Package evaluation of MCPhylo on Julia 1.10.8 (92f03a4775*) started at 2025-02-25T18:15:41.186 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 5.23s ################################################################################ # Installation # Installing MCPhylo... Resolving package versions... Installed FFMPEG ─ v0.2.4 Updating `~/.julia/environments/v1.10/Project.toml` [af0ac7d2] + MCPhylo v0.9.5 Updating `~/.julia/environments/v1.10/Manifest.toml` [621f4979] + AbstractFFTs v1.5.0 [1520ce14] + AbstractTrees v0.4.5 [7d9f7c33] + Accessors v0.1.41 [79e6a3ab] + Adapt v4.2.0 [66dad0bd] + AliasTables v1.1.3 [dce04be8] + ArgCheck v2.4.0 ⌅ [ec485272] + ArnoldiMethod v0.1.0 [7d9fca2a] + Arpack v0.5.4 [4fba245c] + ArrayInterface v7.18.0 [a9b6321e] + Atomix v1.1.0 [13072b0f] + AxisAlgorithms v1.1.0 ⌅ [76274a88] + Bijectors v0.10.8 [b99e7846] + BinaryProvider v0.5.10 [d1d4a3ce] + BitFlags v0.1.9 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [fa961155] + CEnum v0.5.0 [2a0fbf3d] + CPUSummary v0.2.6 [082447d4] + ChainRules v1.72.2 [d360d2e6] + ChainRulesCore v1.25.1 [9e997f8a] + ChangesOfVariables v0.1.9 [fb6a15b2] + CloseOpenIntervals v0.1.13 [aaaa29a8] + Clustering v0.15.8 [944b1d66] + CodecZlib v0.7.8 [35d6a980] + ColorSchemes v3.29.0 [3da002f7] + ColorTypes v0.12.0 [c3611d14] + ColorVectorSpace v0.11.0 [5ae59095] + Colors v0.13.0 [38540f10] + CommonSolve v0.2.4 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.16.0 [a33af91c] + CompositionsBase v0.1.2 [f0e56b4a] + ConcurrentUtilities v2.5.0 [187b0558] + ConstructionBase v1.5.8 [d38c429a] + Contour v0.6.3 [adafc99b] + CpuId v0.3.1 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.18.20 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.117 [ffbed154] + DocStringExtensions v0.9.3 [460bff9d] + ExceptionUnwrapping v0.1.11 ⌃ [c87230d0] + FFMPEG v0.2.4 [7a1cc6ca] + FFTW v1.8.1 [1a297f60] + FillArrays v1.13.0 [6a86dc24] + FiniteDiff v2.27.0 [53c48c17] + FixedPointNumbers v0.8.5 [1fa38f19] + Format v1.3.7 [f6369f11] + ForwardDiff v0.10.38 [069b7b12] + FunctionWrappers v1.1.3 ⌅ [d9f16b24] + Functors v0.3.0 [0c68f7d7] + GPUArrays v11.2.2 [46192b85] + GPUArraysCore v0.2.0 [28b8d3ca] + GR v0.73.13 [42e2da0e] + Grisu v1.0.2 [cd3eb016] + HTTP v1.10.15 [076d061b] + HashArrayMappedTries v0.2.0 [3e5b6fbb] + HostCPUFeatures v0.1.17 [34004b35] + HypergeometricFunctions v0.3.27 [7869d1d1] + IRTools v0.4.14 [615f187c] + IfElse v0.1.1 [d25df0c9] + Inflate v0.1.5 [a98d9a8b] + Interpolations v0.15.1 [3587e190] + InverseFunctions v0.1.17 [92d709cd] + IrrationalConstants v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [1019f520] + JLFzf v0.1.9 [692b3bcd] + JLLWrappers v1.7.0 [682c06a0] + JSON v0.21.4 [63c18a36] + KernelAbstractions v0.9.34 [5ab0869b] + KernelDensity v0.6.9 [929cbde3] + LLVM v9.2.0 [b964fa9f] + LaTeXStrings v1.4.0 [23fbe1c1] + Latexify v0.16.6 [10f19ff3] + LayoutPointers v0.1.17 [093fc24a] + LightGraphs v1.3.5 [2ab3a3ac] + LogExpFunctions v0.3.29 [e6f89c97] + LoggingExtras v1.1.0 [bdcacae8] + LoopVectorization v0.12.171 [af0ac7d2] + MCPhylo v0.9.5 [e53f0ae0] + MCPhyloTree v1.1.7 [1914dd2f] + MacroTools v0.5.15 [d125e4d3] + ManualMemory v0.1.8 [dbb5928d] + MappedArrays v0.4.2 [739be429] + MbedTLS v1.1.9 [442fdcdd] + Measures v0.3.2 [e1d29d7a] + Missings v1.2.0 [6f286f6a] + MultivariateStats v0.10.3 [77ba4419] + NaNMath v1.1.2 [b8a86587] + NearestNeighbors v0.4.21 [510215fc] + Observables v0.5.5 [6fe1bfb0] + OffsetArrays v1.15.0 [4d8831e6] + OpenSSL v1.4.3 [bac558e1] + OrderedCollections v1.8.0 [90014a1f] + PDMats v0.11.32 [69de0a69] + Parsers v2.8.1 [b98c9c47] + Pipe v1.3.0 [ccf2f8ad] + PlotThemes v3.3.0 [995b91a9] + PlotUtils v1.4.3 ⌃ [91a5bcdd] + Plots v1.40.1 [1d0040c9] + PolyesterWeave v0.2.2 [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.4.3 [92933f4c] + ProgressMeter v1.10.2 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [c84ed2f1] + Ratios v0.4.5 [c1ae055f] + RealDot v0.1.0 [3cdcf5f2] + RecipesBase v1.3.4 [01d81517] + RecipesPipeline v0.6.12 [189a3867] + Reexport v1.2.2 [05181044] + RelocatableFolders v1.0.1 [ae029012] + Requires v1.3.0 [37e2e3b7] + ReverseDiff v1.15.3 [79098fc4] + Rmath v0.8.0 [f2b01f46] + Roots v2.2.5 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.43 [7e506255] + ScopedValues v1.3.0 [6c6a2e73] + Scratch v1.2.1 [91c51154] + SentinelArrays v1.4.8 [efcf1570] + Setfield v1.1.1 [992d4aef] + Showoff v1.0.3 [777ac1f9] + SimpleBufferStream v1.2.0 [699a6c99] + SimpleTraits v0.9.4 [a2af1166] + SortingAlgorithms v1.2.1 [dc90abb0] + SparseInverseSubset v0.1.2 [276daf66] + SpecialFunctions v2.5.0 [860ef19b] + StableRNGs v1.0.2 [aedffcd0] + Static v1.1.1 [0d7ed370] + StaticArrayInterface v1.8.0 [90137ffa] + StaticArrays v1.9.12 [1e83bf80] + StaticArraysCore v1.4.3 [82ae8749] + StatsAPI v1.7.0 ⌅ [2913bbd2] + StatsBase v0.33.21 [4c63d2b9] + StatsFuns v1.3.2 [f3b207a7] + StatsPlots v0.15.7 [09ab397b] + StructArrays v0.7.0 [ab02a1b2] + TableOperations v1.2.0 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.0 [62fd8b95] + TensorCore v0.1.1 [8290d209] + ThreadingUtilities v0.5.2 [3bb67fe8] + TranscodingStreams v0.11.3 [5c2747f8] + URIs v1.5.1 [3a884ed6] + UnPack v1.0.2 [1cfade01] + UnicodeFun v0.4.1 [1986cc42] + Unitful v1.22.0 [45397f5d] + UnitfulLatexify v1.6.4 [013be700] + UnsafeAtomics v0.3.0 [41fe7b60] + Unzip v0.2.0 [3d5dd08c] + VectorizationBase v0.21.71 [cc8bc4a8] + Widgets v0.6.7 [efce3f68] + WoodburyMatrices v1.0.0 ⌅ [e88e6eb3] + Zygote v0.6.75 [700de1a5] + ZygoteRules v0.2.7 ⌅ [68821587] + Arpack_jll v3.5.1+1 [6e34b625] + Bzip2_jll v1.0.9+0 [83423d85] + Cairo_jll v1.18.2+1 [ee1fde0b] + Dbus_jll v1.14.10+0 [2702e6a9] + EpollShim_jll v0.0.20230411+1 [2e619515] + Expat_jll v2.6.5+0 [b22a6f82] + FFMPEG_jll v7.1.0+0 [f5851436] + FFTW_jll v3.3.10+3 [a3f928ae] + Fontconfig_jll v2.15.0+0 [d7e528f0] + FreeType2_jll v2.13.3+1 [559328eb] + FriBidi_jll v1.0.16+0 [0656b61e] + GLFW_jll v3.4.0+2 [d2c73de3] + GR_jll v0.73.13+0 [78b55507] + Gettext_jll v0.21.0+0 [7746bdde] + Glib_jll v2.82.4+0 [3b182d85] + Graphite2_jll v1.3.14+1 [2e76f6c2] + HarfBuzz_jll v8.5.0+0 [1d5cc7b8] + IntelOpenMP_jll v2025.0.4+0 [aacddb02] + JpegTurbo_jll v3.1.1+0 [c1c5ebd0] + LAME_jll v3.100.2+0 [88015f11] + LERC_jll v4.0.1+0 [dad2f222] + LLVMExtra_jll v0.0.35+0 [1d63c593] + LLVMOpenMP_jll v18.1.7+0 [dd4b983a] + LZO_jll v2.10.3+0 ⌅ [e9f186c6] + Libffi_jll v3.2.2+2 [d4300ac3] + Libgcrypt_jll v1.11.0+0 [7e76a0d4] + Libglvnd_jll v1.7.0+0 [7add5ba3] + Libgpg_error_jll v1.51.1+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [4b2f31a3] + Libmount_jll v2.40.3+0 [89763e89] + Libtiff_jll v4.7.1+0 [38a345b3] + Libuuid_jll v2.40.3+0 [856f044c] + MKL_jll v2025.0.1+1 [e7412a2a] + Ogg_jll v1.3.5+1 [458c3c95] + OpenSSL_jll v3.0.16+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [91d4177d] + Opus_jll v1.3.3+0 [36c8627f] + Pango_jll v1.56.1+0 ⌅ [30392449] + Pixman_jll v0.43.4+0 ⌅ [c0090381] + Qt6Base_jll v6.7.1+1 ⌅ [629bc702] + Qt6Declarative_jll v6.7.1+2 ⌅ [ce943373] + Qt6ShaderTools_jll v6.7.1+1 ⌃ [e99dba38] + Qt6Wayland_jll v6.7.1+1 [f50d1b31] + Rmath_jll v0.5.1+0 [a44049a8] + Vulkan_Loader_jll v1.3.243+0 [a2964d1f] + Wayland_jll v1.21.0+2 [2381bf8a] + Wayland_protocols_jll v1.36.0+0 [02c8fc9c] + XML2_jll v2.13.6+1 [aed1982a] + XSLT_jll v1.1.42+0 [ffd25f8a] + XZ_jll v5.6.4+1 [f67eecfb] + Xorg_libICE_jll v1.1.1+0 [c834827a] + Xorg_libSM_jll v1.2.4+0 [4f6342f7] + Xorg_libX11_jll v1.8.6+3 [0c0b7dd1] + Xorg_libXau_jll v1.0.12+0 [935fb764] + Xorg_libXcursor_jll v1.2.3+0 [a3789734] + Xorg_libXdmcp_jll v1.1.5+0 [1082639a] + Xorg_libXext_jll v1.3.6+3 [d091e8ba] + Xorg_libXfixes_jll v6.0.0+0 [a51aa0fd] + Xorg_libXi_jll v1.8.2+0 [d1454406] + Xorg_libXinerama_jll v1.1.5+0 [ec84b674] + Xorg_libXrandr_jll v1.5.4+0 [ea2f1a96] + Xorg_libXrender_jll v0.9.11+1 [14d82f49] + Xorg_libpthread_stubs_jll v0.1.2+0 [c7cfdc94] + Xorg_libxcb_jll v1.17.0+3 [cc61e674] + Xorg_libxkbfile_jll v1.1.2+1 [e920d4aa] + Xorg_xcb_util_cursor_jll v0.1.4+0 [12413925] + Xorg_xcb_util_image_jll v0.4.0+1 [2def613f] + Xorg_xcb_util_jll v0.4.0+1 [975044d2] + Xorg_xcb_util_keysyms_jll v0.4.0+1 [0d47668e] + Xorg_xcb_util_renderutil_jll v0.3.9+1 [c22f9ab0] + Xorg_xcb_util_wm_jll v0.4.1+1 [35661453] + Xorg_xkbcomp_jll v1.4.6+1 [33bec58e] + Xorg_xkeyboard_config_jll v2.39.0+0 [c5fb5394] + Xorg_xtrans_jll v1.5.1+0 [3161d3a3] + Zstd_jll v1.5.7+1 [35ca27e7] + eudev_jll v3.2.9+0 [214eeab7] + fzf_jll v0.56.3+0 [1a1c6b14] + gperf_jll v3.1.1+1 [a4ae2306] + libaom_jll v3.11.0+0 [0ac62f75] + libass_jll v0.15.2+0 [1183f4f0] + libdecor_jll v0.2.2+0 [2db6ffa8] + libevdev_jll v1.11.0+0 [f638f0a6] + libfdk_aac_jll v2.0.3+0 [36db933b] + libinput_jll v1.18.0+0 [b53b4c65] + libpng_jll v1.6.46+0 [f27f6e37] + libvorbis_jll v1.3.7+2 [009596ad] + mtdev_jll v1.1.6+0 [1317d2d5] + oneTBB_jll v2022.0.0+0 [1270edf5] + x264_jll v10164.0.1+0 [dfaa095f] + x265_jll v4.1.0+0 [d8fb68d0] + xkbcommon_jll v1.4.1+2 [0dad84c5] + ArgTools v1.1.1 [56f22d72] + Artifacts [2a0f44e3] + Base64 [ade2ca70] + Dates [8ba89e20] + Distributed [f43a241f] + Downloads v1.6.0 [7b1f6079] + FileWatching [9fa8497b] + Future [b77e0a4c] + InteractiveUtils [4af54fe1] + LazyArtifacts [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 [8f399da3] + Libdl [37e2e46d] + LinearAlgebra [56ddb016] + Logging [d6f4376e] + Markdown [a63ad114] + Mmap [ca575930] + NetworkOptions v1.2.0 [44cfe95a] + Pkg v1.10.0 [de0858da] + Printf [3fa0cd96] + REPL [9a3f8284] + Random [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization [1a1011a3] + SharedArrays [6462fe0b] + Sockets [2f01184e] + SparseArrays v1.10.0 [10745b16] + Statistics v1.10.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test [cf7118a7] + UUIDs [4ec0a83e] + Unicode [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] + LibCURL_jll v8.4.0+0 [e37daf67] + LibGit2_jll v1.6.4+0 [29816b5a] + LibSSH2_jll v1.11.0+1 [c8ffd9c3] + MbedTLS_jll v2.28.2+1 [14a3606d] + MozillaCACerts_jll v2023.1.10 [4536629a] + OpenBLAS_jll v0.3.23+4 [05823500] + OpenLibm_jll v0.8.1+4 [efcefdf7] + PCRE2_jll v10.42.0+1 [bea87d4a] + SuiteSparse_jll v7.2.1+1 [83775a58] + Zlib_jll v1.2.13+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 [8e850ede] + nghttp2_jll v1.52.0+1 [3f19e933] + p7zip_jll v17.4.0+2 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` Building FFMPEG → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/9143266ba77d3313a4cf61d8333a1970e8c5d8b6/build.log` Installation completed after 45.76s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 457.24s ################################################################################ # Testing # Testing MCPhylo Status `/tmp/jl_6XSjlA/Project.toml` ⌅ [76274a88] Bijectors v0.10.8 [864edb3b] DataStructures v0.18.20 [8bb1440f] DelimitedFiles v1.9.1 [163ba53b] DiffResults v1.1.0 [31c24e10] Distributions v0.25.117 [6a86dc24] FiniteDiff v2.27.0 [f6369f11] ForwardDiff v0.10.38 [615f187c] IfElse v0.1.1 [093fc24a] LightGraphs v1.3.5 [2ab3a3ac] LogExpFunctions v0.3.29 [bdcacae8] LoopVectorization v0.12.171 [af0ac7d2] MCPhylo v0.9.5 [e53f0ae0] MCPhyloTree v1.1.7 [90014a1f] PDMats v0.11.32 ⌃ [91a5bcdd] Plots v1.40.1 [92933f4c] ProgressMeter v1.10.2 [3cdcf5f2] RecipesBase v1.3.4 [189a3867] Reexport v1.2.2 [37e2e3b7] ReverseDiff v1.15.3 [992d4aef] Showoff v1.0.3 [276daf66] SpecialFunctions v2.5.0 ⌅ [2913bbd2] StatsBase v0.33.21 [4c63d2b9] StatsFuns v1.3.2 [f3b207a7] StatsPlots v0.15.7 ⌅ [e88e6eb3] Zygote v0.6.75 [8ba89e20] Distributed [37e2e46d] LinearAlgebra [d6f4376e] Markdown [de0858da] Printf [9a3f8284] Random [9e88b42a] Serialization [2f01184e] SparseArrays v1.10.0 [10745b16] Statistics v1.10.0 [8dfed614] Test Status `/tmp/jl_6XSjlA/Manifest.toml` [621f4979] AbstractFFTs v1.5.0 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.41 [79e6a3ab] Adapt v4.2.0 [66dad0bd] AliasTables v1.1.3 [dce04be8] ArgCheck v2.4.0 ⌅ [ec485272] ArnoldiMethod v0.1.0 [7d9fca2a] Arpack v0.5.4 [4fba245c] ArrayInterface v7.18.0 [a9b6321e] Atomix v1.1.0 [13072b0f] AxisAlgorithms v1.1.0 ⌅ [76274a88] Bijectors v0.10.8 [b99e7846] BinaryProvider v0.5.10 [d1d4a3ce] BitFlags v0.1.9 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [fa961155] CEnum v0.5.0 [2a0fbf3d] CPUSummary v0.2.6 [082447d4] ChainRules v1.72.2 [d360d2e6] ChainRulesCore v1.25.1 [9e997f8a] ChangesOfVariables v0.1.9 [fb6a15b2] CloseOpenIntervals v0.1.13 [aaaa29a8] Clustering v0.15.8 [944b1d66] CodecZlib v0.7.8 [35d6a980] ColorSchemes v3.29.0 [3da002f7] ColorTypes v0.12.0 [c3611d14] 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Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. Testing Running tests... Running tests: >>> Testing distributions/phylodist.jl ┌ Warning: Keyword datatype not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 ┌ Warning: Keyword interleave not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 >>> Testing distributions/treeconstraints.jl ┌ Warning: Skipped line with unsupported constraint type 'AbstractString["test", ""][1]'. │ Allowed types are 'mono', 'not_mono' and 'exc' └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/distributions/TreeConstraints.jl:162 ┌ Warning: Some trivial 'mono' / 'not_mono' type constraints were removed. │ A valid 'mono' / 'not_mono' constraint needs at least 2 elements. └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/distributions/TreeConstraints.jl:31 ┌ Warning: Some trivial 'exc' type constraints were removed. │ A non-trivial 'exc' constraints needs at least 2 elements in the first, and at least 1 in the second part of the tuple └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/distributions/TreeConstraints.jl:35 >>> Testing distributions/treedists.jl >>> Testing likelihood/rates.jl >>> Testing likelihood/substitutionmodels.jl >>> Testing likelihood/felsenstein.jl ┌ Warning: Keyword datatype not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 ┌ Warning: Keyword interleave not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 ┌ Warning: Keyword datatype not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 ┌ Warning: Keyword interleave not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 >>> Testing mcmc/discretediag.jl >>> Testing mcmc/modelbuilding.jl >>> Testing model/dependent.jl >>> Testing model/variate.jl >>> Testing output/asdsf.jl >>> Testing output/chains.jl >>> Testing output/gelman.jl >>> Testing parser/csv.jl >>> Testing parser/nexus.jl ┌ Warning: Keyword datatype not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 ┌ Warning: Keyword interleave not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 ┌ Warning: Keyword datatype not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 ┌ Warning: Keyword interleave not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 >>> Testing parser/parser.jl ┌ Warning: Keyword datatype not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 ┌ Warning: Keyword interleave not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 >>> Testing samplers/sampler_construction.jl >>> Testing samplers/linear_model_uvp.jl >>> Testing samplers/linear_model_mvp.jl >>> Testing samplers/tree_samplers.jl ┌ Warning: Keyword datatype not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 ┌ Warning: Keyword interleave not understood, will be ignored └ @ MCPhylo ~/.julia/packages/MCPhylo/KWPlY/src/Parser/ParseNexus.jl:92 ┌ Warning: `Progress(n::Integer, desc::AbstractString, offset::Integer = 0; kwargs...)` is deprecated, use `Progress(n; desc = desc, offset = offset, kwargs...)` instead. │ caller = ip:0x0 └ @ Core :-1 ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 424 running 1 of 1 signal (10): User defined signal 1 jl_lookup_generic_ at /source/src/gf.c:2994 [inlined] ijl_apply_generic at /source/src/gf.c:3073 iterate at ./range.jl:903 [inlined] Pullback at /home/pkgeval/.julia/packages/Zygote/TWpme/src/compiler/interface2.jl:0 unknown function (ip: 0x7698ffb72b02) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 internal_logpdf at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/Likelihood/Prior.jl:23 [inlined] Pullback at /home/pkgeval/.julia/packages/Zygote/TWpme/src/compiler/interface2.jl:0 #352 at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/Likelihood/Prior.jl:44 [inlined] Pullback at /home/pkgeval/.julia/packages/Zygote/TWpme/src/compiler/interface2.jl:0 #78 at /home/pkgeval/.julia/packages/Zygote/TWpme/src/compiler/interface.jl:91 unknown function (ip: 0x7698ffb6ee59) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 withgradient at /home/pkgeval/.julia/packages/Zygote/TWpme/src/compiler/interface.jl:213 gradlogpdf at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/Likelihood/Prior.jl:46 [inlined] gradlogpdf at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/distributions/TreeDistribution.jl:113 gradlogpdf at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/dependent.jl:552 [inlined] gradlogpdf at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/dependent.jl:552 unknown function (ip: 0x7698fda76979) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 logpdfgrad! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/samplers/sampler.jl:187 logpdfgrad! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/samplers/sampler.jl:94 [inlined] grlpdf at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/simulation.jl:345 [inlined] refraction! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/samplers/tree_hamiltonian/refraction.jl:22 #sample!#317 at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/samplers/pphmc.jl:104 sample! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/samplers/pphmc.jl:75 [inlined] sample! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/simulation.jl:347 unknown function (ip: 0x7698fdacf0d9) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 sample! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/simulation.jl:328 mcmc_worker! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/mcmc.jl:231 mcmc_worker! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/mcmc.jl:194 [inlined] mcmc_or_convergence at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/utils.jl:219 [inlined] iterate at ./generator.jl:47 [inlined] collect_to! at ./array.jl:892 collect_to_with_first! at ./array.jl:870 [inlined] _collect at ./array.jl:864 collect_similar at ./array.jl:763 unknown function (ip: 0x7698fdbac6d9) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 map at ./abstractarray.jl:3286 pmap2 at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/utils.jl:93 [inlined] macro expansion at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/utils.jl:179 [inlined] macro expansion at ./task.jl:486 [inlined] assign_mcmc_work at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/utils.jl:172 #mcmc_master!#73 at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/mcmc.jl:166 mcmc_master! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/mcmc.jl:135 [inlined] #mcmc#72 at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/mcmc.jl:123 mcmc at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/mcmc.jl:75 unknown function (ip: 0x7698fda5d93d) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_body at /source/src/interpreter.c:489 eval_body at /source/src/interpreter.c:544 eval_body at /source/src/interpreter.c:544 jl_interpret_toplevel_thunk at /source/src/interpreter.c:775 jl_toplevel_eval_flex at /source/src/toplevel.c:934 jl_toplevel_eval_flex at /source/src/toplevel.c:877 ijl_toplevel_eval_in at /source/src/toplevel.c:985 eval at ./boot.jl:385 [inlined] include_string at ./loading.jl:2146 _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 _include at ./loading.jl:2206 include at ./client.jl:494 [inlined] macro expansion at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/test/utils.jl:5 [inlined] macro expansion at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/test/runtests.jl:94 [inlined] macro expansion at /source/usr/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] macro expansion at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/test/runtests.jl:93 [inlined] macro expansion at /source/usr/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] top-level scope at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/test/runtests.jl:56 _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_invoke at /source/src/gf.c:2902 jl_toplevel_eval_flex at /source/src/toplevel.c:925 jl_toplevel_eval_flex at /source/src/toplevel.c:877 ijl_toplevel_eval_in at /source/src/toplevel.c:985 eval at ./boot.jl:385 [inlined] include_string at ./loading.jl:2146 _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 _include at ./loading.jl:2206 include at ./client.jl:494 unknown function (ip: 0x76991a47f125) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:635 jl_interpret_toplevel_thunk at /source/src/interpreter.c:775 jl_toplevel_eval_flex at /source/src/toplevel.c:934 jl_toplevel_eval_flex at /source/src/toplevel.c:877 ijl_toplevel_eval_in at /source/src/toplevel.c:985 eval at ./boot.jl:385 [inlined] exec_options at ./client.jl:296 _start at ./client.jl:557 jfptr__start_82985.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] true_main at /source/src/jlapi.c:582 jl_repl_entrypoint at /source/src/jlapi.c:731 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x76991b34a249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) unknown function (ip: (nil)) ============================================================== Profile collected. A report will print at the next yield point ============================================================== WARNING: using deprecated binding Distributions.MatrixReshaped in Bijectors. , use Distributions.ReshapedDistribution{2, S, D} where D<:Distributions.Distribution{Distributions.ArrayLikeVariate{1}, S} where S<:Distributions.ValueSupport instead. WARNING: using deprecated binding Bijectors.MatrixReshaped in MCPhylo. , use Distributions.ReshapedDistribution{2, S, D} where D<:Distributions.Distribution{Distributions.ArrayLikeVariate{1}, S} where S<:Distributions.ValueSupport instead. WARNING: both Plots and LinearAlgebra export "rotate!"; uses of it in module MCPhylo must be qualified WARNING: both DataStructures and MCPhyloTree export "find_root"; uses of it in module MCPhylo must be qualified ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 1 running 0 of 1 signal (10): User defined signal 1 epoll_wait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv__io_poll at /workspace/srcdir/libuv/src/unix/epoll.c:236 uv_run at /workspace/srcdir/libuv/src/unix/core.c:400 ijl_task_get_next at /source/src/partr.c:478 poptask at ./task.jl:999 wait at ./task.jl:1008 #wait#645 at ./condition.jl:130 wait at ./condition.jl:125 [inlined] wait at ./process.jl:661 ┌ Warning: There were no samples collected in one or more groups. │ This may be due to idle threads, or you may need to run your │ program longer (perhaps by running it multiple times), │ or adjust the delay between samples with `Profile.init()`. └ @ Profile /opt/julia/share/julia/stdlib/v1.10/Profile/src/Profile.jl:1225 jfptr_wait_74890.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 subprocess_handler at /source/usr/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:2048 #130 at /source/usr/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1992 withenv at ./env.jl:257 #117 at /source/usr/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1840 with_temp_env at /source/usr/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1721 #115 at /source/usr/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1810 #mktempdir#24 at ./file.jl:766 unknown function (ip: 0x792af24631f0) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 mktempdir at ./file.jl:762 mktempdir at ./file.jl:762 [inlined] #sandbox#114 at /source/usr/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1768 sandbox at /source/usr/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1759 unknown function (ip: 0x792af245bc75) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 #test#127 at /source/usr/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1971 test at /source/usr/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1915 [inlined] #test#146 at /source/usr/share/julia/stdlib/v1.10/Pkg/src/API.jl:444 test at /source/usr/share/julia/stdlib/v1.10/Pkg/src/API.jl:423 unknown function (ip: 0x792af245baa0) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 #test#77 at /source/usr/share/julia/stdlib/v1.10/Pkg/src/API.jl:159 unknown function (ip: 0x792af245b360) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 test at /source/usr/share/julia/stdlib/v1.10/Pkg/src/API.jl:148 #test#75 at /source/usr/share/julia/stdlib/v1.10/Pkg/src/API.jl:147 [inlined] test at /source/usr/share/julia/stdlib/v1.10/Pkg/src/API.jl:147 [inlined] #test#74 at /source/usr/share/julia/stdlib/v1.10/Pkg/src/API.jl:146 [inlined] test at /source/usr/share/julia/stdlib/v1.10/Pkg/src/API.jl:146 unknown function (ip: 0x792af2457a59) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:635 eval_body at /source/src/interpreter.c:544 eval_body at /source/src/interpreter.c:544 jl_interpret_toplevel_thunk at /source/src/interpreter.c:775 jl_toplevel_eval_flex at /source/src/toplevel.c:934 jl_toplevel_eval_flex at /source/src/toplevel.c:877 ijl_toplevel_eval_in at /source/src/toplevel.c:985 eval at ./boot.jl:385 [inlined] include_string at ./loading.jl:2146 _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 _include at ./loading.jl:2206 include at ./Base.jl:495 Overhead ╎ [+additional indent] Count File:Line; Function ========================================================= Thread 1 Task 0x000076990dc00010 Total snapshots: 90. Utilization: 100% ╎89 @Base/client.jl:557; _start() ╎ 89 @Base/client.jl:296; exec_options(opts::Base.JLOptions) ╎ 89 @Base/boot.jl:385; eval ╎ 89 @Base/client.jl:494; include(fname::String) ╎ 89 @Base/loading.jl:2206; _include(mapexpr::Function, mod::Module, _path… ╎ 89 @Base/loading.jl:2146; include_string(mapexpr::typeof(identity), mod… ╎ ╎ 89 @Base/boot.jl:385; eval ╎ ╎ 89 …hylo/test/runtests.jl:56; top-level scope ╎ ╎ 89 @Test/src/Test.jl:1577; macro expansion ╎ ╎ 89 …ylo/test/runtests.jl:93; macro expansion ╎ ╎ 89 @Test/src/Test.jl:1577; macro expansion ╎ ╎ ╎ 89 …lo/test/runtests.jl:94; macro expansion ╎ ╎ ╎ 89 …Phylo/test/utils.jl:5; macro expansion ╎ ╎ ╎ 89 @Base/client.jl:494; include ╎ ╎ ╎ 89 @Base/loading.jl:2206; _include(mapexpr::Function, mod::Mod… ╎ ╎ ╎ 89 @Base/loading.jl:2146; include_string(mapexpr::typeof(iden… ╎ ╎ ╎ ╎ 89 @Base/boot.jl:385; eval ╎ ╎ ╎ ╎ 89 …src/model/mcmc.jl:75; kwcall(::@NamedTuple{burnin::Int6… ╎ ╎ ╎ ╎ 89 …rc/model/mcmc.jl:123; mcmc(m::Model, inputs::Dict{Symb… ╎ ╎ ╎ ╎ 89 …c/model/mcmc.jl:135; mcmc_master! ╎ ╎ ╎ ╎ 89 …c/model/mcmc.jl:166; mcmc_master!(m::Model, window::… ╎ ╎ ╎ ╎ ╎ 89 …lo/src/utils.jl:172; assign_mcmc_work(f::Function, … ╎ ╎ ╎ ╎ ╎ 89 @Base/task.jl:486; macro expansion ╎ ╎ ╎ ╎ ╎ 89 …o/src/utils.jl:179; macro expansion ╎ ╎ ╎ ╎ ╎ 89 …o/src/utils.jl:93; pmap2 ╎ ╎ ╎ ╎ ╎ 89 …tractarray.jl:3286; map(f::Function, A::Vector{… ╎ ╎ ╎ ╎ ╎ ╎ 89 @Base/array.jl:763; collect_similar(cont::Vecto… ╎ ╎ ╎ ╎ ╎ ╎ 89 …ase/array.jl:864; _collect(c::Vector{Vector{A… ╎ ╎ ╎ ╎ ╎ ╎ 89 …ase/array.jl:870; collect_to_with_first! ╎ ╎ ╎ ╎ ╎ ╎ 89 …se/array.jl:892; collect_to!(dest::Vector{T… ╎ ╎ ╎ ╎ ╎ ╎ 89 …enerator.jl:47; iterate ╎ ╎ ╎ ╎ ╎ ╎ ╎ 89 …rc/utils.jl:219; mcmc_or_convergence ╎ ╎ ╎ ╎ ╎ ╎ ╎ 89 …del/mcmc.jl:194; mcmc_worker! ╎ ╎ ╎ ╎ ╎ ╎ ╎ 88 …del/mcmc.jl:231; mcmc_worker!(args::Vec… ╎ ╎ ╎ ╎ ╎ ╎ ╎ 88 …mulation.jl:328; sample!(m::Model) ╎ ╎ ╎ ╎ ╎ ╎ ╎ 88 …mulation.jl:347; sample!(s::Sampler{M… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 83 …rs/pphmc.jl:75; sample! ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 12 …rs/pphmc.jl:92; sample!(v::Sampler{… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 12 …mulation.jl:345; grlpdf ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 12 …/sampler.jl:94; logpdfgrad! ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 10 …/sampler.jl:184; logpdfgrad!(::T… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +1 10 …mulation.jl:220; gradlogpdf(m::M… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +2 10 …ependent.jl:548; gradlogpdf(s::S… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +3 10 …ependent.jl:556; gradlogpdf ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +4 10 …onstruct.jl:157; gradlogpdf_sub ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +5 10 …hylodist.jl:136; gradlogpdf(d::P… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +6 1 …tor_Node.jl:11; FelsensteinFunct… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 1 …tor_Node.jl:92; FelsensteinFunct… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 1 …se/views.jl:147; maybeview ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 1 …raversal.jl:7; getindex ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 1 …se/array.jl:844; collect(itr::Ba… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +11 1 …se/array.jl:870; collect_to_with… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +12 1 …se/array.jl:892; collect_to!(des… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +13 1 …enerator.jl:47; iterate ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +14 1 …enerator.jl:0; #25 ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +15 1 …raversal.jl:13; getindex(n::Post… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +16 1 …teration.jl:75; iterate(ti::Post… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +6 3 …tor_Node.jl:28; FelsensteinFunct… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 3 …_loopset.jl:1179; macro expansion ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 3 …_loopset.jl:497; densewrapper ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 3 …_loopset.jl:502; _densewrapper 3╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 3 …pointers.jl:42; DensePointerWrap… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +6 3 …tor_Node.jl:39; FelsensteinFunct… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 3 …_loopset.jl:1179; macro expansion ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 2 …_loopset.jl:497; densewrapper ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 2 …_loopset.jl:502; _densewrapper 2╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 2 …pointers.jl:42; DensePointerWrap… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +6 2 …tor_Node.jl:51; FelsensteinFunct… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 2 …actarray.jl:1290; getindex ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 1 …ensional.jl:888; _getindex(::Ind… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 1 …actarray.jl:702; checkbounds(::A… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +6 1 …tor_Node.jl:64; FelsensteinFunct… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 1 …ase/Base.jl:37; getproperty(x::G… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 2 …/sampler.jl:187; logpdfgrad!(::T… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +1 2 …ependent.jl:552; gradlogpdf(s::S… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +2 2 …ependent.jl:552; gradlogpdf ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +3 2 …ribution.jl:113; gradlogpdf(d::T… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +4 2 …od/Prior.jl:46; gradlogpdf ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +5 2 …nterface.jl:213; withgradient(f:… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +6 2 …nterface.jl:91; (::Zygote.var"#7… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 2 …terface2.jl:0; (::Zygote.Pullbac… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 2 …od/Prior.jl:44; #352 ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 1 …terface2.jl:0; (::Zygote.Pullbac… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 1 …od/Prior.jl:23; internal_logpdf 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +11 1 …terface2.jl:110; (::Zygote.Pullb… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 1 …terface2.jl:110; (::Zygote.Pullb… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 71 …rs/pphmc.jl:104; sample!(v::Sampler… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 71 …fraction.jl:22; refraction!(s::MCP… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 71 …mulation.jl:345; grlpdf ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 71 …/sampler.jl:94; logpdfgrad! ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +1 1 …/sampler.jl:181; logpdfgrad!(::T… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +2 1 …mulation.jl:504; relist(m::Model… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +3 1 …ase/dict.jl:291; ht_keyindex2_sh… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +1 64 …/sampler.jl:184; logpdfgrad!(::T… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +2 64 …mulation.jl:220; gradlogpdf(m::M… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +3 64 …ependent.jl:548; gradlogpdf(s::S… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +4 64 …ependent.jl:556; gradlogpdf ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +5 64 …onstruct.jl:157; gradlogpdf_sub ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +6 64 …hylodist.jl:136; gradlogpdf(d::P… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 1 …tor_Node.jl:0; FelsensteinFuncti… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 1 …tor_Node.jl:11; FelsensteinFunct… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 1 …tor_Node.jl:94; FelsensteinFunct… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 1 …se/views.jl:147; maybeview 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 1 …raversal.jl:13; getindex(n::Post… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 1 …tor_Node.jl:18; FelsensteinFunct… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 1 …_loopset.jl:1179; macro expansion ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 1 …raversal.jl:13; getindex(n::Post… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 1 …teration.jl:75; iterate(ti::Post… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +11 1 …teration.jl:185; next(s::Abstrac… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 17 …tor_Node.jl:28; FelsensteinFunct… 2╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 17 …_loopset.jl:1179; macro expansion ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 15 …_loopset.jl:497; densewrapper ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 15 …_loopset.jl:502; _densewrapper 15╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +11 15 …pointers.jl:42; DensePointerWrap… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 27 …tor_Node.jl:39; FelsensteinFunct… 2╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 27 …_loopset.jl:1179; macro expansion ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 25 …_loopset.jl:497; densewrapper ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 25 …_loopset.jl:502; _densewrapper 24╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +11 25 …pointers.jl:42; DensePointerWrap… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 1 …tor_Node.jl:51; FelsensteinFunct… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 1 …actarray.jl:1290; getindex ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 1 …ensional.jl:889; _getindex(::Ind… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 1 …ensional.jl:903; _unsafe_getinde… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +11 1 …ensional.jl:925; _unsafe_getinde… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +12 1 …ensional.jl:912; macro expansion ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +13 1 …artesian.jl:64; macro expansion ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +14 1 …ensional.jl:917; macro expansion 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +15 1 …sentials.jl:14; getindex 9╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 15 …tor_Node.jl:64; FelsensteinFunct… 5╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 5 …ase/Base.jl:37; getproperty(x::G… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 1 …sentials.jl:14; getindex(::Array… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 1 …tor_Node.jl:66; FelsensteinFunct… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 1 …sentials.jl:14; getindex ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +1 6 …/sampler.jl:187; logpdfgrad!(::T… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +2 6 …ependent.jl:552; gradlogpdf(s::S… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +3 6 …ependent.jl:552; gradlogpdf ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +4 6 …ribution.jl:113; gradlogpdf(d::T… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +5 6 …od/Prior.jl:46; gradlogpdf ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +6 1 …nterface.jl:205; withgradient(f:… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 1 …nterface.jl:88; pullback ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 1 …nterface.jl:90; pullback(f::Func… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 1 …terface2.jl:0; _pullback(ctx::Zy… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 1 …od/Prior.jl:44; #352 ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +6 5 …nterface.jl:213; withgradient(f:… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 5 …nterface.jl:91; (::Zygote.var"#7… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 5 …terface2.jl:0; (::Zygote.Pullbac… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 5 …od/Prior.jl:44; #352 ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 4 …terface2.jl:0; (::Zygote.Pullbac… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +11 4 …od/Prior.jl:23; internal_logpdf 4╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +12 4 …terface2.jl:110; (::Zygote.Pullb… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 1 …terface2.jl:110; (::Zygote.Pullb… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 5 …esimplex.jl:79; sample! ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 5 …esimplex.jl:89; sample!(v::Sampler{… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 5 …mulation.jl:341; lpdf ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 5 …/sampler.jl:194; logpdf! ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 2 …mulation.jl:269; logpdf!(m::Mode… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +1 2 …ependent.jl:469; update!(s::Stoc… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +2 1 …ependent.jl:373; Stochastic(a::S… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 3 …mulation.jl:270; logpdf!(m::Mode… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +1 3 …ependent.jl:515; logpdf(s::Stoch… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +2 3 …ependent.jl:515; logpdf ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +3 3 …ependent.jl:564; logpdf ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +4 3 …onstruct.jl:122; logpdf_sub ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +5 3 …hylodist.jl:121; logpdf(d::Phylo… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +6 2 …tor_Node.jl:92; FelsensteinFunct… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 2 …se/views.jl:147; maybeview ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 2 …raversal.jl:7; getindex ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 2 …se/array.jl:844; collect(itr::Ba… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 2 …se/array.jl:870; collect_to_with… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +11 2 …se/array.jl:892; collect_to!(des… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +12 2 …enerator.jl:47; iterate ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +13 2 …enerator.jl:0; #25 ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +14 1 …raversal.jl:10; getindex(n::Post… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +15 1 …teration.jl:74; iterate ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +16 1 …teration.jl:75; iterate ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +17 1 …teration.jl:183; next(s::Abstrac… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +18 1 …/cursors.jl:183; nextsibling(csr… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +14 1 …raversal.jl:13; getindex(n::Post… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +15 1 …teration.jl:75; iterate(ti::Post… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +16 1 …teration.jl:185; next(s::Abstrac… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +6 1 …tor_Node.jl:107; FelsensteinFunc… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +7 1 …actarray.jl:527; last ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +8 1 …raversal.jl:13; getindex(n::Post… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +9 1 …teration.jl:75; iterate(ti::Post… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +10 1 …teration.jl:188; next(s::Abstrac… ╎ ╎ ╎ ╎ ╎ ╎ ╎ 1 …del/mcmc.jl:233; mcmc_worker!(args::Vec… ╎ ╎ ╎ ╎ ╎ ╎ ╎ 1 …del/mcmc.jl:286; track(i::Int64, burni… ╎ ╎ ╎ ╎ ╎ ╎ ╎ 1 …mulation.jl:387; final_likelihood(mod… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 1 …el/model.jl:126; keys(::Model, ::Sym… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 1 …el/model.jl:186; keys_dependent(m::… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 1 …el/graph.jl:121; tsort(m::Model) ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 1 …el/graph.jl:4; MCPhylo.ModelGraph… ╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ 1 …el/model.jl:126; keys(::Model, :… 1╎ ╎ ╎ ╎ ╎ ╎ ╎ ╎ +1 1 …el/model.jl:147; keys_all(m::Mod… jfptr_include_46609.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 exec_options at ./client.jl:323 _start at ./client.jl:557 jfptr__start_82985.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] true_main at /source/src/jlapi.c:582 jl_repl_entrypoint at /source/src/jlapi.c:731 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x792af3240249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) unknown function (ip: (nil)) ============================================================== Profile collected. A report will print at the next yield point ============================================================== ┌ Warning: There were no samples collected in one or more groups. │ This may be due to idle threads, or you may need to run your │ program longer (perhaps by running it multiple times), │ or adjust the delay between samples with `Profile.init()`. └ @ Profile /opt/julia/share/julia/stdlib/v1.10/Profile/src/Profile.jl:1225 Overhead ╎ [+additional indent] Count File:Line; Function ========================================================= Thread 1 Task 0x0000792ae5c00010 Total snapshots: 1. Utilization: 0% ╎1 @Base/client.jl:557; _start() ╎ 1 @Base/client.jl:323; exec_options(opts::Base.JLOptions) ╎ 1 @Base/Base.jl:495; include(mod::Module, _path::String) ╎ 1 @Base/loading.jl:2206; _include(mapexpr::Function, mod::Module, _path::S… ╎ 1 @Base/loading.jl:2146; include_string(mapexpr::typeof(identity), mod::M… ╎ 1 @Base/boot.jl:385; eval ╎ ╎ 1 @Pkg/src/API.jl:146; kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(… ╎ ╎ 1 @Pkg/src/API.jl:146; #test#74 ╎ ╎ 1 @Pkg/src/API.jl:147; test ╎ ╎ 1 @Pkg/src/API.jl:147; #test#75 ╎ ╎ 1 @Pkg/src/API.jl:148; kwcall(::@NamedTuple{julia_args::Cmd}, ::typ… ╎ ╎ ╎ 1 @Pkg/src/API.jl:159; test(pkgs::Vector{Pkg.Types.PackageSpec}; i… ╎ ╎ ╎ 1 @Pkg/src/API.jl:423; kwcall(::@NamedTuple{julia_args::Cmd, io::… ╎ ╎ ╎ 1 @Pkg/src/API.jl:444; test(ctx::Pkg.Types.Context, pkgs::Vector… ╎ ╎ ╎ 1 …/src/Operations.jl:1915; test ╎ ╎ ╎ 1 …src/Operations.jl:1971; test(ctx::Pkg.Types.Context, pkgs::… ╎ ╎ ╎ ╎ 1 …src/Operations.jl:1759; kwcall(::@NamedTuple{preferences::… ╎ ╎ ╎ ╎ 1 …src/Operations.jl:1768; sandbox(fn::Function, ctx::Pkg.Ty… ╎ ╎ ╎ ╎ 1 @Base/file.jl:762; mktempdir ╎ ╎ ╎ ╎ 1 @Base/file.jl:762; mktempdir(fn::Function, parent::Strin… ╎ ╎ ╎ ╎ 1 @Base/file.jl:766; mktempdir(fn::Pkg.Operations.var"#11… ╎ ╎ ╎ ╎ ╎ 1 …c/Operations.jl:1810; (::Pkg.Operations.var"#115#120"… ╎ ╎ ╎ ╎ ╎ 1 …c/Operations.jl:1721; with_temp_env(fn::Pkg.Operatio… ╎ ╎ ╎ ╎ ╎ 1 …/Operations.jl:1840; (::Pkg.Operations.var"#117#122… ╎ ╎ ╎ ╎ ╎ 1 @Base/env.jl:257; withenv(::Pkg.Operations.var"#130… ╎ ╎ ╎ ╎ ╎ 1 …Operations.jl:1992; (::Pkg.Operations.var"#130#13… ╎ ╎ ╎ ╎ ╎ ╎ 1 …Operations.jl:2048; subprocess_handler(cmd::Cmd,… ╎ ╎ ╎ ╎ ╎ ╎ 1 …se/process.jl:661; wait(x::Base.Process) ╎ ╎ ╎ ╎ ╎ ╎ 1 …/condition.jl:125; wait ╎ ╎ ╎ ╎ ╎ ╎ 1 …condition.jl:130; wait(c::Base.GenericConditi… ╎ ╎ ╎ ╎ ╎ ╎ 1 …ase/task.jl:1008; wait() ╎ ╎ ╎ ╎ ╎ ╎ ╎ 1 …ase/task.jl:999; poptask(W::Base.IntrusiveL… [1] signal (15): Terminated in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 epoll_wait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv__io_poll at /workspace/srcdir/libuv/src/unix/epoll.c:236 uv_run at /workspace/srcdir/libuv/src/unix/core.c:400 ijl_task_get_next at /source/src/partr.c:478 [424] signal (15): Terminated in expression starting at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/test/samplers/tree_samplers.jl:132 #getrf!#1 at /source/usr/share/julia/stdlib/v1.10/LinearAlgebra/src/lapack.jl:557 unknown function (ip: 0x7ffe766ae40f) JC at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/Likelihood/SubstitutionModels.jl:47 gradlogpdf at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/distributions/Phylodist.jl:126 gradlogpdf_sub at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/distributions/distributionstruct.jl:157 [inlined] gradlogpdf at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/dependent.jl:556 [inlined] gradlogpdf at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/dependent.jl:548 unknown function (ip: 0x7698fda75ce6) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 gradlogpdf at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/simulation.jl:220 logpdfgrad! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/samplers/sampler.jl:184 logpdfgrad! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/samplers/sampler.jl:94 [inlined] grlpdf at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/simulation.jl:345 [inlined] refraction! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/samplers/tree_hamiltonian/refraction.jl:22 #sample!#317 at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/samplers/pphmc.jl:104 sample! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/samplers/pphmc.jl:75 [inlined] sample! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/simulation.jl:347 unknown function (ip: 0x7698fdacf0d9) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 sample! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/simulation.jl:328 mcmc_worker! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/mcmc.jl:231 mcmc_worker! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/mcmc.jl:194 [inlined] mcmc_or_convergence at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/utils.jl:219 [inlined] iterate at ./generator.jl:47 [inlined] collect_to! at ./array.jl:892 collect_to_with_first! at ./array.jl:870 [inlined] _collect at ./array.jl:864 collect_similar at ./array.jl:763 unknown function (ip: 0x7698fdbac6d9) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 map at ./abstractarray.jl:3286 pmap2 at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/utils.jl:93 [inlined] macro expansion at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/utils.jl:179 [inlined] macro expansion at ./task.jl:486 [inlined] assign_mcmc_work at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/utils.jl:172 #mcmc_master!#73 at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/mcmc.jl:166 mcmc_master! at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/mcmc.jl:135 [inlined] #mcmc#72 at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/mcmc.jl:123 mcmc at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/src/model/mcmc.jl:75 unknown function (ip: 0x7698fda5d93d) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_body at /source/src/interpreter.c:489 eval_body at /source/src/interpreter.c:544 eval_body at /source/src/interpreter.c:544 jl_interpret_toplevel_thunk at /source/src/interpreter.c:775 jl_toplevel_eval_flex at /source/src/toplevel.c:934 jl_toplevel_eval_flex at /source/src/toplevel.c:877 ijl_toplevel_eval_in at /source/src/toplevel.c:985 poptask at ./task.jl:999 eval at ./boot.jl:385 [inlined] include_string at ./loading.jl:2146 _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 wait at ./task.jl:1008 _include at ./loading.jl:2206 include at ./client.jl:494 [inlined] macro expansion at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/test/utils.jl:5 [inlined] macro expansion at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/test/runtests.jl:94 [inlined] macro expansion at /source/usr/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] macro expansion at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/test/runtests.jl:93 [inlined] macro expansion at /source/usr/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] top-level scope at /home/pkgeval/.julia/packages/MCPhylo/KWPlY/test/runtests.jl:56 _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_invoke at /source/src/gf.c:2902 #wait#645 at ./condition.jl:130 jl_toplevel_eval_flex at /source/src/toplevel.c:925 jl_toplevel_eval_flex at /source/src/toplevel.c:877 ijl_toplevel_eval_in at /source/src/toplevel.c:985 wait at ./condition.jl:125 [inlined] _trywait at ./asyncevent.jl:142 eval at ./boot.jl:385 [inlined] include_string at ./loading.jl:2146 _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 wait at ./asyncevent.jl:159 [inlined] profile_printing_listener at ./Base.jl:572 _include at ./loading.jl:2206 include at ./client.jl:494 unknown function (ip: 0x76991a47f125) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:635 jl_interpret_toplevel_thunk at /source/src/interpreter.c:775 jl_toplevel_eval_flex at /source/src/toplevel.c:934 jl_toplevel_eval_flex at /source/src/toplevel.c:877 ijl_toplevel_eval_in at /source/src/toplevel.c:985 #1056 at ./Base.jl:608 eval at ./boot.jl:385 [inlined] exec_options at ./client.jl:296 jfptr_YY.1056_85200.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] start_task at /source/src/task.c:1256 unknown function (ip: (nil)) Allocations: 15965698 (Pool: 15933894; Big: 31804); GC: 21 _start at ./client.jl:557 jfptr__start_82985.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2876 [inlined] ijl_apply_generic at /source/src/gf.c:3077 jl_apply at /source/src/julia.h:1982 [inlined] true_main at /source/src/jlapi.c:582 jl_repl_entrypoint at /source/src/jlapi.c:731 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x76991b34a249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) unknown function (ip: (nil)) Allocations: 7850992268 (Pool: 7846961358; Big: 4030910); GC: 4231 PkgEval terminated after 2727.58s: test duration exceeded the time limit