Package evaluation of Phylo on Julia 1.13.0-DEV.1162 (f0ece4ad9a*) started at 2025-09-19T03:24:24.910 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 9.82s ################################################################################ # Installation # Installing Phylo... Resolving package versions... Updating `~/.julia/environments/v1.13/Project.toml` [aea672f4] + Phylo v0.5.4 Updating `~/.julia/environments/v1.13/Manifest.toml` [66dad0bd] + AliasTables v1.1.3 [ec485272] + ArnoldiMethod v0.4.0 [15f4f7f2] + AutoHashEquals v2.2.0 [39de3d68] + AxisArrays v0.4.8 [34da2185] + Compat v4.18.0 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.8.0 ⌅ [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [e7dc6d0d] + DataValues v0.4.13 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.120 [ffbed154] + DocStringExtensions v0.9.5 [1a297f60] + FillArrays v1.14.0 [86223c79] + Graphs v1.13.1 [34004b35] + HypergeometricFunctions v0.3.28 [d25df0c9] + Inflate v0.1.5 [842dd82b] + InlineStrings v1.4.5 [8197267c] + IntervalSets v0.7.11 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.4 [c8e1da08] + IterTools v1.10.0 [1c8ee90f] + IterableTables v1.0.0 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 [b964fa9f] + LaTeXStrings v1.4.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [1914dd2f] + MacroTools v0.5.16 [e1d29d7a] + Missings v1.2.0 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.35 [fae87a5f] + ParserCombinator v2.2.1 [aea672f4] + Phylo v0.5.4 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.0 [08abe8d2] + PrettyTables v3.0.10 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [b3c3ace0] + RangeArrays v0.3.2 [3cdcf5f2] + RecipesBase v1.3.4 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [79098fc4] + Rmath v0.8.0 [91c51154] + SentinelArrays v1.4.8 [699a6c99] + SimpleTraits v0.9.5 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.5.1 [90137ffa] + StaticArrays v1.9.15 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.6 [4c63d2b9] + StatsFuns v1.5.0 [892a3eda] + StringManipulation v0.4.1 [3783bdb8] + TableTraits v1.0.1 [382cd787] + TableTraitsUtils v1.0.2 [bd369af6] + Tables v1.12.1 [0796e94c] + Tokenize v0.5.29 [1986cc42] + Unitful v1.25.0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+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 v1.12.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.13.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [de0858da] + Printf v1.11.0 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.13.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [8e850b90] + libblastrampoline_jll v5.13.1+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 4.89s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... ┌ Warning: Could not use exact versions of packages in manifest, re-resolving └ @ TestEnv ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/activate_set.jl:76 Precompiling package dependencies... Precompilation completed after 210.28s ################################################################################ # Testing # Testing Phylo Test Could not use exact versions of packages in manifest, re-resolving. Note: if you do not check your manifest file into source control, then you can probably ignore this message. However, if you do check your manifest file into source control, then you probably want to pass the `allow_reresolve = false` kwarg when calling the `Pkg.test` function. Updating `/tmp/jl_4nvPhK/Project.toml` [d7ba0133] + Git v1.5.0 ⌅ [98e50ef6] + JuliaFormatter v1.0.62 [aea672f4] + Phylo v0.5.4 [91a5bcdd] + Plots v1.40.20 [6f49c342] + RCall v0.14.9 [58378933] + ResearchSoftwareMetadata v0.1.5 ⌅ [1986cc42] ↓ Unitful v1.25.0 ⇒ v1.24.0 [56ddb016] ~ Logging ⇒ v1.11.0 [44cfe95a] ~ Pkg ⇒ v1.13.0 [8dfed614] ~ Test ⇒ v1.11.0 Updating `/tmp/jl_4nvPhK/Manifest.toml` [d1d4a3ce] + BitFlags v0.1.9 [00ebfdb7] + CSTParser v3.4.3 [324d7699] + CategoricalArrays v1.0.1 [944b1d66] + CodecZlib v0.7.8 [35d6a980] + ColorSchemes v3.31.0 [3da002f7] + ColorTypes v0.12.1 [c3611d14] + ColorVectorSpace v0.11.0 [5ae59095] + Colors v0.13.1 ⌅ [a80b9123] + CommonMark v0.8.16 [f0e56b4a] + ConcurrentUtilities v2.5.0 [8f4d0f93] + Conda v1.10.2 [d38c429a] + Contour v0.6.3 [8bb1440f] + DelimitedFiles v1.9.1 [460bff9d] + ExceptionUnwrapping v0.1.11 [c87230d0] + FFMPEG v0.4.4 [53c48c17] + FixedPointNumbers v0.8.5 [1fa38f19] + Format v1.3.7 [28b8d3ca] + GR v0.73.17 [d7ba0133] + Git v1.5.0 [c27321d9] + Glob v1.3.1 [42e2da0e] + Grisu v1.0.2 [cd3eb016] + HTTP v1.10.17 [1019f520] + JLFzf v0.1.11 [682c06a0] + JSON v0.21.4 ⌅ [98e50ef6] + JuliaFormatter v1.0.62 [23fbe1c1] + Latexify v0.16.10 [e6f89c97] + LoggingExtras v1.1.0 [739be429] + MbedTLS v1.1.9 [442fdcdd] + Measures v0.3.2 [77ba4419] + NaNMath v1.1.3 [4d8831e6] + OpenSSL v1.5.0 [69de0a69] + Parsers v2.8.3 [aea672f4] + Phylo v0.5.4 [ccf2f8ad] + PlotThemes v3.3.0 [995b91a9] + PlotUtils v1.4.3 [91a5bcdd] + Plots v1.40.20 [6f49c342] + RCall v0.14.9 [01d81517] + RecipesPipeline v0.6.12 [05181044] + RelocatableFolders v1.0.1 [58378933] + ResearchSoftwareMetadata v0.1.5 [6c6a2e73] + Scratch v1.3.0 [1277b4bf] + ShiftedArrays v2.0.0 [992d4aef] + Showoff v1.0.3 [777ac1f9] + SimpleBufferStream v1.2.0 [860ef19b] + StableRNGs v1.0.3 [3eaba693] + StatsModels v0.7.6 [69024149] + StringEncodings v0.3.7 [62fd8b95] + TensorCore v0.1.1 [3bb67fe8] + TranscodingStreams v0.11.3 [5c2747f8] + URIs v1.6.1 [1cfade01] + UnicodeFun v0.4.1 ⌅ [1986cc42] ↓ Unitful v1.25.0 ⇒ v1.24.0 [45397f5d] + UnitfulLatexify v1.7.0 [41fe7b60] + Unzip v0.2.0 [81def892] + VersionParsing v1.3.0 [1b915085] + WinReg v1.0.0 [ddb6d928] + YAML v0.4.14 [6e34b625] + Bzip2_jll v1.0.9+0 [83423d85] + Cairo_jll v1.18.5+0 [ee1fde0b] + Dbus_jll v1.16.2+0 [2702e6a9] + EpollShim_jll v0.0.20230411+1 [2e619515] + Expat_jll v2.7.1+0 [b22a6f82] + FFMPEG_jll v7.1.1+0 [a3f928ae] + Fontconfig_jll v2.17.1+0 [d7e528f0] + FreeType2_jll v2.13.4+0 [559328eb] + FriBidi_jll v1.0.17+0 [0656b61e] + GLFW_jll v3.4.0+2 [d2c73de3] + GR_jll v0.73.17+0 [b0724c58] + GettextRuntime_jll v0.22.4+0 [61579ee1] + Ghostscript_jll v9.55.1+0 [020c3dae] + Git_LFS_jll v3.7.0+0 [f8c6e375] + Git_jll v2.51.1+0 [7746bdde] + Glib_jll v2.86.0+0 [3b182d85] + Graphite2_jll v1.3.15+0 [2e76f6c2] + HarfBuzz_jll v8.5.1+0 [aacddb02] + JpegTurbo_jll v3.1.3+0 [c1c5ebd0] + LAME_jll v3.100.3+0 [88015f11] + LERC_jll v4.0.1+0 [1d63c593] + LLVMOpenMP_jll v18.1.8+0 [dd4b983a] + LZO_jll v2.10.3+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 v2.41.1+0 [89763e89] + Libtiff_jll v4.7.1+0 [38a345b3] + Libuuid_jll v2.41.1+0 [c8ffd9c3] + MbedTLS_jll v2.28.6+2 [e7412a2a] + Ogg_jll v1.3.6+0 [9bd350c2] + OpenSSH_jll v10.0.2+0 [91d4177d] + Opus_jll v1.5.2+0 [36c8627f] + Pango_jll v1.56.4+0 ⌅ [30392449] + Pixman_jll v0.44.2+0 [c0090381] + Qt6Base_jll v6.8.2+1 [629bc702] + Qt6Declarative_jll v6.8.2+1 [ce943373] + Qt6ShaderTools_jll v6.8.2+1 [e99dba38] + Qt6Wayland_jll v6.8.2+1 [a44049a8] + Vulkan_Loader_jll v1.3.243+0 [a2964d1f] + Wayland_jll v1.24.0+0 [ffd25f8a] + XZ_jll v5.8.1+0 [f67eecfb] + Xorg_libICE_jll v1.1.2+0 [c834827a] + Xorg_libSM_jll v1.2.6+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 [a3789734] + Xorg_libXdmcp_jll v1.1.6+0 [1082639a] + Xorg_libXext_jll v1.3.7+0 [d091e8ba] + Xorg_libXfixes_jll v6.0.1+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 [e920d4aa] + Xorg_xcb_util_cursor_jll v0.1.5+0 [12413925] + Xorg_xcb_util_image_jll v0.4.1+0 [2def613f] + Xorg_xcb_util_jll v0.4.1+0 [975044d2] + Xorg_xcb_util_keysyms_jll v0.4.1+0 [0d47668e] + Xorg_xcb_util_renderutil_jll v0.3.10+0 [c22f9ab0] + Xorg_xcb_util_wm_jll v0.4.2+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 [35ca27e7] + eudev_jll v3.2.14+0 [214eeab7] + fzf_jll v0.61.1+0 [a4ae2306] + libaom_jll v3.12.1+0 [0ac62f75] + libass_jll v0.17.4+0 [1183f4f0] + libdecor_jll v0.2.2+0 [2db6ffa8] + libevdev_jll v1.13.4+0 [f638f0a6] + libfdk_aac_jll v2.0.4+0 [36db933b] + libinput_jll v1.28.1+0 [b53b4c65] + libpng_jll v1.6.50+0 [f27f6e37] + libvorbis_jll v1.3.8+0 [009596ad] + mtdev_jll v1.1.7+0 [1270edf5] + x264_jll v10164.0.1+0 [dfaa095f] + x265_jll v4.1.0+0 [d8fb68d0] + xkbcommon_jll v1.9.2+0 [0dad84c5] + ArgTools v1.1.2 [f43a241f] + Downloads v1.7.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [56ddb016] ~ Logging ⇒ v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] ~ Pkg ⇒ v1.13.0 [a4e569a6] + Tar v1.10.0 [8dfed614] ~ Test ⇒ v1.11.0 [deac9b47] + LibCURL_jll v8.16.0+0 [e37daf67] + LibGit2_jll v1.9.1+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.9.9 [458c3c95] + OpenSSL_jll v3.5.2+0 [efcefdf7] + PCRE2_jll v10.46.0+0 [83775a58] + Zlib_jll v1.3.1+2 [3161d3a3] + Zstd_jll v1.5.7+1 [8e850ede] + nghttp2_jll v1.67.0+0 [3f19e933] + p7zip_jll v17.6.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Test Successfully re-resolved Status `/tmp/jl_4nvPhK/Project.toml` [39de3d68] AxisArrays v0.4.8 [a93c6f00] DataFrames v1.8.0 ⌅ [864edb3b] DataStructures v0.18.22 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.120 [d7ba0133] Git v1.5.0 [86223c79] Graphs v1.13.1 [1c8ee90f] IterableTables v1.0.0 ⌅ [98e50ef6] JuliaFormatter v1.0.62 [e1d29d7a] Missings v1.2.0 [fae87a5f] ParserCombinator v2.2.1 [aea672f4] Phylo v0.5.4 [91a5bcdd] Plots v1.40.20 [6f49c342] RCall v0.14.9 [3cdcf5f2] RecipesBase v1.3.4 [58378933] ResearchSoftwareMetadata v0.1.5 [699a6c99] SimpleTraits v0.9.5 [10745b16] Statistics v1.11.1 [0796e94c] Tokenize v0.5.29 ⌅ [1986cc42] Unitful v1.24.0 [56ddb016] Logging v1.11.0 [44cfe95a] Pkg v1.13.0 [de0858da] Printf v1.11.0 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_4nvPhK/Manifest.toml` [66dad0bd] AliasTables v1.1.3 [ec485272] ArnoldiMethod v0.4.0 [15f4f7f2] AutoHashEquals v2.2.0 [39de3d68] AxisArrays v0.4.8 [d1d4a3ce] BitFlags v0.1.9 [00ebfdb7] CSTParser v3.4.3 [324d7699] CategoricalArrays v1.0.1 [944b1d66] CodecZlib v0.7.8 [35d6a980] ColorSchemes v3.31.0 [3da002f7] ColorTypes v0.12.1 [c3611d14] ColorVectorSpace v0.11.0 [5ae59095] Colors v0.13.1 ⌅ [a80b9123] CommonMark v0.8.16 [34da2185] Compat v4.18.0 [f0e56b4a] ConcurrentUtilities v2.5.0 [8f4d0f93] Conda v1.10.2 [d38c429a] Contour v0.6.3 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.8.0 ⌅ [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [e7dc6d0d] DataValues v0.4.13 [8bb1440f] DelimitedFiles v1.9.1 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.120 [ffbed154] DocStringExtensions v0.9.5 [460bff9d] ExceptionUnwrapping v0.1.11 [c87230d0] FFMPEG v0.4.4 [1a297f60] FillArrays v1.14.0 [53c48c17] FixedPointNumbers v0.8.5 [1fa38f19] Format v1.3.7 [28b8d3ca] GR v0.73.17 [d7ba0133] Git v1.5.0 [c27321d9] Glob v1.3.1 [86223c79] Graphs v1.13.1 [42e2da0e] Grisu v1.0.2 [cd3eb016] HTTP v1.10.17 [34004b35] HypergeometricFunctions v0.3.28 [d25df0c9] Inflate v0.1.5 [842dd82b] InlineStrings v1.4.5 [8197267c] IntervalSets v0.7.11 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.4 [c8e1da08] IterTools v1.10.0 [1c8ee90f] IterableTables v1.0.0 [82899510] IteratorInterfaceExtensions v1.0.0 [1019f520] JLFzf v0.1.11 [692b3bcd] JLLWrappers v1.7.1 [682c06a0] JSON v0.21.4 ⌅ [98e50ef6] JuliaFormatter v1.0.62 [b964fa9f] LaTeXStrings v1.4.0 [23fbe1c1] Latexify v0.16.10 [2ab3a3ac] LogExpFunctions v0.3.29 [e6f89c97] LoggingExtras v1.1.0 [1914dd2f] MacroTools v0.5.16 [739be429] MbedTLS v1.1.9 [442fdcdd] Measures v0.3.2 [e1d29d7a] Missings v1.2.0 [77ba4419] NaNMath v1.1.3 [4d8831e6] OpenSSL v1.5.0 [bac558e1] OrderedCollections v1.8.1 [90014a1f] PDMats v0.11.35 [fae87a5f] ParserCombinator v2.2.1 [69de0a69] Parsers v2.8.3 [aea672f4] Phylo v0.5.4 [ccf2f8ad] PlotThemes v3.3.0 [995b91a9] PlotUtils v1.4.3 [91a5bcdd] Plots v1.40.20 [2dfb63ee] PooledArrays v1.4.3 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Testing Running tests... [ Info: Potentially missing tests: - Branch.jl - Node.jl [ Info: Running tests for files: = API.jl = Interface.jl = Iterators.jl = LinkTree.jl = Phylo.jl = RecursiveTree.jl = Tree.jl = TreeSet.jl = metrics.jl = newick.jl = nexus.jl = plot.jl = rand.jl = routes.jl = show.jl = trim.jl [ Info: Running tests... * Testing API.jl ... * Testing Interface.jl ... [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' ┌ Warning: Wrong number of roots for OneRoot tree (7) └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/LinkTree.jl:250 ┌ Warning: Wrong number of roots for OneRoot tree (2) └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/LinkTree.jl:250 ┌ Warning: Wrong number of roots for OneRoot tree (7) └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/RecursiveTree.jl:151 ┌ Warning: Wrong number of roots for OneRoot tree (2) └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/RecursiveTree.jl:151 * Testing Iterators.jl ... * Testing LinkTree.jl ... * Testing Phylo.jl ... * Testing RecursiveTree.jl ... ┌ Warning: Mismatch between branch id 7 and its connections └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/RecursiveTree.jl:221 ┌ Warning: Mismatch between branch id 7 and its connections └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/RecursiveTree.jl:229 ┌ Warning: Mismatch between branch id 8 and its connections └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/RecursiveTree.jl:229 ┌ Warning: Mismatch between node name Node 5 and its connections └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/RecursiveTree.jl:176 ┌ Warning: Mismatch between branch id 8 and its connections └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/RecursiveTree.jl:229 ┌ Warning: Mismatch between node name Dog and its connections └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/RecursiveTree.jl:184 * Testing Tree.jl ... ┌ Warning: Wrong number of roots for OneRoot tree (2) └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/Tree.jl:215 ┌ Warning: Wrong number of roots for OneRoot tree (2) └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/Tree.jl:215 ┌ Warning: LeafInfo names do not match actual leaves of tree └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/Tree.jl:202 ┌ Warning: Wrong number of roots for OneRoot tree (2) └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/Tree.jl:215 ┌ Warning: LeafInfo names do not match actual leaves of tree └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/Tree.jl:202 ┌ Warning: LeafInfo names do not match actual leaves of tree └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/Tree.jl:202 ┌ Warning: Wrong number of roots for OneRoot tree (3) └ @ Phylo ~/.julia/packages/Phylo/sQ0CW/src/Tree.jl:215 BinaryTree(): Test Failed at /home/pkgeval/.julia/packages/Phylo/sQ0CW/test/test_Tree.jl:115 Expression: all(a.data .== b.data) Evaluated: all(Bool[1, 1, 1, 1, 1, 1, 1, 1, 1, 1 … 1, 1, 0, 0, 0, 0, 0, 0, 1, 1]) Stacktrace: [1] top-level scope @ ~/.julia/packages/Phylo/sQ0CW/test/test_Tree.jl:71 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1952 [inlined] [3] macro expansion @ ~/.julia/packages/Phylo/sQ0CW/test/test_Tree.jl:115 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:751 [inlined] * Testing TreeSet.jl ... * Testing metrics.jl ... [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' * Testing newick.jl ... [ Info: Created a tree called 'Tree' [ Info: Created a tree called 'Tree' * Testing nexus.jl ... [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' [ Info: Created a tree called 'TREE1' [ Info: Created a tree called 'TREE2' * Testing plot.jl ... Precompiling packages... 23633.2 ms ✓ Plots → UnitfulExt 1 dependency successfully precompiled in 26 seconds. 180 already precompiled. Precompiling packages... 9906.2 ms ✓ Latexify → DataFramesExt 1 dependency successfully precompiled in 11 seconds. 44 already precompiled. * Testing rand.jl ... * Testing routes.jl ... * Testing show.jl ... ┌ Info: These tests only check that the show() commands └ do not give warnings or errors, not that they are correct! * Testing trim.jl ... [ Info: Running tests for extensions: = PhyloRCallExt.jl [ Info: Running extension tests... * Testing PhyloRCallExt.jl extension... ┌ Warning: RCall.jl: Loading required package: ape │ Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : │ there is no package called ‘ape’ └ @ RCall ~/.julia/packages/RCall/GLHIY/src/io.jl:171 Test Summary: | Pass Fail Total Time Phylo.jl | 1398 1 1399 7m07.7s t = API | 20 20 1.5s t = Interface | 390 390 1m42.5s t = Iterators | 74 74 11.5s t = LinkTree | 11 11 6.4s t = Phylo | 9 9 2.4s t = RecursiveTree | 71 71 12.3s t = Tree | 67 1 68 29.3s NamedBinaryTree() | 34 34 15.6s BinaryTree() | 33 1 34 13.6s t = TreeSet | 87 87 9.7s t = metrics | 6 6 2.0s t = newick | 136 136 38.3s t = nexus | 114 114 32.6s t = plot | 4 4 1m41.4s t = rand | 52 52 15.6s t = routes | 144 144 22.0s t = show | 202 202 13.3s t = trim | 10 10 11.0s t = PhyloRCallExt | 0 14.2s RNG of the outermost testset: Xoshiro(0x9951797c85a704f1, 0xb9d66be14dfba82b, 0xb170153285fd9556, 0xe90a07f7bdd1fd77, 0x9d4b5ee33e4bd661) ERROR: LoadError: Some tests did not pass: 1398 passed, 1 failed, 0 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/Phylo/sQ0CW/test/runtests.jl:10 Testing failed after 474.73s ERROR: LoadError: Package Phylo errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Types.jl:68 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2673 [3] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2522 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:538 [5] kwcall(::@NamedTuple{julia_args::Cmd, io::IOContext{IO}}, ::typeof(Pkg.API.test), ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:515 [6] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:168 [7] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:157 [8] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156 [9] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156 [inlined] [10] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:155 [11] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [12] include(mod::Module, _path::String) @ Base ./Base.jl:308 [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:330 [14] _start() @ Base ./client.jl:563 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 734.9s: package has test failures