Package evaluation to test MendelImpute on Julia 1.14.0-DEV.2457 (6e8868916a*) started at 2026-06-29T05:03:21.066 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.14` Set-up completed after 14.56s ################################################################################ # Installation # Installing MendelImpute... Resolving package versions... Installed libaom_jll ─────────────────────── v3.13.3+0 Installed CommonWorldInvalidations ───────── v1.1.0 Installed HarfBuzz_jll ───────────────────── v8.5.1+0 Installed libass_jll ─────────────────────── v0.17.4+0 Installed Bzip2_jll ──────────────────────── v1.0.9+0 Installed Libuuid_jll ────────────────────── v2.42.0+0 Installed Glob ───────────────────────────── v1.5.0 Installed SIMDTypes ──────────────────────── v0.1.0 Installed MultivariateStats ──────────────── v0.10.4 Installed Qt6Base_jll ────────────────────── v6.10.2+2 Installed Libtiff_jll ────────────────────── v4.7.2+0 Installed InlineStrings ──────────────────── v1.4.5 Installed PlotThemes ─────────────────────── v3.3.0 Installed libinput_jll ───────────────────── v1.28.1+0 Installed Graphite2_jll ──────────────────── v1.3.16+0 Installed OrderedCollections ─────────────── v1.8.2 Installed Cairo_jll ──────────────────────── v1.18.7+0 Installed Xorg_libXinerama_jll ───────────── v1.1.7+0 Installed HypothesisTests ────────────────── v0.11.8 Installed NearestNeighbors ───────────────── v0.4.27 Installed CpuId ──────────────────────────── v0.3.1 Installed SentinelArrays ─────────────────── v1.4.10 Installed Distances ──────────────────────── v0.10.12 Installed Xorg_libpciaccess_jll ──────────── v0.19.0+0 Installed Fontconfig_jll ─────────────────── v2.17.1+0 Installed BSON ───────────────────────────── v0.3.9 Installed fzf_jll ────────────────────────── v0.61.1+0 Installed FileIO ─────────────────────────── v1.19.0 Installed StaticArrayInterface ───────────── v1.10.0 Installed GroupSlices ────────────────────── v0.0.3 Installed QuadGK ─────────────────────────── v2.11.3 Installed NaNMath ────────────────────────── v1.1.4 Installed Widgets ────────────────────────── v0.6.7 Installed OpenSpecFun_jll ────────────────── v0.5.6+0 Installed Opus_jll ───────────────────────── v1.6.1+0 Installed libva_jll ──────────────────────── v2.23.0+0 Installed WoodburyMatrices ───────────────── v1.1.0 Installed Tables ─────────────────────────── v1.13.0 Installed Arpack ─────────────────────────── v0.5.4 Installed Ogg_jll ────────────────────────── v1.3.6+0 Installed Unzip ──────────────────────────── v0.2.0 Installed InverseFunctions ───────────────── v0.1.17 Installed Xorg_libxcb_jll ────────────────── v1.17.1+0 Installed Reexport ───────────────────────── v1.2.2 Installed Xorg_xcb_util_wm_jll ───────────── v0.4.2+0 Installed DBInterface ────────────────────── v2.6.1 Installed Static ─────────────────────────── v1.4.2 Installed Missings ───────────────────────── v1.2.0 Installed Preferences ────────────────────── v1.5.2 Installed FFMPEG ─────────────────────────── v0.4.5 Installed TableTraits ────────────────────── v1.0.1 Installed LERC_jll ───────────────────────── v4.1.0+0 Installed SortingAlgorithms ──────────────── v1.2.3 Installed LaTeXStrings ───────────────────── v1.4.0 Installed Crayons ────────────────────────── v4.1.1 Installed LLVMOpenMP_jll ─────────────────── v18.1.8+0 Installed libdrm_jll ─────────────────────── v2.4.125+1 Installed eudev_jll ──────────────────────── v3.2.14+0 Installed Xorg_libICE_jll ────────────────── v1.1.2+0 Installed Grisu ──────────────────────────── v1.0.2 Installed EpollShim_jll ──────────────────── v0.0.20230411+1 (no artifacts on this platform) Installed Format ─────────────────────────── v1.3.7 Installed UnPack ─────────────────────────── v1.0.2 Installed ManualMemory ───────────────────── v0.1.8 Installed URIs ───────────────────────────── v1.6.1 Installed DataStructures ─────────────────── v0.19.5 Installed FillArrays ─────────────────────── v1.16.0 Installed CodecZstd ──────────────────────── v0.8.7 Installed MacroTools ─────────────────────── v0.5.16 Installed AbstractTrees ──────────────────── v0.4.5 Installed DelimitedFiles ─────────────────── v1.9.1 Installed VCFTools ───────────────────────── v0.2.10 Installed StatsBase ──────────────────────── v0.34.12 Installed Xorg_xcb_util_jll ──────────────── v0.4.1+0 Installed VectorizationBase ──────────────── v0.21.74 Installed UnicodeFun ─────────────────────── v0.4.1 Installed x264_jll ───────────────────────── v10164.0.1+0 Installed Observables ────────────────────── v0.5.5 Installed CodecZlib ──────────────────────── v0.7.8 Installed ArrayInterface ─────────────────── v7.27.0 Installed HostCPUFeatures ────────────────── v0.1.18 Installed mtdev_jll ──────────────────────── v1.1.7+0 Installed Xorg_libXau_jll ────────────────── v1.0.13+0 Installed Xorg_libXfixes_jll ─────────────── v6.0.2+0 Installed Memento ────────────────────────── v1.5.0 Installed Clustering ─────────────────────── v0.15.8 Installed JLSO ───────────────────────────── v2.7.0 Installed DataValueInterfaces ────────────── v1.0.0 Installed LayoutPointers ─────────────────── v0.1.17 Installed Expat_jll ──────────────────────── v2.8.1+0 Installed StructUtils ────────────────────── v2.8.2 Installed Qt6ShaderTools_jll ─────────────── v6.10.2+1 Installed LoggingExtras ──────────────────── v1.2.0 Installed Libffi_jll ─────────────────────── v3.4.7+0 Installed Pixman_jll ─────────────────────── v0.46.4+0 Installed libdecor_jll ───────────────────── v0.2.2+0 Installed IrrationalConstants ────────────── v0.2.6 Installed IntegerMathUtils ───────────────── v0.1.3 Installed Contour ────────────────────────── v0.6.3 Installed Xorg_libXcursor_jll ────────────── v1.2.4+0 Installed libpng_jll ─────────────────────── v1.6.58+0 Installed ColorVectorSpace ───────────────── v0.11.0 Installed Xorg_xcb_util_keysyms_jll ──────── v0.4.1+0 Installed HTTP ───────────────────────────── v1.11.0 Installed ArrayLayouts ───────────────────── v1.12.2 Installed StableRNGs ─────────────────────── v1.0.4 Installed Roots ──────────────────────────── v3.0.0 Installed BitFlags ───────────────────────── v0.1.10 Installed Interpolations ─────────────────── v0.16.3 Installed libfdk_aac_jll ─────────────────── v2.0.4+0 Installed Scratch ────────────────────────── v1.3.0 Installed FFMPEG_jll ─────────────────────── v8.1.2+0 Installed SimpleBufferStream ─────────────── v1.2.0 Installed BufferedStreams ────────────────── v1.2.2 Installed PooledArrays ───────────────────── v1.4.3 Installed Qt6Svg_jll ─────────────────────── v6.10.2+0 Installed Qt6Declarative_jll ─────────────── v6.10.2+2 Installed PDMats ─────────────────────────── v0.11.40 Installed WorkerUtilities ────────────────── v1.6.1 Installed CodecXz ────────────────────────── v0.7.4 Installed TableOperations ────────────────── v1.2.0 Installed DocStringExtensions ────────────── v0.9.5 Installed SQLite ─────────────────────────── v1.8.1 Installed CompositionsBase ───────────────── v0.1.2 Installed Plots ──────────────────────────── v1.41.6 Installed CommonSolve ────────────────────── v0.2.9 Installed Rmath_jll ──────────────────────── v0.5.1+0 Installed RelocatableFolders ─────────────── v1.0.1 Installed KernelDensity ──────────────────── v0.6.12 Installed AliasTables ────────────────────── v1.1.3 Installed BitTwiddlingConvenienceFunctions ─ v0.1.6 Installed Ghostscript_jll ────────────────── v9.55.1+0 Installed SLEEFPirates ───────────────────── v0.6.46 Installed JLFzf ──────────────────────────── v0.1.11 Installed ConcurrentUtilities ────────────── v2.5.1 Installed Combinatorics ──────────────────── v1.1.0 Installed CSV ────────────────────────────── v0.10.16 Installed RecipesBase ────────────────────── v1.3.4 Installed IteratorInterfaceExtensions ────── v1.0.0 Installed DataAPI ────────────────────────── v1.16.0 Installed InvertedIndices ────────────────── v1.3.1 Installed libevdev_jll ───────────────────── v1.13.4+0 Installed SIMD ───────────────────────────── v3.7.2 Installed Colors ─────────────────────────── v0.13.1 Installed Xorg_libXi_jll ─────────────────── v1.8.3+0 Installed Wayland_jll ────────────────────── v1.24.0+0 Installed AbstractFFTs ───────────────────── v1.5.0 Installed ColorSchemes ───────────────────── v3.31.0 Installed Measures ───────────────────────── v0.3.3 Installed Xorg_libxkbfile_jll ────────────── v1.2.0+0 Installed StaticArraysCore ───────────────── v1.4.4 Installed StaticArrays ───────────────────── v1.9.18 Installed Latexify ───────────────────────── v0.16.10 Installed AxisAlgorithms ─────────────────── v1.1.0 Installed SciMLPublic ────────────────────── v1.2.1 Installed Glib_jll ───────────────────────── v2.86.3+0 Installed Libglvnd_jll ───────────────────── v1.7.1+1 Installed Xorg_xkbcomp_jll ───────────────── v1.4.7+0 Installed ColorTypes ─────────────────────── v0.12.1 Installed LogExpFunctions ────────────────── v1.0.1 Installed Requires ───────────────────────── v1.3.1 Installed StringManipulation ─────────────── v0.4.4 Installed Vulkan_Loader_jll ──────────────── v1.3.243+0 Installed Parsers ────────────────────────── v2.8.6 Installed JSON ───────────────────────────── v1.6.1 Installed Xorg_xcb_util_cursor_jll ───────── v0.1.6+0 Installed PrettyTables ───────────────────── v3.3.2 Installed Arpack_jll ─────────────────────── v3.5.2+0 Installed Distributions ──────────────────── v0.25.129 Installed Xorg_xcb_util_renderutil_jll ───── v0.3.10+0 Installed Rmath ──────────────────────────── v0.9.0 Installed CloseOpenIntervals ─────────────── v0.1.13 Installed StatsFuns ──────────────────────── v2.2.0 Installed StatsPlots ─────────────────────── v0.15.8 Installed BioGenerics ────────────────────── v0.1.5 Installed Xorg_xkeyboard_config_jll ──────── v2.47.0+1 Installed Xorg_libXdmcp_jll ──────────────── v1.1.6+0 Installed Xorg_libSM_jll ─────────────────── v1.2.6+0 Installed x265_jll ───────────────────────── v4.1.0+0 Installed XZ_jll ─────────────────────────── v5.8.3+0 Installed WeakRefStrings ─────────────────── v1.4.3 Installed JLLWrappers ────────────────────── v1.8.0 Installed DataFrames ─────────────────────── v1.8.2 Installed Primes ─────────────────────────── v0.5.7 Installed Pango_jll ──────────────────────── v1.57.1+0 Installed BGZFStreams ────────────────────── v0.3.2 Installed MendelImpute ───────────────────── v1.2.6 Installed RecipesPipeline ────────────────── v0.6.12 Installed ThreadingUtilities ─────────────── v0.5.6 Installed Accessors ──────────────────────── v0.1.45 Installed GR_jll ─────────────────────────── v0.73.26+0 Installed VariantCallFormat ──────────────── v0.5.9 Installed Adapt ──────────────────────────── v4.7.0 Installed Xorg_xtrans_jll ────────────────── v1.6.0+0 Installed FFTA ───────────────────────────── v0.3.1 Installed JpegTurbo_jll ──────────────────── v3.1.5+0 Installed Dbus_jll ───────────────────────── v1.16.2+0 Installed FilePathsBase ──────────────────── v0.9.24 Installed JLD2 ───────────────────────────── v0.4.55 Installed ConstructionBase ───────────────── v1.6.0 Installed ExceptionUnwrapping ────────────── v0.1.11 Installed Libmount_jll ───────────────────── v2.42.0+0 Installed TranscodingStreams ─────────────── v0.9.13 Installed Compat ─────────────────────────── v4.18.1 Installed TensorCore ─────────────────────── v0.1.1 Installed Xorg_libX11_jll ────────────────── v1.8.13+0 Installed PlotUtils ──────────────────────── v1.4.4 Installed HypergeometricFunctions ────────── v0.3.28 Installed LoopVectorization ──────────────── v0.12.174 Installed Statistics ─────────────────────── v1.11.1 Installed StatsAPI ───────────────────────── v1.8.0 Installed GR ─────────────────────────────── v0.73.26 Installed LazyArrays ─────────────────────── v1.10.0 Installed MbedTLS ────────────────────────── v1.1.10 Installed dlfcn_win32_jll ────────────────── v1.4.2+0 (no artifacts on this platform) Installed Xorg_xcb_util_image_jll ────────── v0.4.1+0 Installed xkbcommon_jll ──────────────────── v1.13.0+0 Installed OpenSSL ────────────────────────── v1.6.1 Installed OffsetArrays ───────────────────── v1.17.0 Installed ProgressMeter ──────────────────── v1.11.0 Installed PrecompileTools ────────────────── v1.3.4 Installed CodecBzip2 ─────────────────────── v0.8.5 Installed ChainRulesCore ─────────────────── v1.26.1 Installed GettextRuntime_jll ─────────────── v0.22.4+0 Installed Ratios ─────────────────────────── v0.4.5 Installed CPUSummary ─────────────────────── v0.2.7 Installed MatrixFactorizations ───────────── v2.2.0 Installed LAME_jll ───────────────────────── v3.100.3+0 Installed IfElse ─────────────────────────── v0.1.1 Installed libvorbis_jll ──────────────────── v1.3.8+0 Installed FriBidi_jll ────────────────────── v1.0.17+0 Installed GLFW_jll ───────────────────────── v3.4.1+1 Installed MuladdMacro ────────────────────── v0.2.6 Installed Xorg_libXrender_jll ────────────── v0.9.12+0 Installed Showoff ────────────────────────── v1.0.3 Installed FixedPointNumbers ──────────────── v0.8.6 Installed Libiconv_jll ───────────────────── v1.18.0+0 Installed SpecialFunctions ───────────────── v2.8.0 Installed PtrArrays ──────────────────────── v1.4.0 Installed FreeType2_jll ──────────────────── v2.14.3+1 Installed MbedTLS_jll ────────────────────── v2.28.1010+0 Installed Automa ─────────────────────────── v1.2.0 Installed Xorg_libXext_jll ───────────────── v1.3.8+0 Installed SQLite_jll ─────────────────────── v3.53.2+0 Installed Xorg_libXrandr_jll ─────────────── v1.5.6+0 Installed Qt6Wayland_jll ─────────────────── v6.10.2+1 Installed PolyesterWeave ─────────────────── v0.2.2 Installed SnpArrays ──────────────────────── v0.3.23 Installed BGEN ───────────────────────────── v0.1.17 Installing 83 artifacts Installed artifact Xorg_libXdmcp 67.7 KiB Installed artifact FriBidi 78.9 KiB Installed artifact Xorg_xcb_util 39.5 KiB Installed artifact Xorg_xcb_util_image 54.3 KiB Installed artifact Xorg_libXinerama 25.5 KiB Installed artifact Xorg_libXfixes 59.0 KiB Installed artifact Vulkan_Loader 177.3 KiB Installed artifact Xorg_xtrans 48.2 KiB Installed artifact Xorg_xcb_util_cursor 27.6 KiB Installed artifact Xorg_libXi 1.6 MiB Installed artifact libdrm 368.0 KiB Installed artifact libass 427.8 KiB Installed artifact HarfBuzz 1.7 MiB Installed artifact LLVMOpenMP 661.6 KiB Installed artifact Xorg_xkbcomp 274.8 KiB Installed artifact FreeType2 1.5 MiB Installed artifact Xorg_libICE 384.9 KiB Installed artifact Xorg_xcb_util_keysyms 17.8 KiB Installed artifact libva 235.7 KiB Installed artifact Graphite2 120.3 KiB Installed artifact Xorg_libXcursor 227.1 KiB Installed artifact Libtiff 2.3 MiB Installed artifact Xorg_libXrandr 97.3 KiB Installed artifact libpng 329.4 KiB Installed artifact Xorg_libXau 36.6 KiB Installed artifact Xorg_libSM 164.1 KiB Installed artifact Xorg_libXrender 435.9 KiB Installed artifact Fontconfig 984.8 KiB Installed artifact MbedTLS 2.2 MiB Installed artifact Pixman 390.8 KiB Installed artifact LAME 292.5 KiB Installed artifact Dbus 489.8 KiB Installed artifact Xorg_xcb_util_renderutil 32.1 KiB Installed artifact Rmath 121.9 KiB Installed artifact Xorg_libX11 4.8 MiB Installed artifact Bzip2 503.5 KiB Installed artifact Wayland 390.6 KiB Installed artifact SQLite 1.8 MiB Installed artifact Xorg_libxcb 2.1 MiB Installed artifact libfdk_aac 2.8 MiB Installed artifact Xorg_libpciaccess 26.2 KiB Installed artifact testfiles 6.2 MiB Installed artifact Ghostscript 31.4 MiB Installed artifact Libglvnd 833.5 KiB Installed artifact XZ 1.6 MiB Installed artifact GLFW 187.9 KiB Installed artifact Pango 2.1 MiB Installed artifact libevdev 117.1 KiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact Libiconv 1.9 MiB Installed artifact Qt6ShaderTools 2.1 MiB Installed artifact libaom 6.4 MiB Installed artifact Qt6Wayland 1.4 MiB Installed artifact xkbcommon 298.7 KiB Installed artifact x265 1.4 MiB Installed artifact libvorbis 271.0 KiB Installed artifact eudev 3.9 MiB Installed artifact mtdev 79.6 KiB Installed artifact Xorg_libxkbfile 91.1 KiB Installed artifact Xorg_xcb_util_wm 147.9 KiB Installed artifact Opus 960.9 KiB Installed artifact GR 19.3 MiB Installed artifact LERC 267.4 KiB Installed artifact Expat 288.6 KiB Installed artifact libdecor 44.1 KiB Installed artifact Libuuid 3.9 MiB Installed artifact GettextRuntime 543.0 KiB Installed artifact fzf 3.3 MiB Installed artifact x264 2.1 MiB Installed artifact FFMPEG 11.9 MiB Installed artifact Qt6Svg 386.4 KiB Installed artifact Xorg_xkeyboard_config 545.0 KiB Installed artifact Glib 7.7 MiB Installed artifact Libffi 44.2 KiB Installed artifact JpegTurbo 1.4 MiB Installed artifact libinput 1.0 MiB Installed artifact Ogg 250.3 KiB Installed artifact Arpack 138.3 KiB Installed artifact Qt6Declarative 23.8 MiB Installed artifact Xorg_libXext 286.6 KiB Installed artifact Libmount 6.9 MiB Installed artifact Cairo 2.2 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 v0.1.45 [79e6a3ab] + Adapt v4.7.0 [66dad0bd] + AliasTables v1.1.3 [7d9fca2a] + Arpack v0.5.4 [4fba245c] + ArrayInterface v7.27.0 [4c555306] + ArrayLayouts v1.12.2 [67c07d97] + Automa v1.2.0 [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 v0.1.10 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [e1450e63] + BufferedStreams v1.2.2 [2a0fbf3d] + CPUSummary v0.2.7 [336ed68f] + CSV v0.10.16 [d360d2e6] + ChainRulesCore v1.26.1 [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 v0.2.9 [f70d9fcc] + CommonWorldInvalidations v1.1.0 [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 v1.8.2 [864edb3b] + DataStructures v0.19.5 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.129 [ffbed154] + DocStringExtensions v0.9.5 [460bff9d] + ExceptionUnwrapping v0.1.11 [c87230d0] + FFMPEG v0.4.5 [b86e33f2] + FFTA v0.3.1 [5789e2e9] + FileIO v1.19.0 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.16.0 ⌅ [53c48c17] + FixedPointNumbers v0.8.6 [1fa38f19] + Format v1.3.7 [28b8d3ca] + GR v0.73.26 [c27321d9] + Glob v1.5.0 [42e2da0e] + Grisu v1.0.2 [d853e229] + GroupSlices v0.0.3 ⌅ [cd3eb016] + HTTP v1.11.0 [3e5b6fbb] + HostCPUFeatures v0.1.18 [34004b35] + HypergeometricFunctions v0.3.28 [09f84164] + HypothesisTests v0.11.8 [615f187c] + IfElse v0.1.1 [842dd82b] + InlineStrings v1.4.5 [18e54dd8] + IntegerMathUtils v0.1.3 [a98d9a8b] + Interpolations v0.16.3 [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 v1.8.0 [9da8a3cd] + JLSO v2.7.0 [682c06a0] + JSON v1.6.1 [5ab0869b] + KernelDensity v0.6.12 [b964fa9f] + LaTeXStrings v1.4.0 [23fbe1c1] + Latexify v0.16.10 [10f19ff3] + LayoutPointers v0.1.17 ⌅ [5078a376] + LazyArrays v1.10.0 [2ab3a3ac] + LogExpFunctions v1.0.1 [e6f89c97] + LoggingExtras v1.2.0 [bdcacae8] + LoopVectorization v0.12.174 [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 v1.5.0 [e47305d1] + MendelImpute v1.2.6 [e1d29d7a] + Missings v1.2.0 [46d2c3a1] + MuladdMacro v0.2.6 [6f286f6a] + MultivariateStats v0.10.4 [77ba4419] + NaNMath v1.1.4 [b8a86587] + NearestNeighbors v0.4.27 [510215fc] + Observables v0.5.5 [6fe1bfb0] + OffsetArrays v1.17.0 [4d8831e6] + OpenSSL v1.6.1 ⌅ [bac558e1] + OrderedCollections v1.8.2 [90014a1f] + PDMats v0.11.40 [69de0a69] + Parsers v2.8.6 [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 v1.3.4 [21216c6a] + Preferences v1.5.2 [08abe8d2] + PrettyTables v3.3.2 [27ebfcd6] + Primes v0.5.7 [92933f4c] + ProgressMeter v1.11.0 [43287f4e] + PtrArrays v1.4.0 [1fd47b50] + QuadGK v2.11.3 [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 v3.0.0 [fdea26ae] + SIMD v3.7.2 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.46 [0aa819cd] + SQLite v1.8.1 [431bcebd] + SciMLPublic v1.2.1 [6c6a2e73] + Scratch v1.3.0 [91c51154] + SentinelArrays v1.4.10 [992d4aef] + Showoff v1.0.3 [777ac1f9] + SimpleBufferStream v1.2.0 [4e780e97] + SnpArrays v0.3.23 [a2af1166] + SortingAlgorithms v1.2.3 [276daf66] + SpecialFunctions v2.8.0 [860ef19b] + StableRNGs v1.0.4 [aedffcd0] + Static v1.4.2 [0d7ed370] + StaticArrayInterface v1.10.0 [90137ffa] + StaticArrays v1.9.18 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.8.0 [2913bbd2] + StatsBase v0.34.12 [4c63d2b9] + StatsFuns v2.2.0 [f3b207a7] + StatsPlots v0.15.8 [892a3eda] + StringManipulation v0.4.4 [ec057cc2] + StructUtils v2.8.2 [ab02a1b2] + TableOperations v1.2.0 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.13.0 [62fd8b95] + TensorCore v0.1.1 [8290d209] + ThreadingUtilities v0.5.6 ⌅ [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 v0.21.74 [ea10d353] + WeakRefStrings v1.4.3 [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 v1.18.7+0 [ee1fde0b] + Dbus_jll v1.16.2+0 [2702e6a9] + EpollShim_jll v0.0.20230411+1 [2e619515] + Expat_jll v2.8.1+0 [b22a6f82] + FFMPEG_jll v8.1.2+0 [a3f928ae] + Fontconfig_jll v2.17.1+0 [d7e528f0] + FreeType2_jll v2.14.3+1 [559328eb] + FriBidi_jll v1.0.17+0 [0656b61e] + GLFW_jll v3.4.1+1 [d2c73de3] + GR_jll v0.73.26+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 v1.3.16+0 [2e76f6c2] + HarfBuzz_jll v8.5.1+0 [aacddb02] + JpegTurbo_jll v3.1.5+0 [c1c5ebd0] + LAME_jll v3.100.3+0 [88015f11] + LERC_jll v4.1.0+0 [1d63c593] + LLVMOpenMP_jll v18.1.8+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 v2.42.0+0 [89763e89] + Libtiff_jll v4.7.2+0 [38a345b3] + Libuuid_jll v2.42.0+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 v1.57.1+0 [30392449] + Pixman_jll v0.46.4+0 [c0090381] + Qt6Base_jll v6.10.2+2 [629bc702] + Qt6Declarative_jll v6.10.2+2 [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 v3.53.2+0 [a44049a8] + Vulkan_Loader_jll v1.3.243+0 [a2964d1f] + Wayland_jll v1.24.0+0 [ffd25f8a] + XZ_jll v5.8.3+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 [a65dc6b1] + Xorg_libpciaccess_jll v0.19.0+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 v2.47.0+1 [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 v3.13.3+0 [0ac62f75] + libass_jll v0.17.4+0 [1183f4f0] + libdecor_jll v0.2.2+0 [8e53e030] + libdrm_jll v2.4.125+1 [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 v1.6.58+0 [9a156e7d] + libva_jll v2.23.0+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 v1.2.0 [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 v1.14.0 [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 v1.13.0 [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 v1.5.5+2 [deac9b47] + LibCURL_jll v8.20.0+1 [e37daf67] + LibGit2_jll v1.9.4+0 [29816b5a] + LibSSH2_jll v1.11.101+0 [14a3606d] + MozillaCACerts_jll v2026.5.14 [4536629a] + OpenBLAS_jll v0.3.33+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.7+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 v1.69.0+0 [3f19e933] + p7zip_jll v17.8.0+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 36.18s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling project... 4.7 s ✓ TestEnv 1 dependency successfully precompiled in 5 seconds. 27 already precompiled. Precompiling package dependencies... Precompiling project... 3.3 s ✓ MacroTools 1.3 s ✓ InlineStrings 0.5 s ✓ Reexport 0.6 s ✓ TensorCore 0.8 s ✓ ConstructionBase 1.7 s ✓ IrrationalConstants 0.6 s ✓ Measures 0.4 s ✓ DataValueInterfaces 0.6 s ✓ StatsAPI 1.6 s ✓ Format 0.7 s ✓ Observables 1.6 s ✓ Combinatorics 0.6 s ✓ Contour 0.5 s ✓ CommonSolve 0.6 s ✓ LaTeXStrings 0.7 s ✓ Glob 0.8 s ✓ Statistics 0.7 s ✓ StaticArraysCore 0.6 s ✓ StableRNGs 0.5 s ✓ IfElse 0.5 s ✓ PtrArrays 0.5 s ✓ SimpleBufferStream 0.9 s ✓ Grisu 0.6 s ✓ ManualMemory 0.6 s ✓ Adapt 0.5 s ✓ DataAPI 0.5 s ✓ SciMLPublic 0.6 s ✓ CommonWorldInvalidations 0.9 s ✓ URIs 0.5 s ✓ InvertedIndices 0.6 s ✓ InverseFunctions 0.6 s ✓ BitFlags 0.5 s ✓ CompositionsBase 0.8 s ✓ AbstractTrees 0.8 s ✓ AbstractFFTs 0.7 s ✓ WorkerUtilities 2.0 s ✓ FillArrays 0.5 s ✓ IntegerMathUtils 0.5 s ✓ UnPack 0.5 s ✓ DBInterface 1.0 s ✓ OrderedCollections 0.7 s ✓ GroupSlices 0.9 s ✓ DocStringExtensions 1.1 s ✓ BSON 0.8 s ✓ Unzip 1.1 s ✓ OffsetArrays 0.7 s ✓ BufferedStreams 0.4 s ✓ SIMDTypes 0.4 s ✓ IteratorInterfaceExtensions 1.5 s ✓ Crayons 0.6 s ✓ DelimitedFiles 0.7 s ✓ NaNMath 0.9 s ✓ Requires 1.2 s ✓ ConcurrentUtilities 2.2 s ✓ ProgressMeter 2.3 s ✓ WoodburyMatrices 1.0 s ✓ Scratch 1.5 s ✓ SentinelArrays 1.1 s ✓ LoggingExtras 1.5 s ✓ StructUtils 1.5 s ✓ CpuId 2.5 s ✓ PDMats 0.8 s ✓ Compat 1.2 s ✓ Preferences 2.0 s ✓ TranscodingStreams 1.5 s ✓ ExceptionUnwrapping 3.6 s ✓ UnicodeFun 0.5 s ✓ ConstructionBase → ConstructionBaseLinearAlgebraExt 1.8 s ✓ Statistics → SparseArraysExt 3.2 s ✓ FixedPointNumbers 1.2 s ✓ Distances 0.7 s ✓ AliasTables 1.0 s ✓ Showoff 1.6 s ✓ ThreadingUtilities 0.9 s ✓ ArrayInterface 2.0 s ✓ Adapt → AdaptSparseArraysExt 0.7 s ✓ Missings 0.8 s ✓ PooledArrays 0.9 s ✓ InverseFunctions → InverseFunctionsDatesExt 1.5 s ✓ InverseFunctions → InverseFunctionsTestExt 4.1 s ✓ OpenSSL 0.5 s ✓ CompositionsBase → CompositionsBaseInverseFunctionsExt 3.6 s ✓ AbstractFFTs → AbstractFFTsTestExt 2.2 s ✓ FillArrays → FillArraysSparseArraysExt 0.9 s ✓ FillArrays → FillArraysStatisticsExt 1.0 s ✓ Primes 3.4 s ✓ DataStructures 1.1 s ✓ LogExpFunctions 0.6 s ✓ OffsetArrays → OffsetArraysAdaptExt 0.5 s ✓ TableTraits 0.6 s ✓ Ratios 4.5 s ✓ Memento 7.7 s ✓ FileIO 1.9 s ✓ AxisAlgorithms 1.1 s ✓ RelocatableFolders 1.0 s ✓ StructUtils → StructUtilsStaticArraysCoreExt 2.2 s ✓ FillArrays → FillArraysPDMatsExt 0.5 s ✓ Compat → CompatLinearAlgebraExt 1.5 s ✓ PrecompileTools 1.9 s ✓ JLLWrappers 1.4 s ✓ BioGenerics 2.3 s ✓ CodecZstd 1.5 s ✓ CodecZlib 2.5 s ✓ ColorTypes 1.9 s ✓ Distances → DistancesSparseArraysExt 0.9 s ✓ ArrayInterface → ArrayInterfaceFillArraysExt 0.5 s ✓ ArrayInterface → ArrayInterfaceStaticArraysCoreExt 1.8 s ✓ ArrayInterface → ArrayInterfaceSparseArraysExt 4.2 s ✓ Accessors 0.9 s ✓ SortingAlgorithms 1.8 s ✓ QuadGK 0.5 s ✓ LogExpFunctions → LogExpFunctionsInverseFunctionsExt 1.6 s ✓ Tables 0.6 s ✓ Ratios → RatiosFixedPointNumbersExt 2.0 s ✓ ChainRulesCore 2.0 s ✓ FilePathsBase 3.4 s ✓ StringManipulation 13.9 s ✓ SIMD 12.8 s ✓ StaticArrays 1.9 s ✓ MuladdMacro 17.6 s ✓ Automa 3.0 s ✓ RecipesBase 9.3 s ✓ Parsers 1.9 s ✓ Static 43.0 s ✓ JLD2 2.0 s ✓ Libffi_jll 2.0 s ✓ Xorg_libICE_jll 2.0 s ✓ eudev_jll 1.9 s ✓ mtdev_jll 1.9 s ✓ Bzip2_jll 2.0 s ✓ XZ_jll 1.9 s ✓ Rmath_jll 1.9 s ✓ OpenSpecFun_jll 1.4 s ✓ Xorg_xtrans_jll 1.9 s ✓ Opus_jll 1.9 s ✓ x265_jll 1.9 s ✓ fzf_jll 1.9 s ✓ libpng_jll 1.9 s ✓ Arpack_jll 1.3 s ✓ EpollShim_jll 1.9 s ✓ Libmount_jll 2.1 s ✓ libfdk_aac_jll 1.9 s ✓ Libuuid_jll 2.0 s ✓ FriBidi_jll 1.9 s ✓ LERC_jll 1.9 s ✓ Xorg_libXau_jll 1.2 s ✓ dlfcn_win32_jll 1.9 s ✓ Ogg_jll 2.0 s ✓ libevdev_jll 2.0 s ✓ LAME_jll 2.0 s ✓ Graphite2_jll 2.0 s ✓ x264_jll 2.0 s ✓ Xorg_libpciaccess_jll 1.9 s ✓ LLVMOpenMP_jll 1.9 s ✓ Libiconv_jll 2.0 s ✓ MbedTLS_jll 2.0 s ✓ libaom_jll 2.0 s ✓ Xorg_libXdmcp_jll 2.0 s ✓ Expat_jll 2.0 s ✓ JpegTurbo_jll 1.7 s ✓ BGZFStreams 1.2 s ✓ ColorTypes → StyledStringsExt 5.1 s ✓ Colors 1.5 s ✓ ColorVectorSpace 1.9 s ✓ Accessors → TestExt 2.2 s ✓ Accessors → LinearAlgebraExt 4.9 s ✓ StatsBase 1.3 s ✓ TableOperations 1.0 s ✓ StructUtils → StructUtilsTablesExt 1.8 s ✓ ChainRulesCore → ChainRulesCoreSparseArraysExt 0.6 s ✓ AbstractFFTs → AbstractFFTsChainRulesCoreExt 0.6 s ✓ Distances → DistancesChainRulesCoreExt 0.5 s ✓ ArrayInterface → ArrayInterfaceChainRulesCoreExt 2.6 s ✓ LogExpFunctions → LogExpFunctionsChainRulesCoreExt 3.0 s ✓ FilePathsBase → FilePathsBaseTestExt 1.0 s ✓ FilePathsBase → FilePathsBaseMmapExt 41.5 s ✓ PrettyTables 1.8 s ✓ StaticArrays → StaticArraysStatisticsExt 1.8 s ✓ StaticArrays → StaticArraysChainRulesCoreExt 1.8 s ✓ ConstructionBase → ConstructionBaseStaticArraysExt 1.8 s ✓ Adapt → AdaptStaticArraysExt 2.2 s ✓ FillArrays → FillArraysStaticArraysExt 1.9 s ✓ Accessors → StaticArraysExt 2.3 s ✓ FFTA 6.2 s ✓ JSON 1.0 s ✓ InlineStrings → ParsersExt 1.0 s ✓ BitTwiddlingConvenienceFunctions 2.7 s ✓ CPUSummary 3.0 s ✓ StaticArrayInterface 1.8 s ✓ Xorg_libSM_jll 1.8 s ✓ CodecBzip2 1.8 s ✓ FreeType2_jll 1.8 s ✓ CodecXz 1.6 s ✓ Rmath 4.8 s ✓ SpecialFunctions 2.7 s ✓ JLFzf 1.4 s ✓ Arpack 1.8 s ✓ SQLite_jll 1.8 s ✓ libvorbis_jll 1.7 s ✓ libinput_jll 1.8 s ✓ libdrm_jll 1.8 s ✓ Pixman_jll 1.8 s ✓ GettextRuntime_jll 2.1 s ✓ MbedTLS 2.0 s ✓ Xorg_libxcb_jll 1.8 s ✓ Dbus_jll 1.8 s ✓ Wayland_jll 1.9 s ✓ Ghostscript_jll 1.8 s ✓ Libtiff_jll [ Info: Compiling VCF parser... 14.1 s ✓ VariantCallFormat 1.9 s ✓ Widgets 8.6 s ✓ ColorSchemes 5.9 s ✓ Roots 2.2 s ✓ PDMats → StatsBaseExt 7.2 s ✓ JLSO 84.6 s ✓ DataFrames 7.7 s ✓ NearestNeighbors 5.7 s ✓ Interpolations 24.0 s ✓ ArrayLayouts 9.5 s ✓ BenchmarkTools 2.6 s ✓ WeakRefStrings 2.3 s ✓ HostCPUFeatures 1.8 s ✓ PolyesterWeave 1.1 s ✓ StaticArrayInterface → StaticArrayInterfaceOffsetArraysExt 2.0 s ✓ StaticArrayInterface → StaticArrayInterfaceStaticArraysExt 1.2 s ✓ CloseOpenIntervals 1.3 s ✓ LayoutPointers 2.0 s ✓ Fontconfig_jll 3.6 s ✓ SpecialFunctions → SpecialFunctionsChainRulesCoreExt 2.2 s ✓ HypergeometricFunctions 1.3 s ✓ ColorVectorSpace → SpecialFunctionsExt 1.8 s ✓ Glib_jll 22.1 s ✓ HTTP 1.9 s ✓ Xorg_xcb_util_jll 1.7 s ✓ Xorg_libX11_jll 5.4 s ✓ Latexify 18.1 s ✓ PlotUtils 1.1 s ✓ Roots → RootsChainRulesCoreExt 5.2 s ✓ Clustering 5.8 s ✓ ArrayLayouts → ArrayLayoutsSparseArraysExt 5.8 s ✓ MatrixFactorizations 22.0 s ✓ CSV 4.2 s ✓ SQLite 16.3 s ✓ VectorizationBase 2.2 s ✓ StatsFuns 5.8 s ✓ FileIO → HTTPExt 1.8 s ✓ Xorg_xcb_util_renderutil_jll 1.9 s ✓ Xorg_xcb_util_wm_jll 1.8 s ✓ Xorg_xcb_util_image_jll 1.9 s ✓ Xorg_xcb_util_keysyms_jll 1.8 s ✓ Xorg_libXfixes_jll 1.8 s ✓ Xorg_libXrender_jll 1.8 s ✓ Xorg_libXext_jll 1.8 s ✓ Xorg_libxkbfile_jll 3.0 s ✓ Latexify → SparseArraysExt 6.3 s ✓ Latexify → DataFramesExt 9.1 s ✓ PlotThemes 8.2 s ✓ 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`. 9.5 s ✓ LazyArrays 3.7 s ✓ BGEN 3.0 s ✓ SLEEFPirates 3.0 s ✓ StatsFuns → StatsFunsChainRulesCoreExt 1.0 s ✓ StatsFuns → StatsFunsInverseFunctionsExt 1.8 s ✓ Xorg_xcb_util_cursor_jll 1.9 s ✓ Xorg_libXcursor_jll 1.9 s ✓ Xorg_libXrandr_jll 1.9 s ✓ Xorg_libXinerama_jll 1.9 s ✓ Xorg_libXi_jll 1.8 s ✓ Cairo_jll 1.9 s ✓ libva_jll 1.9 s ✓ Libglvnd_jll 1.7 s ✓ Xorg_xkbcomp_jll 6.0 s ✓ LazyArrays → LazyArraysStaticArraysExt 38.3 s ✓ LoopVectorization 10.7 s ✓ Distributions 2.0 s ✓ HarfBuzz_jll 1.4 s ✓ Xorg_xkeyboard_config_jll 3.3 s ✓ LoopVectorization → SpecialFunctionsExt 5.3 s ✓ Distributions → DistributionsTestExt 4.5 s ✓ Distributions → DistributionsChainRulesCoreExt 5.3 s ✓ HypothesisTests 4.9 s ✓ MultivariateStats 2.0 s ✓ libass_jll 2.0 s ✓ Pango_jll 1.9 s ✓ xkbcommon_jll 25.5 s ✓ SnpArrays 5.6 s ✓ KernelDensity 6.6 s ✓ VCFTools 2.2 s ✓ FFMPEG_jll 2.0 s ✓ Vulkan_Loader_jll 2.0 s ✓ libdecor_jll 1.1 s ✓ FFMPEG 2.2 s ✓ Qt6Base_jll 2.1 s ✓ GLFW_jll 2.2 s ✓ Qt6ShaderTools_jll 2.2 s ✓ Qt6Svg_jll 2.3 s ✓ GR_jll 2.4 s ✓ Qt6Declarative_jll 2.5 s ✓ Qt6Wayland_jll 6.2 s ✓ GR 107.0 s ✓ Plots 19.5 s ✓ Plots → FileIOExt 21.6 s ✓ StatsPlots 32.9 s ✓ MendelImpute 304 dependencies successfully precompiled in 1190 seconds. 41 already precompiled. 2 dependencies had output during precompilation: ┌ 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`. └ ┌ VariantCallFormat │ [ Info: Compiling VCF parser... └ Precompilation completed after 1216.33s ################################################################################ # Testing # Testing MendelImpute Status `/tmp/jl_DvfIxV/Project.toml` ⌅ [6db4b851] BGEN v0.1.17 [6e4b80f9] BenchmarkTools v1.8.0 [336ed68f] CSV v0.10.16 [a93c6f00] DataFrames v1.8.2 [b4f34e82] Distances v0.10.12 [5789e2e9] FileIO v1.19.0 ⌅ [53c48c17] FixedPointNumbers v0.8.6 [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 v0.3.23 [276daf66] SpecialFunctions v2.8.0 [10745b16] Statistics v1.11.1 [2913bbd2] StatsBase v0.34.12 [f3b207a7] StatsPlots v0.15.8 [a620830f] VCFTools v0.2.10 [28eba6e3] VariantCallFormat v0.5.9 [37e2e46d] LinearAlgebra v1.14.0 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_DvfIxV/Manifest.toml` [621f4979] AbstractFFTs v1.5.0 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.45 [79e6a3ab] Adapt v4.7.0 [66dad0bd] AliasTables v1.1.3 [7d9fca2a] Arpack v0.5.4 [4fba245c] ArrayInterface v7.27.0 [4c555306] ArrayLayouts v1.12.2 [67c07d97] Automa v1.2.0 [13072b0f] AxisAlgorithms v1.1.0 ⌅ [6db4b851] BGEN v0.1.17 [28d598bf] BGZFStreams v0.3.2 [fbb218c0] BSON v0.3.9 [6e4b80f9] BenchmarkTools v1.8.0 [47718e42] BioGenerics v0.1.5 [d1d4a3ce] BitFlags v0.1.10 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [e1450e63] BufferedStreams v1.2.2 [2a0fbf3d] CPUSummary v0.2.7 [336ed68f] CSV v0.10.16 [d360d2e6] ChainRulesCore v1.26.1 [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 v0.2.9 [f70d9fcc] CommonWorldInvalidations v1.1.0 [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 v1.8.2 [864edb3b] DataStructures v0.19.5 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.129 [ffbed154] DocStringExtensions v0.9.5 [460bff9d] ExceptionUnwrapping v0.1.11 [c87230d0] FFMPEG v0.4.5 [b86e33f2] FFTA v0.3.1 [5789e2e9] FileIO v1.19.0 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.16.0 ⌅ [53c48c17] FixedPointNumbers v0.8.6 [1fa38f19] Format v1.3.7 [28b8d3ca] GR v0.73.26 [c27321d9] Glob v1.5.0 [42e2da0e] Grisu v1.0.2 [d853e229] GroupSlices v0.0.3 ⌅ [cd3eb016] HTTP v1.11.0 [3e5b6fbb] HostCPUFeatures v0.1.18 [34004b35] HypergeometricFunctions v0.3.28 [09f84164] HypothesisTests v0.11.8 [615f187c] IfElse v0.1.1 [842dd82b] InlineStrings v1.4.5 [18e54dd8] IntegerMathUtils v0.1.3 [a98d9a8b] Interpolations v0.16.3 [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 v1.8.0 [9da8a3cd] JLSO v2.7.0 [682c06a0] JSON v1.6.1 [5ab0869b] KernelDensity v0.6.12 [b964fa9f] LaTeXStrings v1.4.0 [23fbe1c1] Latexify v0.16.10 [10f19ff3] LayoutPointers v0.1.17 ⌅ [5078a376] LazyArrays v1.10.0 [2ab3a3ac] LogExpFunctions v1.0.1 [e6f89c97] LoggingExtras v1.2.0 [bdcacae8] LoopVectorization v0.12.174 [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 v1.5.0 [e47305d1] MendelImpute v1.2.6 [e1d29d7a] Missings v1.2.0 [46d2c3a1] MuladdMacro v0.2.6 [6f286f6a] MultivariateStats v0.10.4 [77ba4419] NaNMath v1.1.4 [b8a86587] NearestNeighbors v0.4.27 [510215fc] Observables v0.5.5 [6fe1bfb0] OffsetArrays v1.17.0 [4d8831e6] OpenSSL v1.6.1 ⌅ [bac558e1] OrderedCollections v1.8.2 [90014a1f] PDMats v0.11.40 [69de0a69] Parsers v2.8.6 [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 v1.3.4 [21216c6a] Preferences v1.5.2 [08abe8d2] PrettyTables v3.3.2 [27ebfcd6] Primes v0.5.7 [92933f4c] ProgressMeter v1.11.0 [43287f4e] PtrArrays v1.4.0 [1fd47b50] QuadGK v2.11.3 [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 v3.0.0 [fdea26ae] SIMD v3.7.2 [94e857df] SIMDTypes v0.1.0 [476501e8] SLEEFPirates v0.6.46 [0aa819cd] SQLite v1.8.1 [431bcebd] SciMLPublic v1.2.1 [6c6a2e73] Scratch v1.3.0 [91c51154] SentinelArrays v1.4.10 [992d4aef] Showoff v1.0.3 [777ac1f9] SimpleBufferStream v1.2.0 [4e780e97] SnpArrays v0.3.23 [a2af1166] SortingAlgorithms v1.2.3 [276daf66] SpecialFunctions v2.8.0 [860ef19b] StableRNGs v1.0.4 [aedffcd0] Static v1.4.2 [0d7ed370] StaticArrayInterface v1.10.0 [90137ffa] StaticArrays v1.9.18 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.8.0 [2913bbd2] StatsBase v0.34.12 [4c63d2b9] StatsFuns v2.2.0 [f3b207a7] StatsPlots v0.15.8 [892a3eda] StringManipulation v0.4.4 [ec057cc2] StructUtils v2.8.2 [ab02a1b2] TableOperations v1.2.0 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.13.0 [62fd8b95] TensorCore v0.1.1 [8290d209] ThreadingUtilities v0.5.6 ⌅ [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 v0.21.74 [ea10d353] WeakRefStrings v1.4.3 [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 v1.18.7+0 [ee1fde0b] Dbus_jll v1.16.2+0 [2702e6a9] EpollShim_jll v0.0.20230411+1 [2e619515] Expat_jll v2.8.1+0 [b22a6f82] FFMPEG_jll v8.1.2+0 [a3f928ae] Fontconfig_jll v2.17.1+0 [d7e528f0] FreeType2_jll v2.14.3+1 [559328eb] FriBidi_jll v1.0.17+0 [0656b61e] GLFW_jll v3.4.1+1 [d2c73de3] GR_jll v0.73.26+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 v1.3.16+0 [2e76f6c2] HarfBuzz_jll v8.5.1+0 [aacddb02] JpegTurbo_jll v3.1.5+0 [c1c5ebd0] LAME_jll v3.100.3+0 [88015f11] LERC_jll v4.1.0+0 [1d63c593] LLVMOpenMP_jll v18.1.8+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 v2.42.0+0 [89763e89] Libtiff_jll v4.7.2+0 [38a345b3] Libuuid_jll v2.42.0+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 v1.57.1+0 [30392449] Pixman_jll v0.46.4+0 [c0090381] Qt6Base_jll v6.10.2+2 [629bc702] Qt6Declarative_jll v6.10.2+2 [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 v3.53.2+0 [a44049a8] Vulkan_Loader_jll v1.3.243+0 [a2964d1f] Wayland_jll v1.24.0+0 [ffd25f8a] XZ_jll v5.8.3+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 [a65dc6b1] Xorg_libpciaccess_jll v0.19.0+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 v2.47.0+1 [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 v3.13.3+0 [0ac62f75] libass_jll v0.17.4+0 [1183f4f0] libdecor_jll v0.2.2+0 [8e53e030] libdrm_jll v2.4.125+1 [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 v1.6.58+0 [9a156e7d] libva_jll v2.23.0+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 v1.2.0 [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 v1.14.0 [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 [9abbd945] Profile v1.11.0 [3fa0cd96] REPL v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v1.13.0 [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 v1.5.5+2 [deac9b47] LibCURL_jll v8.20.0+1 [e37daf67] LibGit2_jll v1.9.4+0 [29816b5a] LibSSH2_jll v1.11.101+0 [14a3606d] MozillaCACerts_jll v2026.5.14 [4536629a] OpenBLAS_jll v0.3.33+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.7+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 v1.69.0+0 [3f19e933] p7zip_jll v17.8.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... Test Summary: | Pass Total Time search breakpoints | 8 8 2.2s Test Summary: | Pass Total Time intersect code | 9 9 0.9s Test Summary: | Pass Total Time dynamic programming | 10 10 4.1s ┌ Warning: accessing `Type.name` is deprecated without replacement. If for detection, use `Base.isType(x)`. │ caller = ProgressMeter.Progress(n::Int64, dt::Int64, desc::String, barlen::Nothing, color::Symbol, output::Base.PipeEndpoint; offset::Int64) at deprecated.jl:1 └ @ ProgressMeter ~/.julia/packages/ProgressMeter/N660J/src/deprecated.jl:1 ┌ 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... 19%|████▋ | ETA: 0:00:21 importing reference data... 42%|██████████ | ETA: 0:00:15 importing reference data... 64%|███████████████▍ | ETA: 0:00:09 importing reference data... 85%|████████████████████▌ | ETA: 0:00:04 importing reference data... 100%|████████████████████████| Time: 0:00:24 139.295016 seconds (217.19 M allocations: 11.861 GiB, 2.79% gc time, 74.22% compilation time: <1% of which was recompilation) 11.388660 seconds (13.34 M allocations: 860.456 MiB, 3.26% gc time, 98.60% compilation time: <1% of which was recompilation) Test Summary: | Pass Total Time compress | 11 11 2m31.3s Number of threads = 1 Importing reference haplotype data... Computing optimal haplotypes... 12%|██▌ | ETA: 0:02:13 Computing optimal haplotypes... 100%|████████████████████| Time: 0:00:21 Phasing... 2%|▉ | ETA: 0:04:32 Phasing... 100%|█████████████████████████████████████████| Time: 0:00:07 Total windows = 16, averaging ~ 708 unique haplotypes per window. Timings: Data import = 1.28735 seconds import target data = 1.10299 seconds import compressed haplotypes = 0.184362 seconds Computing haplotype pair = 24.8548 seconds BLAS3 mul! to get M and N = 0.183063 seconds per thread haplopair search = 3.15439 seconds per thread initializing missing = 0.0118659 seconds per thread allocating and viewing = 0.219824 seconds per thread index conversion = 0.000136119 seconds per thread Phasing by win-win intersection = 8.29794 seconds Window-by-window intersection = 0.00355793 seconds per thread Breakpoint search = 2.91486 seconds per thread Recording result = 0.00123974 seconds per thread Imputation = 7.91773 seconds Imputing missing = 3.91016 seconds Writing to file = 4.00757 seconds Total time = 42.5655 seconds 52.343855 seconds (26.14 M allocations: 1.763 GiB, 2.25% gc time, 90.65% compilation time: <1% of which was recompilation) Test Summary: | Pass Total Time impute & phasing | 10 10 1m25.7s Number of threads = 1 Importing reference haplotype data... Total windows = 16, averaging ~ 708 unique haplotypes per window. Timings: Data import = 0.414843 seconds import target data = 0.256811 seconds import compressed haplotypes = 0.158032 seconds Computing haplotype pair = 3.39388 seconds BLAS3 mul! to get M and N = 0.175557 seconds per thread haplopair search = 3.16551 seconds per thread initializing missing = 0.0118349 seconds per thread allocating and viewing = 0.0365515 seconds per thread index conversion = 0.000121139 seconds per thread Phasing by win-win intersection = 0.189402 seconds Window-by-window intersection = 0.00298123 seconds per thread Breakpoint search = 0.181262 seconds per thread Recording result = 0.000967201 seconds per thread Imputation = 0.718115 seconds Imputing missing = 0.0755314 seconds Writing to file = 0.642583 seconds Total time = 4.71663 seconds 4.716718 seconds (1.70 M allocations: 150.711 MiB, 1.91% gc time) Number of threads = 1 Importing reference haplotype data... Total windows = 16, averaging ~ 708 unique haplotypes per window. Timings: Data import = 3.43338 seconds import target data = 3.28821 seconds import compressed haplotypes = 0.145179 seconds Computing haplotype pair = 3.38885 seconds BLAS3 mul! to get M and N = 0.176179 seconds per thread haplopair search = 3.16029 seconds per thread initializing missing = 0.0118657 seconds per thread allocating and viewing = 0.0359436 seconds per thread index conversion = 0.00012192 seconds per thread Phasing by win-win intersection = 0.18866 seconds Window-by-window intersection = 0.00359283 seconds per thread Breakpoint search = 0.17973 seconds per thread Recording result = 0.00106102 seconds per thread Imputation = 2.03308 seconds Imputing missing = 0.0748871 seconds Writing to file = 1.9582 seconds Total time = 9.04439 seconds 9.044507 seconds (1.49 M allocations: 148.231 MiB, 0.69% gc time, 48.53% 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... 22%|█████████ | ETA: 0:00:18 Phasing... 100%|█████████████████████████████████████████| Time: 0:00:05 Total windows = 16, averaging ~ 708 unique haplotypes per window. Timings: Data import = 1.76786 seconds import target data = 1.62243 seconds import compressed haplotypes = 0.145429 seconds Computing haplotype pair = 6.99167 seconds BLAS3 mul! to get M and N = 0.17655 seconds per thread haplopair search = 3.20116 seconds per thread initializing missing = 0.0119666 seconds per thread allocating and viewing = 0.0365216 seconds per thread index conversion = 0.000112359 seconds per thread Phasing by win-win intersection = 5.79036 seconds Window-by-window intersection = 0.00318826 seconds per thread Breakpoint search = 2.87233 seconds per thread Recording result = 0.00113972 seconds per thread Imputation = 3.70567 seconds Imputing missing = 3.09932 seconds Writing to file = 0.606355 seconds Total time = 18.256 seconds 18.279621 seconds (5.52 M allocations: 353.694 MiB, 0.68% gc time, 72.55% compilation time) Test Summary: | Pass Total Time PLINK and dosage inputs | 2 2 40.0s Number of threads = 1 Importing reference haplotype data... Total windows = 16, averaging ~ 708 unique haplotypes per window. Timings: Data import = 0.400731 seconds import target data = 0.255997 seconds import compressed haplotypes = 0.144734 seconds Computing haplotype pair = 3.42282 seconds BLAS3 mul! to get M and N = 0.175598 seconds per thread haplopair search = 3.19507 seconds per thread initializing missing = 0.0116547 seconds per thread allocating and viewing = 0.0358745 seconds per thread index conversion = 0.000122158 seconds per thread Phasing by win-win intersection = 1.54379 seconds Window-by-window intersection = 0.00296902 seconds per thread Breakpoint search = 0.180991 seconds per thread Recording result = 0.00017506 seconds per thread Imputation = 2.27985 seconds Imputing missing = 4.73581e-5 seconds Writing to file = 2.2798 seconds Total time = 7.6514 seconds 7.651692 seconds (2.73 M allocations: 162.413 MiB, 0.29% gc time, 46.99% compilation time) importing reference data... 21%|█████ | ETA: 0:00:19 importing reference data... 44%|██████████▌ | ETA: 0:00:13 importing reference data... 67%|████████████████▏ | ETA: 0:00:07 importing reference data... 91%|█████████████████████▊ | ETA: 0:00:02 importing reference data... 100%|████████████████████████| Time: 0:00:22 Test Summary: | Pass Total Time decompress ultra-compressed files | 1 1 37.0s Test Summary: | Pass Total Time 0 allocations in phasing | 2 2 3.6s Test Summary: | Pass Total Time 0 allocation in haplopair | 2 2 14.5s 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] 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 [5] convert_gt(t::Type{Float64}, b::Bgen) @ MendelImpute ~/.julia/packages/MendelImpute/z2M6N/src/read.jl:38 [6] macro expansion @ ./timing.jl:741 [inlined] [7] macro expansion @ ~/.julia/packages/MendelImpute/z2M6N/test/runtests.jl:318 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2246 [inlined] [9] top-level scope @ ~/.julia/packages/MendelImpute/z2M6N/test/runtests.jl:318 [10] include(mapexpr::Function, mod::Module, _path::String) @ Base Base.jl:326 [11] top-level scope @ none:6 [12] eval(m::Module, e::Any) @ Core boot.jl:522 [13] exec_options(opts::Base.JLOptions) @ Base client.jl:321 [14] _start() @ Base client.jl:596 Test Summary: | Error Total Time import BGEN | 1 1 1.5s RNG of the outermost testset: Xoshiro(0x5ab40303ada6ad1a, 0x835f167fd05db28c, 0x4b542f0e4e716908, 0x798c9ac116af1bd6, 0xb04e6d1245c094c0) 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 399.27s 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:3247 [3] 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:587 [4] 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 [5] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [6] test(pkg::String; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:159 [inlined] [7] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:223 [8] include(mod::Module, _path::String) @ Base Base.jl:325 [9] exec_options(opts::Base.JLOptions) @ Base client.jl:355 [10] _start() @ Base client.jl:596 in expression starting at /PkgEval.jl/scripts/evaluate.jl:214 PkgEval failed after 1704.23s: package tests unexpectedly errored