Package evaluation to test MendelImpute on Julia 1.14.0-DEV.1871 (50d44f5be7*) started at 2026-03-09T04:18:40.947 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.14` Set-up completed after 14.48s ################################################################################ # Installation # Installing MendelImpute... Resolving package versions... Installed libaom_jll ─────────────────────── v3.13.1+0 Installed CommonWorldInvalidations ───────── v1.0.0 Installed Glob ───────────────────────────── v1.4.0 Installed Libuuid_jll ────────────────────── v2.41.3+0 Installed libass_jll ─────────────────────── v0.17.4+0 Installed HarfBuzz_jll ───────────────────── v8.5.1+0 Installed Qt6Base_jll ────────────────────── v6.10.2+1 Installed MultivariateStats ──────────────── v0.10.4 Installed Bzip2_jll ──────────────────────── v1.0.9+0 Installed Libtiff_jll ────────────────────── v4.7.2+0 Installed Cairo_jll ──────────────────────── v1.18.5+1 Installed PlotThemes ─────────────────────── v3.3.0 Installed SIMDTypes ──────────────────────── v0.1.0 Installed OrderedCollections ─────────────── v1.8.1 Installed Xorg_libXinerama_jll ───────────── v1.1.7+0 Installed InlineStrings ──────────────────── v1.4.5 Installed Graphite2_jll ──────────────────── v1.3.15+0 Installed libinput_jll ───────────────────── v1.28.1+0 Installed HypothesisTests ────────────────── v0.11.6 Installed NearestNeighbors ───────────────── v0.4.27 Installed CpuId ──────────────────────────── v0.3.1 Installed SentinelArrays ─────────────────── v1.4.9 Installed Fontconfig_jll ─────────────────── v2.17.1+0 Installed fzf_jll ────────────────────────── v0.61.1+0 Installed Distances ──────────────────────── v0.10.12 Installed FileIO ─────────────────────────── v1.18.0 Installed BSON ───────────────────────────── v0.3.9 Installed StaticArrayInterface ───────────── v1.9.0 Installed GroupSlices ────────────────────── v0.0.3 Installed QuadGK ─────────────────────────── v2.11.2 Installed NaNMath ────────────────────────── v1.1.3 Installed Widgets ────────────────────────── v0.6.7 Installed OpenSpecFun_jll ────────────────── v0.5.6+0 Installed Opus_jll ───────────────────────── v1.6.1+0 Installed WoodburyMatrices ───────────────── v1.1.0 Installed Xorg_libxcb_jll ────────────────── v1.17.1+0 Installed Tables ─────────────────────────── v1.12.1 Installed Arpack ─────────────────────────── v0.5.4 Installed Ogg_jll ────────────────────────── v1.3.6+0 Installed Unzip ──────────────────────────── v0.2.0 Installed InverseFunctions ───────────────── v0.1.17 Installed Reexport ───────────────────────── v1.2.2 Installed LZO_jll ────────────────────────── v2.10.3+0 Installed DBInterface ────────────────────── v2.6.1 Installed Xorg_xcb_util_wm_jll ───────────── v0.4.2+0 Installed FFMPEG ─────────────────────────── v0.4.5 Installed Preferences ────────────────────── v1.5.2 Installed LERC_jll ───────────────────────── v4.0.1+0 Installed Static ─────────────────────────── v1.3.1 Installed Missings ───────────────────────── v1.2.0 Installed TableTraits ────────────────────── v1.0.1 Installed LLVMOpenMP_jll ─────────────────── v18.1.8+0 Installed LaTeXStrings ───────────────────── v1.4.0 Installed Crayons ────────────────────────── v4.1.1 Installed SortingAlgorithms ──────────────── v1.2.2 Installed Xorg_libICE_jll ────────────────── v1.1.2+0 Installed eudev_jll ──────────────────────── v3.2.14+0 Installed Grisu ──────────────────────────── v1.0.2 Installed Format ─────────────────────────── v1.3.7 Installed EpollShim_jll ──────────────────── v0.0.20230411+1 Installed UnPack ─────────────────────────── v1.0.2 Installed URIs ───────────────────────────── v1.6.1 Installed MacroTools ─────────────────────── v0.5.16 Installed DataStructures ─────────────────── v0.19.3 Installed CodecZstd ──────────────────────── v0.8.7 Installed ManualMemory ───────────────────── v0.1.8 Installed FillArrays ─────────────────────── v1.16.0 Installed DelimitedFiles ─────────────────── v1.9.1 Installed AbstractTrees ──────────────────── v0.4.5 Installed VCFTools ───────────────────────── v0.2.10 Installed Xorg_xcb_util_jll ──────────────── v0.4.1+0 Installed StatsBase ──────────────────────── v0.34.10 Installed VectorizationBase ──────────────── v0.21.72 Installed UnicodeFun ─────────────────────── v0.4.1 Installed x264_jll ───────────────────────── v10164.0.1+0 Installed Observables ────────────────────── v0.5.5 Installed CodecZlib ──────────────────────── v0.7.8 Installed Xorg_libXau_jll ────────────────── v1.0.13+0 Installed HostCPUFeatures ────────────────── v0.1.18 Installed Xorg_libXfixes_jll ─────────────── v6.0.2+0 Installed Memento ────────────────────────── v1.4.1 Installed ArrayInterface ─────────────────── v7.23.0 Installed mtdev_jll ──────────────────────── v1.1.7+0 Installed Qt6ShaderTools_jll ─────────────── v6.10.2+1 Installed DataValueInterfaces ────────────── v1.0.0 Installed JLSO ───────────────────────────── v2.7.0 Installed Clustering ─────────────────────── v0.15.8 Installed LoggingExtras ──────────────────── v1.2.0 Installed LayoutPointers ─────────────────── v0.1.17 Installed Pixman_jll ─────────────────────── v0.44.2+0 Installed Libffi_jll ─────────────────────── v3.4.7+0 Installed StructUtils ────────────────────── v2.6.3 Installed Expat_jll ──────────────────────── v2.7.3+0 Installed IrrationalConstants ────────────── v0.2.6 Installed libdecor_jll ───────────────────── v0.2.2+0 Installed Xorg_libXcursor_jll ────────────── v1.2.4+0 Installed IntegerMathUtils ───────────────── v0.1.3 Installed libpng_jll ─────────────────────── v1.6.55+0 Installed Contour ────────────────────────── v0.6.3 Installed ColorVectorSpace ───────────────── v0.11.0 Installed HTTP ───────────────────────────── v1.10.19 Installed StableRNGs ─────────────────────── v1.0.4 Installed Xorg_xcb_util_keysyms_jll ──────── v0.4.1+0 Installed ArrayLayouts ───────────────────── v1.12.2 Installed Roots ──────────────────────────── v2.2.13 Installed BitFlags ───────────────────────── v0.1.9 Installed BufferedStreams ────────────────── v1.2.2 Installed libfdk_aac_jll ─────────────────── v2.0.4+0 Installed Interpolations ─────────────────── v0.16.2 Installed Scratch ────────────────────────── v1.3.0 Installed FFMPEG_jll ─────────────────────── v8.0.1+0 Installed SimpleBufferStream ─────────────── v1.2.0 Installed PooledArrays ───────────────────── v1.4.3 Installed PDMats ─────────────────────────── v0.11.37 Installed WorkerUtilities ────────────────── v1.6.1 Installed Qt6Declarative_jll ─────────────── v6.10.2+1 Installed Qt6Svg_jll ─────────────────────── v6.10.2+0 Installed DocStringExtensions ────────────── v0.9.5 Installed CodecXz ────────────────────────── v0.7.4 Installed SQLite ─────────────────────────── v1.8.0 Installed TableOperations ────────────────── v1.2.0 Installed CompositionsBase ───────────────── v0.1.2 Installed Rmath_jll ──────────────────────── v0.5.1+0 Installed CommonSolve ────────────────────── v0.2.6 Installed RelocatableFolders ─────────────── v1.0.1 Installed Plots ──────────────────────────── v1.41.6 Installed KernelDensity ──────────────────── v0.6.11 Installed JLFzf ──────────────────────────── v0.1.11 Installed SLEEFPirates ───────────────────── v0.6.43 Installed AliasTables ────────────────────── v1.1.3 Installed Ghostscript_jll ────────────────── v9.55.1+0 Installed BitTwiddlingConvenienceFunctions ─ v0.1.6 Installed ConcurrentUtilities ────────────── v2.5.1 Installed IteratorInterfaceExtensions ────── v1.0.0 Installed SIMD ───────────────────────────── v3.7.2 Installed Combinatorics ──────────────────── v1.1.0 Installed RecipesBase ────────────────────── v1.3.4 Installed libevdev_jll ───────────────────── v1.13.4+0 Installed Xorg_libXi_jll ─────────────────── v1.8.3+0 Installed DataAPI ────────────────────────── v1.16.0 Installed InvertedIndices ────────────────── v1.3.1 Installed CSV ────────────────────────────── v0.10.16 Installed Wayland_jll ────────────────────── v1.24.0+0 Installed Measures ───────────────────────── v0.3.3 Installed StaticArraysCore ───────────────── v1.4.4 Installed Xorg_libxkbfile_jll ────────────── v1.2.0+0 Installed Colors ─────────────────────────── v0.13.1 Installed StaticArrays ───────────────────── v1.9.17 Installed ColorSchemes ───────────────────── v3.31.0 Installed AbstractFFTs ───────────────────── v1.5.0 Installed Libglvnd_jll ───────────────────── v1.7.1+1 Installed ColorTypes ─────────────────────── v0.12.1 Installed AxisAlgorithms ─────────────────── v1.1.0 Installed SciMLPublic ────────────────────── v1.0.1 Installed Latexify ───────────────────────── v0.16.10 Installed StringManipulation ─────────────── v0.4.4 Installed Xorg_xkbcomp_jll ───────────────── v1.4.7+0 Installed Glib_jll ───────────────────────── v2.86.3+0 Installed Requires ───────────────────────── v1.3.1 Installed Vulkan_Loader_jll ──────────────── v1.3.243+0 Installed LogExpFunctions ────────────────── v0.3.29 Installed JSON ───────────────────────────── v1.4.0 Installed Xorg_xcb_util_cursor_jll ───────── v0.1.6+0 Installed Arpack_jll ─────────────────────── v3.5.2+0 Installed Rmath ──────────────────────────── v0.9.0 Installed Parsers ────────────────────────── v2.8.3 Installed StatsPlots ─────────────────────── v0.15.8 Installed Xorg_xcb_util_renderutil_jll ───── v0.3.10+0 Installed Distributions ──────────────────── v0.25.123 Installed CloseOpenIntervals ─────────────── v0.1.13 Installed StatsFuns ──────────────────────── v1.5.2 Installed BioGenerics ────────────────────── v0.1.5 Installed PrettyTables ───────────────────── v3.2.3 Installed Xorg_libXdmcp_jll ──────────────── v1.1.6+0 Installed Xorg_xkeyboard_config_jll ──────── v2.44.0+0 Installed XZ_jll ─────────────────────────── v5.8.2+0 Installed Xorg_libSM_jll ─────────────────── v1.2.6+0 Installed WeakRefStrings ─────────────────── v1.4.2 Installed JLLWrappers ────────────────────── v1.7.1 Installed DataFrames ─────────────────────── v1.8.1 Installed x265_jll ───────────────────────── v4.1.0+0 Installed Primes ─────────────────────────── v0.5.7 Installed Pango_jll ──────────────────────── v1.57.0+0 Installed ThreadingUtilities ─────────────── v0.5.5 Installed BGZFStreams ────────────────────── v0.3.2 Installed RecipesPipeline ────────────────── v0.6.12 Installed Xorg_xtrans_jll ────────────────── v1.6.0+0 Installed VariantCallFormat ──────────────── v0.5.9 Installed GR_jll ─────────────────────────── v0.73.24+0 Installed Accessors ──────────────────────── v0.1.43 Installed JpegTurbo_jll ──────────────────── v3.1.4+0 Installed FFTA ───────────────────────────── v0.3.1 Installed Dbus_jll ───────────────────────── v1.16.2+0 Installed ConstructionBase ───────────────── v1.6.0 Installed JLD2 ───────────────────────────── v0.4.55 Installed FilePathsBase ──────────────────── v0.9.24 Installed HypergeometricFunctions ────────── v0.3.28 Installed Adapt ──────────────────────────── v4.5.0 Installed Libmount_jll ───────────────────── v2.41.3+0 Installed TranscodingStreams ─────────────── v0.9.13 Installed ExceptionUnwrapping ────────────── v0.1.11 Installed PlotUtils ──────────────────────── v1.4.4 Installed Compat ─────────────────────────── v4.18.1 Installed Xorg_libX11_jll ────────────────── v1.8.13+0 Installed TensorCore ─────────────────────── v0.1.1 Installed LoopVectorization ──────────────── v0.12.173 Installed StatsAPI ───────────────────────── v1.8.0 Installed Statistics ─────────────────────── v1.11.1 Installed dlfcn_win32_jll ────────────────── v1.4.2+0 Installed GR ─────────────────────────────── v0.73.24 Installed LazyArrays ─────────────────────── v1.10.0 Installed OffsetArrays ───────────────────── v1.17.0 Installed PrecompileTools ────────────────── v1.3.3 Installed MbedTLS ────────────────────────── v1.1.10 Installed Xorg_xcb_util_image_jll ────────── v0.4.1+0 Installed ProgressMeter ──────────────────── v1.11.0 Installed OpenSSL ────────────────────────── v1.6.1 Installed xkbcommon_jll ──────────────────── v1.13.0+0 Installed GettextRuntime_jll ─────────────── v0.22.4+0 Installed CodecBzip2 ─────────────────────── v0.8.5 Installed ChainRulesCore ─────────────────── v1.26.0 Installed FriBidi_jll ────────────────────── v1.0.17+0 Installed Ratios ─────────────────────────── v0.4.5 Installed CPUSummary ─────────────────────── v0.2.7 Installed GLFW_jll ───────────────────────── v3.4.1+0 Installed LAME_jll ───────────────────────── v3.100.3+0 Installed Xorg_libXrender_jll ────────────── v0.9.12+0 Installed IfElse ─────────────────────────── v0.1.1 Installed MatrixFactorizations ───────────── v2.2.0 Installed libvorbis_jll ──────────────────── v1.3.8+0 Installed MuladdMacro ────────────────────── v0.2.4 Installed Showoff ────────────────────────── v1.0.3 Installed FixedPointNumbers ──────────────── v0.8.5 Installed FreeType2_jll ──────────────────── v2.13.4+0 Installed PtrArrays ──────────────────────── v1.4.0 Installed SpecialFunctions ───────────────── v2.7.1 Installed Libiconv_jll ───────────────────── v1.18.0+0 Installed MbedTLS_jll ────────────────────── v2.28.1010+0 Installed SQLite_jll ─────────────────────── v3.51.2+0 Installed Automa ─────────────────────────── v1.1.0 Installed Xorg_libXext_jll ───────────────── v1.3.8+0 Installed PolyesterWeave ─────────────────── v0.2.2 Installed Qt6Wayland_jll ─────────────────── v6.10.2+1 Installed Xorg_libXrandr_jll ─────────────── v1.5.6+0 Installed MendelImpute ───────────────────── v1.2.6 Installed SnpArrays ──────────────────────── v0.3.23 Installed BGEN ───────────────────────────── v0.1.17 Installing 81 artifacts Installed artifact Rmath 121.9 KiB Installed artifact Xorg_xcb_util_renderutil 32.1 KiB Installed artifact libevdev 117.1 KiB Installed artifact mtdev 79.6 KiB Installed artifact Xorg_xcb_util_keysyms 17.8 KiB Installed artifact Xorg_libICE 384.9 KiB Installed artifact Libffi 44.2 KiB Installed artifact Wayland 390.6 KiB Installed artifact Pango 2.0 MiB Installed artifact Pixman 372.2 KiB Installed artifact Xorg_xcb_util_wm 147.9 KiB Installed artifact XZ 1.5 MiB Installed artifact Vulkan_Loader 177.3 KiB Installed artifact Expat 283.3 KiB Installed artifact libass 427.8 KiB Installed artifact Bzip2 503.5 KiB Installed artifact Libglvnd 833.5 KiB Installed artifact GLFW 180.1 KiB Installed artifact MbedTLS 2.2 MiB Installed artifact Qt6Svg 386.4 KiB Installed artifact eudev 3.9 MiB Installed artifact HarfBuzz 1.7 MiB Installed artifact Glib 7.7 MiB Installed artifact Cairo 2.2 MiB Installed artifact Xorg_libXext 286.6 KiB Installed artifact FriBidi 78.9 KiB Installed artifact Xorg_libXinerama 25.5 KiB Installed artifact Arpack 138.3 KiB Installed artifact libaom 6.4 MiB Installed artifact Xorg_xkeyboard_config 537.5 KiB Installed artifact Xorg_xkbcomp 274.8 KiB Installed artifact Xorg_libXi 1.6 MiB Installed artifact x265 1.4 MiB Installed artifact testfiles 6.2 MiB Installed artifact Qt6ShaderTools 2.1 MiB Installed artifact x264 2.1 MiB Installed artifact Graphite2 120.2 KiB Installed artifact libdecor 44.1 KiB Installed artifact Libuuid 3.7 MiB Installed artifact Xorg_libxkbfile 91.1 KiB Installed artifact FreeType2 1.5 MiB Installed artifact Opus 960.9 KiB Installed artifact SQLite 1.7 MiB Installed artifact Fontconfig 984.8 KiB Installed artifact Xorg_libXdmcp 67.7 KiB Installed artifact Xorg_libXcursor 227.1 KiB Installed artifact Xorg_xcb_util 39.5 KiB Installed artifact libpng 328.7 KiB Installed artifact LLVMOpenMP 661.6 KiB Installed artifact Ghostscript 31.4 MiB Installed artifact Dbus 489.8 KiB Installed artifact fzf 3.3 MiB Installed artifact LZO 208.9 KiB Installed artifact Xorg_xcb_util_image 54.3 KiB Installed artifact Xorg_xtrans 48.2 KiB Installed artifact Xorg_libXrandr 97.3 KiB Installed artifact LERC 272.9 KiB Installed artifact Ogg 250.3 KiB Installed artifact LAME 292.5 KiB Installed artifact libfdk_aac 2.8 MiB Installed artifact GettextRuntime 543.0 KiB Installed artifact Libiconv 1.9 MiB Installed artifact JpegTurbo 1.4 MiB Installed artifact Xorg_libXrender 435.9 KiB Installed artifact xkbcommon 298.7 KiB Installed artifact Libmount 6.5 MiB Installed artifact Xorg_libSM 164.1 KiB Installed artifact Xorg_libXfixes 59.0 KiB Installed artifact Xorg_libxcb 2.1 MiB Installed artifact libinput 1.0 MiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact Xorg_xcb_util_cursor 27.6 KiB Installed artifact Libtiff 2.3 MiB Installed artifact FFMPEG 11.7 MiB Installed artifact Xorg_libXau 36.6 KiB Installed artifact libvorbis 271.0 KiB Installed artifact Qt6Wayland 1.4 MiB Installed artifact Qt6Declarative 23.8 MiB Installed artifact GR 19.0 MiB Installed artifact Xorg_libX11 4.8 MiB Installed artifact Qt6Base 23.1 MiB Updating `~/.julia/environments/v1.14/Project.toml` [e47305d1] + MendelImpute v1.2.6 Updating `~/.julia/environments/v1.14/Manifest.toml` [621f4979] + AbstractFFTs v1.5.0 [1520ce14] + AbstractTrees v0.4.5 [7d9f7c33] + Accessors v0.1.43 [79e6a3ab] + Adapt v4.5.0 [66dad0bd] + AliasTables v1.1.3 [7d9fca2a] + Arpack v0.5.4 [4fba245c] + ArrayInterface v7.23.0 [4c555306] + ArrayLayouts v1.12.2 [67c07d97] + Automa v1.1.0 [13072b0f] + AxisAlgorithms v1.1.0 ⌅ [6db4b851] + BGEN v0.1.17 [28d598bf] + BGZFStreams v0.3.2 [fbb218c0] + BSON v0.3.9 [47718e42] + BioGenerics v0.1.5 [d1d4a3ce] + BitFlags v0.1.9 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [e1450e63] + BufferedStreams v1.2.2 [2a0fbf3d] + CPUSummary v0.2.7 [336ed68f] + CSV v0.10.16 [d360d2e6] + ChainRulesCore v1.26.0 [fb6a15b2] + CloseOpenIntervals v0.1.13 [aaaa29a8] + Clustering v0.15.8 [523fee87] + CodecBzip2 v0.8.5 [ba30903b] + CodecXz v0.7.4 [944b1d66] + CodecZlib v0.7.8 [6b39b394] + CodecZstd v0.8.7 [35d6a980] + ColorSchemes v3.31.0 [3da002f7] + ColorTypes v0.12.1 [c3611d14] + ColorVectorSpace v0.11.0 [5ae59095] + Colors v0.13.1 [861a8166] + Combinatorics v1.1.0 [38540f10] + CommonSolve v0.2.6 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.18.1 [a33af91c] + CompositionsBase v0.1.2 [f0e56b4a] + ConcurrentUtilities v2.5.1 [187b0558] + ConstructionBase v1.6.0 [d38c429a] + Contour v0.6.3 [adafc99b] + CpuId v0.3.1 [a8cc5b0e] + Crayons v4.1.1 [a10d1c49] + DBInterface v2.6.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.8.1 [864edb3b] + DataStructures v0.19.3 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.123 [ffbed154] + DocStringExtensions v0.9.5 [460bff9d] + ExceptionUnwrapping v0.1.11 [c87230d0] + FFMPEG v0.4.5 [b86e33f2] + FFTA v0.3.1 [5789e2e9] + FileIO v1.18.0 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.16.0 [53c48c17] + FixedPointNumbers v0.8.5 [1fa38f19] + Format v1.3.7 [28b8d3ca] + GR v0.73.24 [c27321d9] + Glob v1.4.0 [42e2da0e] + Grisu v1.0.2 [d853e229] + GroupSlices v0.0.3 [cd3eb016] + HTTP v1.10.19 [3e5b6fbb] + HostCPUFeatures v0.1.18 [34004b35] + HypergeometricFunctions v0.3.28 [09f84164] + HypothesisTests v0.11.6 [615f187c] + IfElse v0.1.1 [842dd82b] + InlineStrings v1.4.5 [18e54dd8] + IntegerMathUtils v0.1.3 [a98d9a8b] + Interpolations v0.16.2 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.6 [82899510] + IteratorInterfaceExtensions v1.0.0 ⌅ [033835bb] + JLD2 v0.4.55 [1019f520] + JLFzf v0.1.11 [692b3bcd] + JLLWrappers v1.7.1 [9da8a3cd] + JLSO v2.7.0 [682c06a0] + JSON v1.4.0 [5ab0869b] + KernelDensity v0.6.11 [b964fa9f] + LaTeXStrings v1.4.0 [23fbe1c1] + Latexify v0.16.10 [10f19ff3] + LayoutPointers v0.1.17 ⌅ [5078a376] + LazyArrays v1.10.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [e6f89c97] + LoggingExtras v1.2.0 [bdcacae8] + LoopVectorization v0.12.173 [1914dd2f] + MacroTools v0.5.16 [d125e4d3] + ManualMemory v0.1.8 ⌅ [a3b82374] + MatrixFactorizations v2.2.0 [739be429] + MbedTLS v1.1.10 [442fdcdd] + Measures v0.3.3 [f28f55f0] + Memento v1.4.1 [e47305d1] + MendelImpute v1.2.6 [e1d29d7a] + Missings v1.2.0 [46d2c3a1] + MuladdMacro v0.2.4 [6f286f6a] + MultivariateStats v0.10.4 [77ba4419] + NaNMath v1.1.3 [b8a86587] + NearestNeighbors v0.4.27 [510215fc] + Observables v0.5.5 [6fe1bfb0] + OffsetArrays v1.17.0 [4d8831e6] + OpenSSL v1.6.1 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.37 [69de0a69] + Parsers v2.8.3 [ccf2f8ad] + PlotThemes v3.3.0 [995b91a9] + PlotUtils v1.4.4 [91a5bcdd] + Plots v1.41.6 [1d0040c9] + PolyesterWeave v0.2.2 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.2 [08abe8d2] + PrettyTables v3.2.3 [27ebfcd6] + Primes v0.5.7 [92933f4c] + ProgressMeter v1.11.0 [43287f4e] + PtrArrays v1.4.0 [1fd47b50] + QuadGK v2.11.2 [c84ed2f1] + Ratios v0.4.5 [3cdcf5f2] + RecipesBase v1.3.4 [01d81517] + RecipesPipeline v0.6.12 [189a3867] + Reexport v1.2.2 [05181044] + RelocatableFolders v1.0.1 [ae029012] + Requires v1.3.1 [79098fc4] + Rmath v0.9.0 [f2b01f46] + Roots v2.2.13 [fdea26ae] + SIMD v3.7.2 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.43 [0aa819cd] + SQLite v1.8.0 [431bcebd] + SciMLPublic v1.0.1 [6c6a2e73] + Scratch v1.3.0 [91c51154] + SentinelArrays v1.4.9 [992d4aef] + Showoff v1.0.3 [777ac1f9] + SimpleBufferStream v1.2.0 [4e780e97] + SnpArrays v0.3.23 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.7.1 [860ef19b] + StableRNGs v1.0.4 [aedffcd0] + Static v1.3.1 [0d7ed370] + StaticArrayInterface v1.9.0 [90137ffa] + StaticArrays v1.9.17 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.8.0 [2913bbd2] + StatsBase v0.34.10 [4c63d2b9] + StatsFuns v1.5.2 [f3b207a7] + StatsPlots v0.15.8 [892a3eda] + StringManipulation v0.4.4 [ec057cc2] + StructUtils v2.6.3 [ab02a1b2] + TableOperations v1.2.0 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [62fd8b95] + TensorCore v0.1.1 [8290d209] + ThreadingUtilities v0.5.5 ⌅ [3bb67fe8] + TranscodingStreams v0.9.13 [5c2747f8] + URIs v1.6.1 [3a884ed6] + UnPack v1.0.2 [1cfade01] + UnicodeFun v0.4.1 [41fe7b60] + Unzip v0.2.0 [a620830f] + VCFTools v0.2.10 [28eba6e3] + VariantCallFormat v0.5.9 [3d5dd08c] + VectorizationBase v0.21.72 [ea10d353] + WeakRefStrings v1.4.2 [cc8bc4a8] + Widgets v0.6.7 [efce3f68] + WoodburyMatrices v1.1.0 [76eceee3] + WorkerUtilities v1.6.1 ⌅ [68821587] + Arpack_jll v3.5.2+0 [6e34b625] + Bzip2_jll v1.0.9+0 [83423d85] + Cairo_jll v1.18.5+1 [ee1fde0b] + Dbus_jll v1.16.2+0 [2702e6a9] + EpollShim_jll v0.0.20230411+1 [2e619515] + Expat_jll v2.7.3+0 [b22a6f82] + FFMPEG_jll v8.0.1+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 v3.4.1+0 [d2c73de3] + GR_jll v0.73.24+0 [b0724c58] + GettextRuntime_jll v0.22.4+0 [61579ee1] + Ghostscript_jll v9.55.1+0 [7746bdde] + Glib_jll v2.86.3+0 [3b182d85] + Graphite2_jll v1.3.15+0 [2e76f6c2] + HarfBuzz_jll v8.5.1+0 [aacddb02] + JpegTurbo_jll v3.1.4+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 v2.41.3+0 [89763e89] + Libtiff_jll v4.7.2+0 [38a345b3] + Libuuid_jll v2.41.3+0 [c8ffd9c3] + MbedTLS_jll v2.28.1010+0 [e7412a2a] + Ogg_jll v1.3.6+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [91d4177d] + Opus_jll v1.6.1+0 [36c8627f] + Pango_jll v1.57.0+0 ⌅ [30392449] + Pixman_jll v0.44.2+0 [c0090381] + Qt6Base_jll v6.10.2+1 [629bc702] + Qt6Declarative_jll v6.10.2+1 [ce943373] + Qt6ShaderTools_jll v6.10.2+1 [6de9746b] + Qt6Svg_jll v6.10.2+0 [e99dba38] + Qt6Wayland_jll v6.10.2+1 [f50d1b31] + Rmath_jll v0.5.1+0 [76ed43ae] + SQLite_jll v3.51.2+0 [a44049a8] + Vulkan_Loader_jll v1.3.243+0 [a2964d1f] + Wayland_jll v1.24.0+0 [ffd25f8a] + XZ_jll v5.8.2+0 [f67eecfb] + Xorg_libICE_jll v1.1.2+0 [c834827a] + Xorg_libSM_jll v1.2.6+0 [4f6342f7] + Xorg_libX11_jll v1.8.13+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 v1.3.8+0 [d091e8ba] + Xorg_libXfixes_jll v6.0.2+0 [a51aa0fd] + Xorg_libXi_jll v1.8.3+0 [d1454406] + Xorg_libXinerama_jll v1.1.7+0 [ec84b674] + Xorg_libXrandr_jll v1.5.6+0 [ea2f1a96] + Xorg_libXrender_jll v0.9.12+0 [c7cfdc94] + Xorg_libxcb_jll v1.17.1+0 [cc61e674] + Xorg_libxkbfile_jll v1.2.0+0 [e920d4aa] + Xorg_xcb_util_cursor_jll v0.1.6+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 [c4b69c83] + dlfcn_win32_jll v1.4.2+0 [35ca27e7] + eudev_jll v3.2.14+0 [214eeab7] + fzf_jll v0.61.1+0 [a4ae2306] + libaom_jll v3.13.1+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 v1.6.55+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 v1.13.0+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 v1.13.0 [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 v1.14.0 [de0858da] + Printf v1.11.0 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v1.0.0 [9e88b42a] + Serialization v1.11.0 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.13.0 [f489334b] + StyledStrings v1.13.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [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 v8.18.0+0 [e37daf67] + LibGit2_jll v1.9.2+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.12.2 [4536629a] + OpenBLAS_jll v0.3.30+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.5+0 [efcefdf7] + PCRE2_jll v10.47.0+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.2+0 [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 ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 39.43s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 5010.9 ms ✓ TestEnv 1 dependency successfully precompiled in 5 seconds. 27 already precompiled. Precompiling package dependencies... Precompiling packages... 4893.8 ms ✓ MacroTools 1787.7 ms ✓ InlineStrings 867.2 ms ✓ Reexport 1021.3 ms ✓ TensorCore 1289.4 ms ✓ ConstructionBase 2393.3 ms ✓ IrrationalConstants 994.6 ms ✓ Measures 1063.8 ms ✓ DataValueInterfaces 964.8 ms ✓ StatsAPI 2612.5 ms ✓ Format 1160.2 ms ✓ Observables 2464.9 ms ✓ Combinatorics 1065.8 ms ✓ Contour 887.6 ms ✓ CommonSolve 926.9 ms ✓ LaTeXStrings 1069.1 ms ✓ Glob 1236.0 ms ✓ Statistics 1030.2 ms ✓ StaticArraysCore 1025.7 ms ✓ StableRNGs 888.3 ms ✓ IfElse 881.3 ms ✓ PtrArrays 971.1 ms ✓ SimpleBufferStream 1339.1 ms ✓ Grisu 1053.9 ms ✓ ManualMemory 953.0 ms ✓ DataAPI 1114.7 ms ✓ SciMLPublic 939.0 ms ✓ CommonWorldInvalidations 1442.6 ms ✓ URIs 1163.4 ms ✓ InvertedIndices 1094.4 ms ✓ InverseFunctions 927.6 ms ✓ CompositionsBase 1042.9 ms ✓ BitFlags 1279.7 ms ✓ AbstractTrees 1275.7 ms ✓ MuladdMacro 1200.2 ms ✓ AbstractFFTs 1103.0 ms ✓ WorkerUtilities 2526.0 ms ✓ FillArrays 1155.0 ms ✓ IntegerMathUtils 994.2 ms ✓ UnPack 974.0 ms ✓ DBInterface 1457.2 ms ✓ OrderedCollections 1147.8 ms ✓ GroupSlices 1218.7 ms ✓ DocStringExtensions 2385.7 ms ✓ BSON 1153.3 ms ✓ Unzip 1752.3 ms ✓ OffsetArrays 1117.9 ms ✓ BufferedStreams 904.1 ms ✓ SIMDTypes 830.6 ms ✓ IteratorInterfaceExtensions 2025.8 ms ✓ Crayons 1123.5 ms ✓ DelimitedFiles 1211.3 ms ✓ NaNMath 1272.8 ms ✓ Requires 1659.7 ms ✓ ConcurrentUtilities 1890.5 ms ✓ CpuId 2031.6 ms ✓ PDMats 1637.8 ms ✓ WoodburyMatrices 1315.9 ms ✓ Scratch 2432.4 ms ✓ SentinelArrays 1525.7 ms ✓ LoggingExtras 1927.3 ms ✓ StructUtils 1952.7 ms ✓ ProgressMeter 1255.2 ms ✓ Compat 1561.9 ms ✓ Preferences 3972.5 ms ✓ UnicodeFun 2171.5 ms ✓ TranscodingStreams 1524.0 ms ✓ ExceptionUnwrapping 677.2 ms ✓ ConstructionBase → ConstructionBaseLinearAlgebraExt 1137.3 ms ✓ Statistics → SparseArraysExt 4003.8 ms ✓ FixedPointNumbers 1594.4 ms ✓ Distances 1048.7 ms ✓ AliasTables 1293.3 ms ✓ Showoff 1923.3 ms ✓ ThreadingUtilities 1035.6 ms ✓ Missings 1095.1 ms ✓ PooledArrays 1286.7 ms ✓ InverseFunctions → InverseFunctionsDatesExt 1770.6 ms ✓ InverseFunctions → InverseFunctionsTestExt 876.2 ms ✓ CompositionsBase → CompositionsBaseInverseFunctionsExt 4248.7 ms ✓ OpenSSL 4489.6 ms ✓ AbstractFFTs → AbstractFFTsTestExt 1776.7 ms ✓ FillArrays → FillArraysSparseArraysExt 1131.8 ms ✓ FillArrays → FillArraysStatisticsExt 1212.5 ms ✓ Primes 3638.9 ms ✓ DataStructures 1443.3 ms ✓ LogExpFunctions 830.0 ms ✓ TableTraits 922.8 ms ✓ Ratios 1021.6 ms ✓ Adapt 4906.7 ms ✓ Memento 9594.0 ms ✓ FileIO 1678.9 ms ✓ FillArrays → FillArraysPDMatsExt 1576.9 ms ✓ AxisAlgorithms 1512.1 ms ✓ RelocatableFolders 960.5 ms ✓ Compat → CompatLinearAlgebraExt 1289.8 ms ✓ PrecompileTools 1634.1 ms ✓ JLLWrappers 1727.7 ms ✓ BioGenerics 2684.6 ms ✓ CodecZstd 1742.1 ms ✓ CodecZlib 2831.0 ms ✓ ColorTypes 1665.1 ms ✓ Distances → DistancesSparseArraysExt 5705.2 ms ✓ Accessors 2675.5 ms ✓ FFTA 1314.1 ms ✓ SortingAlgorithms 2467.0 ms ✓ QuadGK 888.3 ms ✓ LogExpFunctions → LogExpFunctionsInverseFunctionsExt 1977.4 ms ✓ Tables 990.6 ms ✓ Ratios → RatiosFixedPointNumbersExt 1144.6 ms ✓ ArrayInterface 1334.7 ms ✓ Adapt → AdaptSparseArraysExt 889.8 ms ✓ OffsetArrays → OffsetArraysAdaptExt 2540.6 ms ✓ ChainRulesCore 2381.7 ms ✓ FilePathsBase 4151.9 ms ✓ StringManipulation 15338.0 ms ✓ SIMD 15231.4 ms ✓ StaticArrays 3738.7 ms ✓ RecipesBase 18570.7 ms ✓ Parsers 7512.9 ms ✓ Static 44984.7 ms ✓ JLD2 2378.6 ms ✓ Libffi_jll 2225.3 ms ✓ Xorg_libICE_jll 2316.3 ms ✓ LZO_jll 2824.2 ms ✓ eudev_jll 2343.5 ms ✓ mtdev_jll 2519.6 ms ✓ Bzip2_jll 2459.6 ms ✓ XZ_jll 2225.0 ms ✓ Rmath_jll 2501.6 ms ✓ OpenSpecFun_jll 1753.3 ms ✓ Xorg_xtrans_jll 2352.2 ms ✓ Opus_jll 2282.7 ms ✓ x265_jll 2363.5 ms ✓ fzf_jll 2428.4 ms ✓ libpng_jll 2588.2 ms ✓ Arpack_jll 1728.0 ms ✓ EpollShim_jll 2284.8 ms ✓ Libmount_jll 2446.0 ms ✓ libfdk_aac_jll 2330.7 ms ✓ Libuuid_jll 2332.7 ms ✓ FriBidi_jll 2488.0 ms ✓ LERC_jll 2484.5 ms ✓ Xorg_libXau_jll 1554.8 ms ✓ dlfcn_win32_jll 2377.3 ms ✓ Ogg_jll 2563.1 ms ✓ libevdev_jll 2325.2 ms ✓ LAME_jll 2444.4 ms ✓ Graphite2_jll 2428.1 ms ✓ x264_jll 2499.9 ms ✓ LLVMOpenMP_jll 2586.6 ms ✓ Libiconv_jll 2584.8 ms ✓ MbedTLS_jll 2508.1 ms ✓ libaom_jll 2528.6 ms ✓ Xorg_libXdmcp_jll 2384.8 ms ✓ Expat_jll 2415.3 ms ✓ JpegTurbo_jll 1770.7 ms ✓ BGZFStreams 1459.7 ms ✓ ColorTypes → StyledStringsExt 8480.0 ms ✓ Colors 3997.5 ms ✓ ColorVectorSpace 2391.8 ms ✓ Accessors → TestExt 3004.0 ms ✓ Accessors → LinearAlgebraExt 5060.7 ms ✓ StatsBase 1595.1 ms ✓ TableOperations 1263.7 ms ✓ StructUtils → StructUtilsTablesExt 840.4 ms ✓ ArrayInterface → ArrayInterfaceStaticArraysCoreExt 1476.7 ms ✓ ArrayInterface → ArrayInterfaceSparseArraysExt 1672.5 ms ✓ ChainRulesCore → ChainRulesCoreSparseArraysExt 1053.1 ms ✓ AbstractFFTs → AbstractFFTsChainRulesCoreExt 978.3 ms ✓ Distances → DistancesChainRulesCoreExt 3755.9 ms ✓ LogExpFunctions → LogExpFunctionsChainRulesCoreExt 1124.0 ms ✓ ArrayInterface → ArrayInterfaceChainRulesCoreExt 3237.5 ms ✓ FilePathsBase → FilePathsBaseTestExt 1364.6 ms ✓ FilePathsBase → FilePathsBaseMmapExt 41513.5 ms ✓ PrettyTables 19720.1 ms ✓ Automa 1843.4 ms ✓ StaticArrays → StaticArraysStatisticsExt 1964.3 ms ✓ StaticArrays → StaticArraysChainRulesCoreExt 1898.7 ms ✓ ConstructionBase → ConstructionBaseStaticArraysExt 2069.5 ms ✓ FillArrays → FillArraysStaticArraysExt 1987.2 ms ✓ Adapt → AdaptStaticArraysExt 2059.8 ms ✓ Accessors → StaticArraysExt 8391.6 ms ✓ JSON 1398.1 ms ✓ InlineStrings → ParsersExt 1342.5 ms ✓ BitTwiddlingConvenienceFunctions 3265.2 ms ✓ CPUSummary 9522.5 ms ✓ StaticArrayInterface 2407.9 ms ✓ Xorg_libSM_jll 2205.8 ms ✓ CodecBzip2 2430.1 ms ✓ FreeType2_jll 1991.3 ms ✓ CodecXz 1951.1 ms ✓ Rmath 5575.9 ms ✓ SpecialFunctions 2902.0 ms ✓ JLFzf 1744.0 ms ✓ Arpack 2367.7 ms ✓ SQLite_jll 2361.8 ms ✓ libvorbis_jll 2382.0 ms ✓ libinput_jll 2228.3 ms ✓ Pixman_jll 2496.3 ms ✓ GettextRuntime_jll 2603.6 ms ✓ MbedTLS 2571.5 ms ✓ Xorg_libxcb_jll 2465.5 ms ✓ Dbus_jll 2409.3 ms ✓ Wayland_jll 2476.4 ms ✓ Ghostscript_jll 2441.6 ms ✓ Libtiff_jll 2336.8 ms ✓ Widgets 10153.1 ms ✓ ColorSchemes 7617.7 ms ✓ Roots 1665.2 ms ✓ PDMats → StatsBaseExt 8351.7 ms ✓ JLSO 82251.6 ms ✓ DataFrames [ Info: Compiling VCF parser... 17332.5 ms ✓ VariantCallFormat 8965.8 ms ✓ NearestNeighbors 23562.4 ms ✓ ArrayLayouts 4491.9 ms ✓ Interpolations 3060.3 ms ✓ BenchmarkTools 2858.0 ms ✓ WeakRefStrings 2652.0 ms ✓ HostCPUFeatures 2033.6 ms ✓ PolyesterWeave 1446.8 ms ✓ StaticArrayInterface → StaticArrayInterfaceOffsetArraysExt 1930.7 ms ✓ StaticArrayInterface → StaticArrayInterfaceStaticArraysExt 1225.7 ms ✓ CloseOpenIntervals 1567.2 ms ✓ LayoutPointers 2171.5 ms ✓ Fontconfig_jll 3962.7 ms ✓ SpecialFunctions → SpecialFunctionsChainRulesCoreExt 2414.8 ms ✓ HypergeometricFunctions 1706.6 ms ✓ ColorVectorSpace → SpecialFunctionsExt 2400.7 ms ✓ Glib_jll 27210.8 ms ✓ HTTP 2362.6 ms ✓ Xorg_xcb_util_jll 2520.1 ms ✓ Xorg_libX11_jll 6630.2 ms ✓ Latexify 19116.4 ms ✓ PlotUtils 1493.6 ms ✓ Roots → RootsChainRulesCoreExt 4588.3 ms ✓ Clustering 3953.3 ms ✓ ArrayLayouts → ArrayLayoutsSparseArraysExt 4512.9 ms ✓ MatrixFactorizations 28034.4 ms ✓ CSV 4414.8 ms ✓ SQLite 16718.8 ms ✓ VectorizationBase 3491.0 ms ✓ StatsFuns 7181.6 ms ✓ FileIO → HTTPExt 2432.4 ms ✓ Xorg_xcb_util_renderutil_jll 2441.3 ms ✓ Xorg_xcb_util_wm_jll 2366.2 ms ✓ Xorg_xcb_util_image_jll 2314.2 ms ✓ Xorg_xcb_util_keysyms_jll 2391.9 ms ✓ Xorg_libXfixes_jll 2437.0 ms ✓ Xorg_libXrender_jll 2326.4 ms ✓ Xorg_libXext_jll 2278.5 ms ✓ Xorg_libxkbfile_jll 2846.0 ms ✓ Latexify → SparseArraysExt 8848.2 ms ✓ Latexify → DataFramesExt 10013.7 ms ✓ PlotThemes 10164.8 ms ✓ RecipesPipeline WARNING: Constructor for type "MemoryLayout" was extended in `LazyArrays` without explicit qualification or import.  NOTE: Assumed "MemoryLayout" refers to `ArrayLayouts.MemoryLayout`. This behavior is deprecated and may differ in future versions.  NOTE: This behavior may have differed in Julia versions prior to 1.12.  Hint: If you intended to create a new generic function of the same name, use `function MemoryLayout end`.  Hint: To silence the warning, qualify `MemoryLayout` as `ArrayLayouts.MemoryLayout` in the method signature or explicitly `import ArrayLayouts: MemoryLayout`. 9291.9 ms ✓ LazyArrays 4760.1 ms ✓ BGEN 4010.1 ms ✓ SLEEFPirates 4415.9 ms ✓ StatsFuns → StatsFunsChainRulesCoreExt 1544.7 ms ✓ StatsFuns → StatsFunsInverseFunctionsExt 10125.1 ms ✓ Distributions 2482.4 ms ✓ Xorg_xcb_util_cursor_jll 2527.8 ms ✓ Xorg_libXcursor_jll 2617.1 ms ✓ Xorg_libXrandr_jll 2487.0 ms ✓ Xorg_libXinerama_jll 2492.9 ms ✓ Xorg_libXi_jll 2672.5 ms ✓ Cairo_jll 2578.4 ms ✓ Libglvnd_jll 2440.1 ms ✓ Xorg_xkbcomp_jll 4664.6 ms ✓ LazyArrays → LazyArraysStaticArraysExt 41490.6 ms ✓ LoopVectorization 4192.5 ms ✓ Distributions → DistributionsTestExt 3875.7 ms ✓ Distributions → DistributionsChainRulesCoreExt 4961.5 ms ✓ HypothesisTests 4327.5 ms ✓ MultivariateStats 2667.1 ms ✓ HarfBuzz_jll 1810.1 ms ✓ Xorg_xkeyboard_config_jll 3907.9 ms ✓ LoopVectorization → SpecialFunctionsExt 4630.2 ms ✓ KernelDensity 6347.4 ms ✓ VCFTools 2566.7 ms ✓ libass_jll 2776.9 ms ✓ Pango_jll 2561.2 ms ✓ xkbcommon_jll 28973.9 ms ✓ SnpArrays 2672.5 ms ✓ FFMPEG_jll 2546.3 ms ✓ Vulkan_Loader_jll 2693.9 ms ✓ libdecor_jll 1532.7 ms ✓ FFMPEG 2736.6 ms ✓ Qt6Base_jll 2642.8 ms ✓ GLFW_jll 2643.9 ms ✓ Qt6ShaderTools_jll 2713.9 ms ✓ Qt6Svg_jll 2787.3 ms ✓ GR_jll 2806.7 ms ✓ Qt6Declarative_jll 2767.5 ms ✓ Qt6Wayland_jll 7324.9 ms ✓ GR 107055.6 ms ✓ Plots 22761.0 ms ✓ Plots → FileIOExt 24877.1 ms ✓ StatsPlots 33586.8 ms ✓ MendelImpute 300 dependencies successfully precompiled in 1354 seconds. 41 already precompiled. 2 dependencies had output during precompilation: ┌ VariantCallFormat │ [ Info: Compiling VCF parser... └ ┌ LazyArrays │ WARNING: Constructor for type "MemoryLayout" was extended in `LazyArrays` without explicit qualification or import. │ NOTE: Assumed "MemoryLayout" refers to `ArrayLayouts.MemoryLayout`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function MemoryLayout end`. │ Hint: To silence the warning, qualify `MemoryLayout` as `ArrayLayouts.MemoryLayout` in the method signature or explicitly `import ArrayLayouts: MemoryLayout`. └ Precompilation completed after 1367.75s ################################################################################ # Testing # Testing MendelImpute Status `/tmp/jl_wGzZdQ/Project.toml` ⌅ [6db4b851] BGEN v0.1.17 [6e4b80f9] BenchmarkTools v1.6.3 [336ed68f] CSV v0.10.16 [a93c6f00] DataFrames v1.8.1 [b4f34e82] Distances v0.10.12 [5789e2e9] FileIO v1.18.0 [53c48c17] FixedPointNumbers v0.8.5 [d853e229] GroupSlices v0.0.3 ⌅ [033835bb] JLD2 v0.4.55 [9da8a3cd] JLSO v2.7.0 ⌅ [5078a376] LazyArrays v1.10.0 [e47305d1] MendelImpute v1.2.6 [92933f4c] ProgressMeter v1.11.0 [4e780e97] SnpArrays 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Testing Running tests... Test Summary: | Pass Total Time search breakpoints | 8 8 3.0s Test Summary: | Pass Total Time intersect code | 9 9 0.9s Test Summary: | Pass Total Time dynamic programming | 10 10 3.9s ┌ Warning: `Progress(n::Integer, dt::Real, desc::AbstractString = "Progress: ", barlen = nothing, color::Symbol = :green, output::IO = stderr; offset::Integer = 0)` is deprecated, use `Progress(n; dt = dt, desc = desc, barlen = barlen, color = color, output = output, offset = offset)` instead. │ caller = ip:0x0 └ @ Core :-1 importing reference data... 30%|███████▎ | ETA: 0:00:12 importing reference data... 62%|██████████████▊ | ETA: 0:00:07 importing reference data... 93%|██████████████████████▎ | ETA: 0:00:01 importing reference data... 100%|████████████████████████| Time: 0:00:17 131.643447 seconds (220.38 M allocations: 11.832 GiB, 3.42% gc time, 78.52% compilation time: 2% of which was recompilation) 11.867949 seconds (12.62 M allocations: 751.088 MiB, 9.05% gc time, 98.27% compilation time: <1% of which was recompilation) Test Summary: | Pass Total Time compress | 11 11 2m24.2s Number of threads = 1 Importing reference haplotype data... Computing optimal haplotypes... 12%|██▌ | ETA: 0:02:51 Computing optimal haplotypes... 100%|████████████████████| Time: 0:00:27 Phasing... 2%|▉ | ETA: 0:04:25 Phasing... 100%|█████████████████████████████████████████| Time: 0:00:07 Total windows = 16, averaging ~ 708 unique haplotypes per window. Timings: Data import = 1.39839 seconds import target data = 1.15519 seconds import compressed haplotypes = 0.2432 seconds Computing haplotype pair = 30.5065 seconds BLAS3 mul! to get M and N = 0.163304 seconds per thread haplopair search = 3.182 seconds per thread initializing missing = 0.0126094 seconds per thread allocating and viewing = 0.0331604 seconds per thread index conversion = 0.000152378 seconds per thread Phasing by win-win intersection = 8.46551 seconds Window-by-window intersection = 0.00328576 seconds per thread Breakpoint search = 3.23999 seconds per thread Recording result = 0.00106379 seconds per thread Imputation = 8.44369 seconds Imputing missing = 4.88071 seconds Writing to file = 3.56298 seconds Total time = 49.0305 seconds 56.019062 seconds (18.18 M allocations: 1.088 GiB, 0.87% gc time, 91.52% compilation time: <1% of which was recompilation) Test Summary: | Pass Total Time impute & phasing | 10 10 1m39.9s Number of threads = 1 Importing reference haplotype data... Total windows = 16, averaging ~ 708 unique haplotypes per window. Timings: Data import = 0.41395 seconds import target data = 0.219752 seconds import compressed haplotypes = 0.194198 seconds Computing haplotype pair = 3.37652 seconds BLAS3 mul! to get M and N = 0.160271 seconds per thread haplopair search = 3.16865 seconds per thread initializing missing = 0.0121869 seconds per thread allocating and viewing = 0.0304252 seconds per thread index conversion = 0.000107938 seconds per thread Phasing by win-win intersection = 0.202232 seconds Window-by-window intersection = 0.00324552 seconds per thread Breakpoint search = 0.193173 seconds per thread Recording result = 0.00105761 seconds per thread Imputation = 0.668653 seconds Imputing missing = 0.0700794 seconds Writing to file = 0.598574 seconds Total time = 4.66173 seconds 4.662109 seconds (1.79 M allocations: 153.719 MiB, 1.01% gc time) Number of threads = 1 Importing reference haplotype data... Total windows = 16, averaging ~ 708 unique haplotypes per window. Timings: Data import = 3.6976 seconds import target data = 3.45206 seconds import compressed haplotypes = 0.245541 seconds Computing haplotype pair = 3.41664 seconds BLAS3 mul! to get M and N = 0.158833 seconds per thread haplopair search = 3.20788 seconds per thread initializing missing = 0.0124854 seconds per thread allocating and viewing = 0.0323758 seconds per thread index conversion = 0.0001213 seconds per thread Phasing by win-win intersection = 0.206124 seconds Window-by-window intersection = 0.00299694 seconds per thread Breakpoint search = 0.197543 seconds per thread Recording result = 0.00099023 seconds per thread Imputation = 2.05256 seconds Imputing missing = 0.0728949 seconds Writing to file = 1.97966 seconds Total time = 9.37523 seconds 9.375640 seconds (1.68 M allocations: 153.111 MiB, 0.74% gc time, 50.73% compilation time) Number of threads = 1 Importing reference haplotype data... Computing optimal haplotypes... 62%|████████████▌ | ETA: 0:00:03 Computing optimal haplotypes... 100%|████████████████████| Time: 0:00:06 Phasing... 15%|██████▏ | ETA: 0:00:33 Phasing... 100%|█████████████████████████████████████████| Time: 0:00:06 Total windows = 16, averaging ~ 708 unique haplotypes per window. Timings: Data import = 1.87367 seconds import target data = 1.66733 seconds import compressed haplotypes = 0.206346 seconds Computing haplotype pair = 6.99043 seconds BLAS3 mul! to get M and N = 0.168522 seconds per thread haplopair search = 3.29608 seconds per thread initializing missing = 0.0141002 seconds per thread allocating and viewing = 0.0327666 seconds per thread index conversion = 0.000129908 seconds per thread Phasing by win-win intersection = 6.61718 seconds Window-by-window intersection = 0.00315536 seconds per thread Breakpoint search = 3.5236 seconds per thread Recording result = 0.00107824 seconds per thread Imputation = 4.93957 seconds Imputing missing = 4.24465 seconds Writing to file = 0.694918 seconds Total time = 20.4212 seconds 20.445956 seconds (6.39 M allocations: 373.326 MiB, 0.74% gc time, 74.92% compilation time) Test Summary: | Pass Total Time PLINK and dosage inputs | 2 2 39.7s Number of threads = 1 Importing reference haplotype data... Total windows = 16, averaging ~ 708 unique haplotypes per window. Timings: Data import = 0.452563 seconds import target data = 0.25915 seconds import compressed haplotypes = 0.193413 seconds Computing haplotype pair = 3.29778 seconds BLAS3 mul! to get M and N = 0.158221 seconds per thread haplopair search = 3.09216 seconds per thread initializing missing = 0.0121715 seconds per thread allocating and viewing = 0.0301907 seconds per thread index conversion = 0.000130299 seconds per thread Phasing by win-win intersection = 1.69356 seconds Window-by-window intersection = 0.00317606 seconds per thread Breakpoint search = 0.179306 seconds per thread Recording result = 0.000216608 seconds per thread Imputation = 2.68615 seconds Imputing missing = 3.95434e-5 seconds Writing to file = 2.68611 seconds Total time = 8.13047 seconds 8.130878 seconds (3.07 M allocations: 174.494 MiB, 0.59% gc time, 51.06% compilation time) importing reference data... 45%|██████████▊ | ETA: 0:00:06 importing reference data... 89%|█████████████████████▍ | ETA: 0:00:01 importing reference data... 100%|████████████████████████| Time: 0:00:13 Test Summary: | Pass Total Time decompress ultra-compressed files | 1 1 27.0s Test Summary: | Pass Total Time 0 allocations in phasing | 2 2 9.0s Test Summary: | Pass Total Time 0 allocation in haplopair | 2 2 19.4s import BGEN: Error During Test at /home/pkgeval/.julia/packages/MendelImpute/z2M6N/test/runtests.jl:316 Got exception outside of a @test startproc must be called before process Stacktrace: [1] error(s::String) @ Base ./error.jl:56 [2] process(codec::CodecZlib.ZlibDecompressor, input::TranscodingStreams.Memory, output::TranscodingStreams.Memory, error_ref::TranscodingStreams.Error) @ CodecZlib ~/.julia/packages/CodecZlib/lEc2s/src/decompression.jl:186 [3] decompress(io::IOStream, v::Variant, h::BGEN.Header; decompressed::Nothing) @ BGEN ~/.julia/packages/BGEN/dfgRU/src/genotypes.jl:72 [4] decompress @ ~/.julia/packages/BGEN/dfgRU/src/genotypes.jl:42 [inlined] [5] first_allele_dosage!(b::Bgen, v::Variant; T::Type, mean_impute::Bool, clear_decompressed::Bool, data::Nothing, decompressed::Nothing, is_decompressed::Bool) @ BGEN ~/.julia/packages/BGEN/dfgRU/src/genotypes.jl:571 [6] first_allele_dosage! @ ~/.julia/packages/BGEN/dfgRU/src/genotypes.jl:549 [inlined] [7] convert_gt(t::Type{Float64}, b::Bgen) @ MendelImpute ~/.julia/packages/MendelImpute/z2M6N/src/read.jl:38 [8] macro expansion @ ./timing.jl:739 [inlined] [9] macro expansion @ ~/.julia/packages/MendelImpute/z2M6N/test/runtests.jl:318 [inlined] [10] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2243 [inlined] [11] top-level scope @ ~/.julia/packages/MendelImpute/z2M6N/test/runtests.jl:318 [12] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:324 [13] top-level scope @ none:6 [14] eval(m::Module, e::Any) @ Core ./boot.jl:517 [15] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [16] _start() @ Base ./client.jl:585 Test Summary: | Error Total Time import BGEN | 1 1 1.6s RNG of the outermost testset: Xoshiro(0x58c8832c8278ed10, 0xe1399f27fce852e5, 0x3913f493e1a088a1, 0x1e9126ff92b714ff, 0xefd13884e45623dd) ERROR: LoadError: Some tests did not pass: 0 passed, 0 failed, 1 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/MendelImpute/z2M6N/test/runtests.jl:316 Testing failed after 408.51s ERROR: LoadError: Package MendelImpute 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:3138 [3] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:3003 [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:586 [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:562 [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:223 [12] include(mod::Module, _path::String) @ Base ./Base.jl:323 [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [14] _start() @ Base ./client.jl:585 in expression starting at /PkgEval.jl/scripts/evaluate.jl:214 PkgEval failed after 1909.37s: package tests unexpectedly errored