 2.1673; atol = 0.2) Stacktrace: [1] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:753 [inlined] [2] macro expansion @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:63 [inlined] [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:1961 [inlined] [4] top-level scope @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:41 Testing Method-of-moment estimates of speciation times: Test Failed at /home/pkgeval/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:64 Expression: isapprox(est2, t2, atol = tol) Evaluated: isapprox(5.090017751378724, 5.5449; atol = 0.2) Stacktrace: [1] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:753 [inlined] [2] macro expansion @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:64 [inlined] [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:1961 [inlined] [4] top-level scope @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:41 Testing Method-of-moment estimates of speciation times: Test Failed at /home/pkgeval/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:65 Expression: isapprox(est3, t3, atol = tol) Evaluated: isapprox(8.64333311944925, 9.0281; atol = 0.2) Stacktrace: [1] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:753 [inlined] [2] macro expansion @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:65 [inlined] [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:1961 [inlined] [4] top-level scope @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:41 Testing Method-of-moment estimates of speciation times: Test Failed at /home/pkgeval/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:68 Expression: isapprox(est1, t1, atol = tol) Evaluated: isapprox(2.4733046875058293, 2.1673; atol = 0.2) Stacktrace: [1] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:753 [inlined] [2] macro expansion @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:68 [inlined] [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:1961 [inlined] [4] top-level scope @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:41 Testing Method-of-moment estimates of speciation times: Test Failed at /home/pkgeval/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:74 Expression: isapprox(est2, t2, atol = tol) Evaluated: isapprox(5.031923543481804, 5.5449; atol = 0.2) Stacktrace: [1] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:753 [inlined] [2] macro expansion @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:74 [inlined] [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:1961 [inlined] [4] top-level scope @ ~/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:41 Test Summary: | Pass Fail Total Time Testing Method-of-moment estimates of speciation times | 1493 7 1500 5.2s RNG of the outermost testset: Random.Xoshiro(0x86309b45a99f5e16, 0x5080d0546e76d11f, 0xa69943c65240e056, 0x72922f5b7536f55a, 0xdab0aaa2c4c8e897) ERROR: LoadError: Some tests did not pass: 1493 passed, 7 failed, 0 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/PhyNEST/bC6xd/test/test_check.jl:40 in expression starting at /home/pkgeval/.julia/packages/PhyNEST/bC6xd/test/runtests.jl:11 Testing failed after 55.83s ERROR: LoadError: Package PhyNEST errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.14/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/v1.14/Pkg/src/Operations.jl:2946 [3] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2795 [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/v1.14/Pkg/src/API.jl:572 [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/v1.14/Pkg/src/API.jl:548 [6] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:172 [7] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:161 [8] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [9] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [inlined] [10] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:159 [11] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [12] include(mod::Module, _path::String) @ Base ./Base.jl:309 [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [14] _start() @ Base ./client.jl:577 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 998.69s: package has test failures