Package evaluation of OrdinalGWAS on Julia 1.13.0-DEV.1191 (63a270f4d4*) started at 2025-09-23T14:29:08.569 ################################################################################ # Set-up # Set-up completed after 0.2s ################################################################################ # Installation # Installing OrdinalGWAS... Resolving package versions... Installed OrderedCollections ─────────────── v1.8.1 Installed Bzip2_jll ──────────────────────── v1.0.9+0 Installed Glob ───────────────────────────── v1.3.1 Installed MUMPS_seq_jll ──────────────────── v500.800.100+0 Installed CommonWorldInvalidations ───────── v1.0.0 Installed SIMDTypes ──────────────────────── v0.1.0 Installed InlineStrings ──────────────────── v1.4.5 Installed HypothesisTests ────────────────── v0.11.5 Installed Ipopt_jll ──────────────────────── v300.1400.1900+0 Installed Xorg_libpciaccess_jll ──────────── v0.18.1+0 Installed SentinelArrays ─────────────────── v1.4.8 Installed NaNMath ────────────────────────── v1.1.3 Installed CpuId ──────────────────────────── v0.3.1 Installed StaticArrayInterface ───────────── v1.8.0 Installed QuadGK ─────────────────────────── v2.11.2 Installed OpenSpecFun_jll ────────────────── v0.5.6+0 Installed Reexport ───────────────────────── v1.2.2 Installed Tables ─────────────────────────── v1.12.1 Installed InverseFunctions ───────────────── v0.1.17 Installed FileIO ─────────────────────────── v1.17.0 Installed DBInterface ────────────────────── v2.6.1 Installed Missings ───────────────────────── v1.2.0 Installed Preferences ────────────────────── v1.5.0 Installed Static ─────────────────────────── v1.2.0 Installed LaTeXStrings ───────────────────── v1.4.0 Installed Crayons ────────────────────────── v4.1.1 Installed TZJData ────────────────────────── v1.5.0+2025b Installed TableTraits ────────────────────── v1.0.1 Installed UnPack ─────────────────────────── v1.0.2 Installed SortingAlgorithms ──────────────── v1.2.2 Installed DataStructures ─────────────────── v0.19.1 Installed DiffResults ────────────────────── v1.1.0 Installed MacroTools ─────────────────────── v0.5.16 Installed ManualMemory ───────────────────── v0.1.8 Installed CodecZstd ──────────────────────── v0.8.6 Installed FillArrays ─────────────────────── v1.14.0 Installed VCFTools ───────────────────────── v0.2.10 Installed DelimitedFiles ─────────────────── v1.9.1 Installed CodecZlib ──────────────────────── v0.7.8 Installed ExprTools ──────────────────────── v0.1.10 Installed VectorizationBase ──────────────── v0.21.72 Installed HostCPUFeatures ────────────────── v0.1.17 Installed ArrayInterface ─────────────────── v7.20.0 Installed StatsBase ──────────────────────── v0.34.6 Installed TimeZones ──────────────────────── v1.22.0 Installed DataValueInterfaces ────────────── v1.0.0 Installed Hwloc_jll ──────────────────────── v2.12.2+0 Installed CommonSubexpressions ───────────── v0.3.1 Installed IrrationalConstants ────────────── v0.2.4 Installed LayoutPointers ─────────────────── v0.1.17 Installed BufferedStreams ────────────────── v1.2.2 Installed Scratch ────────────────────────── v1.3.0 Installed Roots ──────────────────────────── v2.2.10 Installed SPRAL_jll ──────────────────────── v2025.5.20+0 Installed PooledArrays ───────────────────── v1.4.3 Installed BenchmarkTools ─────────────────── v1.6.0 Installed CodecXz ────────────────────────── v0.7.4 Installed PDMats ─────────────────────────── v0.11.35 Installed WorkerUtilities ────────────────── v1.6.1 Installed Rmath_jll ──────────────────────── v0.5.1+0 Installed CompositionsBase ───────────────── v0.1.2 Installed CommonSolve ────────────────────── v0.2.4 Installed DocStringExtensions ────────────── v0.9.5 Installed SQLite ─────────────────────────── v1.6.1 Installed ForwardDiff ────────────────────── v1.2.1 Installed BitTwiddlingConvenienceFunctions ─ v0.1.6 Installed SLEEFPirates ───────────────────── v0.6.43 Installed AliasTables ────────────────────── v1.1.3 Installed StatsModels ────────────────────── v0.7.7 Installed ShiftedArrays ──────────────────── v2.0.0 Installed MathOptInterface ───────────────── v1.45.0 Installed Combinatorics ──────────────────── v1.0.3 Installed OrdinalGWAS ────────────────────── v0.7.2 Installed DataAPI ────────────────────────── v1.16.0 Installed IteratorInterfaceExtensions ────── v1.0.0 Installed InvertedIndices ────────────────── v1.3.1 Installed SIMD ───────────────────────────── v3.7.1 Installed StaticArraysCore ───────────────── v1.4.3 Installed StringManipulation ─────────────── v0.4.1 Installed DiffRules ──────────────────────── v1.15.1 Installed Requires ───────────────────────── v1.3.1 Installed LogExpFunctions ────────────────── v0.3.29 Installed OpenBLAS32_jll ─────────────────── v0.3.29+0 Installed Rmath ──────────────────────────── v0.8.0 Installed Parsers ────────────────────────── v2.8.3 Installed JSON ───────────────────────────── v0.21.4 Installed Distributions ──────────────────── v0.25.120 Installed BioGenerics ────────────────────── v0.1.5 Installed PrettyTables ───────────────────── v3.0.10 Installed CloseOpenIntervals ─────────────── v0.1.13 Installed StatsFuns ──────────────────────── v1.5.0 Installed WeakRefStrings ─────────────────── v1.4.2 Installed RData ──────────────────────────── v0.8.3 Installed MutableArithmetics ─────────────── v1.6.5 Installed XZ_jll ─────────────────────────── v5.8.1+0 Installed JLLWrappers ────────────────────── v1.7.1 Installed DataFrames ─────────────────────── v1.8.0 Installed StructTypes ────────────────────── v1.11.0 Installed BGZFStreams ────────────────────── v0.3.2 Installed NLopt ──────────────────────────── v0.6.5 Installed CSV ────────────────────────────── v0.10.15 Installed VariantCallFormat ──────────────── v0.5.7 Installed ThreadingUtilities ─────────────── v0.5.5 Installed CategoricalArrays ──────────────── v0.10.8 Installed Accessors ──────────────────────── v0.1.42 Installed FilePathsBase ──────────────────── v0.9.24 Installed GLM ────────────────────────────── v1.9.0 Installed Adapt ──────────────────────────── v4.3.0 Installed OrdinalMultinomialModels ───────── v0.4.5 Installed ConstructionBase ───────────────── v1.6.0 Installed HypergeometricFunctions ────────── v0.3.28 Installed TranscodingStreams ─────────────── v0.9.13 Installed Compat ─────────────────────────── v4.18.0 Installed StatsAPI ───────────────────────── v1.7.1 Installed Statistics ─────────────────────── v1.11.1 Installed ProgressMeter ──────────────────── v1.11.0 Installed OffsetArrays ───────────────────── v1.17.0 Installed LoopVectorization ──────────────── v0.12.172 Installed PrecompileTools ────────────────── v1.3.3 Installed ASL_jll ────────────────────────── v0.1.3+0 Installed CodecBzip2 ─────────────────────── v0.8.5 Installed CPUSummary ─────────────────────── v0.2.7 Installed IfElse ─────────────────────────── v0.1.1 Installed XML2_jll ───────────────────────── v2.13.8+0 Installed PtrArrays ──────────────────────── v1.3.0 Installed JSON3 ──────────────────────────── v1.14.3 Installed RDatasets ──────────────────────── v0.7.7 Installed SpecialFunctions ───────────────── v2.5.1 Installed Libiconv_jll ───────────────────── v1.18.0+0 Installed SQLite_jll ─────────────────────── v3.48.0+0 Installed Ipopt ──────────────────────────── v1.11.0 Installed METIS_jll ──────────────────────── v5.1.3+0 Installed Automa ─────────────────────────── v1.1.0 Installed NLopt_jll ──────────────────────── v2.10.0+0 Installed PolyesterWeave ─────────────────── v0.2.2 Installed Mocking ────────────────────────── v0.8.1 Installed MathProgBase ───────────────────── v0.7.8 Installed SnpArrays ──────────────────────── v0.3.22 Installed BGEN ───────────────────────────── v0.1.17 Installing 17 artifacts Installed artifact Xorg_libpciaccess 24.8 KiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact tzjdata 112.5 KiB Installed artifact Ipopt 1.3 MiB Installed artifact Hwloc 3.5 MiB Installed artifact XZ 1.5 MiB Installed artifact ASL 276.3 KiB Installed artifact Bzip2 503.5 KiB Installed artifact METIS 1.1 MiB Installed artifact Rmath 121.9 KiB Installed artifact SPRAL 691.8 KiB Installed artifact NLopt 322.7 KiB Installed artifact Libiconv 1.9 MiB Installed artifact XML2 2.5 MiB Installed artifact MUMPS_seq 8.6 MiB Installed artifact SQLite 5.0 MiB Installed artifact OpenBLAS32 10.0 MiB Updating `~/.julia/environments/v1.13/Project.toml` [00428148] + OrdinalGWAS v0.7.2 Updating `~/.julia/environments/v1.13/Manifest.toml` [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.3.0 [66dad0bd] + AliasTables v1.1.3 [4fba245c] + ArrayInterface v7.20.0 [67c07d97] + Automa v1.1.0 ⌅ [6db4b851] + BGEN v0.1.17 [28d598bf] + BGZFStreams v0.3.2 [6e4b80f9] + BenchmarkTools v1.6.0 [47718e42] + BioGenerics v0.1.5 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [e1450e63] + BufferedStreams v1.2.2 [2a0fbf3d] + CPUSummary v0.2.7 [336ed68f] + CSV v0.10.15 ⌅ [324d7699] + CategoricalArrays v0.10.8 [fb6a15b2] + CloseOpenIntervals v0.1.13 [523fee87] + CodecBzip2 v0.8.5 [ba30903b] + CodecXz v0.7.4 [944b1d66] + CodecZlib v0.7.8 [6b39b394] + CodecZstd v0.8.6 [861a8166] + Combinatorics v1.0.3 [38540f10] + CommonSolve v0.2.4 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.18.0 [a33af91c] + CompositionsBase v0.1.2 [187b0558] + ConstructionBase v1.6.0 [adafc99b] + CpuId v0.3.1 [a8cc5b0e] + Crayons v4.1.1 [a10d1c49] + DBInterface v2.6.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.8.0 [864edb3b] + DataStructures v0.19.1 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [31c24e10] + Distributions v0.25.120 [ffbed154] + DocStringExtensions v0.9.5 [e2ba6199] + ExprTools v0.1.10 [5789e2e9] + FileIO v1.17.0 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.14.0 [f6369f11] + ForwardDiff v1.2.1 [38e38edf] + GLM v1.9.0 [c27321d9] + Glob v1.3.1 [3e5b6fbb] + HostCPUFeatures v0.1.17 [34004b35] + HypergeometricFunctions v0.3.28 [09f84164] + HypothesisTests v0.11.5 [615f187c] + IfElse v0.1.1 [842dd82b] + InlineStrings v1.4.5 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 [b6b21f68] + Ipopt v1.11.0 [92d709cd] + IrrationalConstants v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 [682c06a0] + JSON v0.21.4 [0f8b85d8] + JSON3 v1.14.3 [b964fa9f] + LaTeXStrings v1.4.0 [10f19ff3] + LayoutPointers v0.1.17 [2ab3a3ac] + LogExpFunctions v0.3.29 [bdcacae8] + LoopVectorization v0.12.172 [1914dd2f] + MacroTools v0.5.16 [d125e4d3] + ManualMemory v0.1.8 [b8f27783] + MathOptInterface v1.45.0 [fdba3010] + MathProgBase v0.7.8 [e1d29d7a] + Missings v1.2.0 [78c3b35d] + Mocking v0.8.1 [d8a4904e] + MutableArithmetics v1.6.5 ⌅ [76087f3c] + NLopt v0.6.5 [77ba4419] + NaNMath v1.1.3 [6fe1bfb0] + OffsetArrays v1.17.0 [bac558e1] + OrderedCollections v1.8.1 [00428148] + OrdinalGWAS v0.7.2 [b51826c6] + OrdinalMultinomialModels v0.4.5 [90014a1f] + PDMats v0.11.35 [69de0a69] + Parsers v2.8.3 [1d0040c9] + PolyesterWeave v0.2.2 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.0 [08abe8d2] + PrettyTables v3.0.10 [92933f4c] + ProgressMeter v1.11.0 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 ⌅ [df47a6cb] + RData v0.8.3 [ce6b1742] + RDatasets v0.7.7 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [79098fc4] + Rmath v0.8.0 [f2b01f46] + Roots v2.2.10 [fdea26ae] + SIMD v3.7.1 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.43 [0aa819cd] + SQLite v1.6.1 [6c6a2e73] + Scratch v1.3.0 [91c51154] + SentinelArrays v1.4.8 [1277b4bf] + ShiftedArrays v2.0.0 [4e780e97] + SnpArrays v0.3.22 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.5.1 [aedffcd0] + Static v1.2.0 [0d7ed370] + StaticArrayInterface v1.8.0 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.6 [4c63d2b9] + StatsFuns v1.5.0 [3eaba693] + StatsModels v0.7.7 [892a3eda] + StringManipulation v0.4.1 [856f2bd8] + StructTypes v1.11.0 [dc5dba14] + TZJData v1.5.0+2025b [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [8290d209] + ThreadingUtilities v0.5.5 [f269a46b] + TimeZones v1.22.0 ⌅ [3bb67fe8] + TranscodingStreams v0.9.13 [3a884ed6] + UnPack v1.0.2 [a620830f] + VCFTools v0.2.10 [28eba6e3] + VariantCallFormat v0.5.7 [3d5dd08c] + VectorizationBase v0.21.72 [ea10d353] + WeakRefStrings v1.4.2 [76eceee3] + WorkerUtilities v1.6.1 [ae81ac8f] + ASL_jll v0.1.3+0 [6e34b625] + Bzip2_jll v1.0.9+0 [e33a78d0] + Hwloc_jll v2.12.2+0 [9cc047cb] + Ipopt_jll v300.1400.1900+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [d00139f3] + METIS_jll v5.1.3+0 [d7ed1dd3] + MUMPS_seq_jll v500.800.100+0 [079eb43e] + NLopt_jll v2.10.0+0 [656ef2d0] + OpenBLAS32_jll v0.3.29+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 ⌅ [319450e9] + SPRAL_jll v2025.5.20+0 [76ed43ae] + SQLite_jll v3.48.0+0 ⌅ [02c8fc9c] + XML2_jll v2.13.8+0 [ffd25f8a] + XZ_jll v5.8.1+0 [a65dc6b1] + Xorg_libpciaccess_jll v0.18.1+0 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [f43a241f] + Downloads v1.7.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.13.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.13.0 [de0858da] + Printf v1.11.0 [9abbd945] + Profile v1.11.0 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.13.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.16.0+0 [e37daf67] + LibGit2_jll v1.9.1+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.9.9 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.2+0 [efcefdf7] + PCRE2_jll v10.46.0+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.1+2 [3161d3a3] + Zstd_jll v1.5.7+1 [8e850b90] + libblastrampoline_jll v5.13.1+0 [8e850ede] + nghttp2_jll v1.67.1+0 [3f19e933] + p7zip_jll v17.6.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 20.54s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Project No packages added to or removed from `~/.julia/environments/pkgeval/Project.toml` Manifest No packages added to or removed from `~/.julia/environments/pkgeval/Manifest.toml` Precompiling package dependencies... Precompiling packages... 4475.0 ms ✓ MacroTools 1669.0 ms ✓ InlineStrings 785.5 ms ✓ Reexport 1159.6 ms ✓ ConstructionBase 2179.8 ms ✓ IrrationalConstants 777.4 ms ✓ DataValueInterfaces 818.3 ms ✓ StatsAPI 2086.1 ms ✓ Combinatorics 775.9 ms ✓ CommonSolve 866.9 ms ✓ LaTeXStrings 886.3 ms ✓ Glob 1125.7 ms ✓ Statistics 910.3 ms ✓ StaticArraysCore 781.9 ms ✓ IfElse 848.4 ms ✓ PtrArrays 974.8 ms ✓ ManualMemory 886.1 ms ✓ DataAPI 797.6 ms ✓ CommonWorldInvalidations 872.6 ms ✓ InvertedIndices 1469.2 ms ✓ InverseFunctions 839.9 ms ✓ CompositionsBase 845.7 ms ✓ ShiftedArrays 997.3 ms ✓ WorkerUtilities 886.9 ms ✓ TZJData 2150.2 ms ✓ FillArrays 897.2 ms ✓ ExprTools 837.5 ms ✓ UnPack 846.8 ms ✓ DBInterface 1280.8 ms ✓ OrderedCollections 1145.0 ms ✓ DocStringExtensions 1648.2 ms ✓ OffsetArrays 998.2 ms ✓ BufferedStreams 753.8 ms ✓ SIMDTypes 750.4 ms ✓ IteratorInterfaceExtensions 1972.8 ms ✓ Crayons 970.3 ms ✓ DelimitedFiles 1000.1 ms ✓ NaNMath 1198.7 ms ✓ Requires 1352.6 ms ✓ SuiteSparse 2056.7 ms ✓ CpuId 2246.6 ms ✓ MathProgBase 967.5 ms ✓ Scratch 4153.8 ms ✓ SentinelArrays 1610.4 ms ✓ StructTypes 1818.2 ms ✓ ProgressMeter 1390.9 ms ✓ Compat 1159.4 ms ✓ Preferences 2568.2 ms ✓ TranscodingStreams 11973.7 ms ✓ MutableArithmetics 1845.5 ms ✓ CommonSubexpressions 1000.7 ms ✓ ConstructionBase → ConstructionBaseLinearAlgebraExt 1831.2 ms ✓ Statistics → SparseArraysExt 832.8 ms ✓ DiffResults 946.4 ms ✓ AliasTables 1657.1 ms ✓ ThreadingUtilities 931.1 ms ✓ Missings 977.4 ms ✓ PooledArrays 867.0 ms ✓ InverseFunctions → InverseFunctionsDatesExt 1809.1 ms ✓ InverseFunctions → InverseFunctionsTestExt 838.9 ms ✓ CompositionsBase → CompositionsBaseInverseFunctionsExt 1547.7 ms ✓ FillArrays → FillArraysSparseArraysExt 951.1 ms ✓ FillArrays → FillArraysStatisticsExt 3329.3 ms ✓ DataStructures 1432.7 ms ✓ LogExpFunctions 772.4 ms ✓ TableTraits 947.1 ms ✓ Adapt 9973.5 ms ✓ FileIO 1799.3 ms ✓ PDMats 845.4 ms ✓ Compat → CompatLinearAlgebraExt 910.5 ms ✓ PrecompileTools 1329.0 ms ✓ JLLWrappers 1951.2 ms ✓ BioGenerics 2522.8 ms ✓ CodecZstd 1722.3 ms ✓ CodecZlib 6826.3 ms ✓ CategoricalArrays 4892.0 ms ✓ Accessors 1029.8 ms ✓ SortingAlgorithms 2169.9 ms ✓ QuadGK 844.8 ms ✓ LogExpFunctions → LogExpFunctionsInverseFunctionsExt 1857.9 ms ✓ Tables 1144.3 ms ✓ ArrayInterface 1267.6 ms ✓ Adapt → AdaptSparseArraysExt 870.2 ms ✓ OffsetArrays → OffsetArraysAdaptExt 1443.5 ms ✓ FillArrays → FillArraysPDMatsExt 1924.4 ms ✓ FilePathsBase 1160.7 ms ✓ Mocking 2991.8 ms ✓ StringManipulation 18071.0 ms ✓ SIMD 17131.7 ms ✓ Parsers 5398.0 ms ✓ Static 1428.0 ms ✓ OpenBLAS32_jll 1447.0 ms ✓ Bzip2_jll 1487.5 ms ✓ XZ_jll 1431.4 ms ✓ NLopt_jll 1450.9 ms ✓ Rmath_jll 1435.1 ms ✓ OpenSpecFun_jll 1406.9 ms ✓ ASL_jll 1438.1 ms ✓ SQLite_jll 1537.9 ms ✓ METIS_jll 1457.3 ms ✓ Xorg_libpciaccess_jll 1430.8 ms ✓ Libiconv_jll 1830.3 ms ✓ BGZFStreams 1167.9 ms ✓ CategoricalArrays → CategoricalArraysSentinelArraysExt 1045.5 ms ✓ CategoricalArrays → CategoricalArraysStructTypesExt 2036.7 ms ✓ Accessors → TestExt 2635.4 ms ✓ Accessors → LinearAlgebraExt 4590.4 ms ✓ StatsBase 776.1 ms ✓ ArrayInterface → ArrayInterfaceStaticArraysCoreExt 1316.2 ms ✓ ArrayInterface → ArrayInterfaceSparseArraysExt 3125.6 ms ✓ FilePathsBase → FilePathsBaseTestExt 986.3 ms ✓ FilePathsBase → FilePathsBaseMmapExt 5961.4 ms ✓ TimeZones 39454.7 ms ✓ PrettyTables 21580.7 ms ✓ Automa 13530.1 ms ✓ JSON3 3981.7 ms ✓ JSON 991.2 ms ✓ InlineStrings → ParsersExt 957.9 ms ✓ BitTwiddlingConvenienceFunctions 2712.0 ms ✓ CPUSummary 8891.6 ms ✓ StaticArrayInterface 1368.5 ms ✓ CodecBzip2 1555.4 ms ✓ CodecXz 1388.6 ms ✓ Rmath 4895.8 ms ✓ SpecialFunctions 1484.5 ms ✓ MUMPS_seq_jll 1463.0 ms ✓ XML2_jll 7041.8 ms ✓ Roots 90475.8 ms ✓ DataFrames 21060.6 ms ✓ VariantCallFormat 3101.9 ms ✓ BenchmarkTools 1116.0 ms ✓ CategoricalArrays → CategoricalArraysJSONExt 2393.8 ms ✓ WeakRefStrings 1505.7 ms ✓ HostCPUFeatures 1820.5 ms ✓ PolyesterWeave 1047.1 ms ✓ StaticArrayInterface → StaticArrayInterfaceOffsetArraysExt 1169.8 ms ✓ CloseOpenIntervals 1287.3 ms ✓ LayoutPointers 2459.5 ms ✓ HypergeometricFunctions 1276.7 ms ✓ DiffRules 1434.2 ms ✓ Hwloc_jll 25166.4 ms ✓ RData 30870.4 ms ✓ CSV 4152.5 ms ✓ SQLite 17499.0 ms ✓ VectorizationBase 2819.0 ms ✓ StatsFuns 6672.6 ms ✓ ForwardDiff 1425.0 ms ✓ SPRAL_jll 22713.5 ms ✓ RDatasets 8310.6 ms ✓ BGEN 6071.8 ms ✓ SLEEFPirates 1030.9 ms ✓ StatsFuns → StatsFunsInverseFunctionsExt 4878.7 ms ✓ StatsModels 9566.8 ms ✓ Distributions 1372.6 ms ✓ Roots → RootsForwardDiffExt 78099.8 ms ✓ MathOptInterface 1487.8 ms ✓ Ipopt_jll 42990.0 ms ✓ LoopVectorization 5091.4 ms ✓ GLM 3582.7 ms ✓ Distributions → DistributionsTestExt 4387.9 ms ✓ HypothesisTests 7032.3 ms ✓ NLopt 1267.3 ms ✓ Ipopt 5206.6 ms ✓ LoopVectorization → SpecialFunctionsExt 8269.4 ms ✓ VCFTools 47839.5 ms ✓ Ipopt → IpoptMathOptInterfaceExt ✗ SnpArrays 15153.4 ms ✓ OrdinalMultinomialModels ✗ OrdinalGWAS 166 dependencies successfully precompiled in 908 seconds. 39 already precompiled. 1 dependency had output during precompilation: ┌ VariantCallFormat │ [ Info: Compiling VCF parser... └ ERROR: LoadError: The following 1 direct dependency failed to precompile: OrdinalGWAS Failed to precompile OrdinalGWAS [00428148-03d9-50ae-bfb7-4a690d5612f1] to "/home/pkgeval/.julia/compiled/v1.13/OrdinalGWAS/jl_T1kxpX" (ProcessExited(1)). ERROR: LoadError: invalid assignment to constant SnpArrays.AbstractSnpArray. This redefinition may be permitted using the `const` keyword. Stacktrace: [1] top-level scope @ ~/.julia/packages/SnpArrays/CSYLc/src/SnpArrays.jl:48 [2] include(mod::Module, _path::String) @ Base ./Base.jl:309 [3] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::String) @ Base ./loading.jl:3069 [4] top-level scope @ stdin:5 [5] eval(m::Module, e::Any) @ Core ./boot.jl:489 [6] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2915 [7] include_string @ ./loading.jl:2925 [inlined] [8] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [9] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/SnpArrays/CSYLc/src/SnpArrays.jl:3 in expression starting at stdin:5 ERROR: LoadError: Failed to precompile SnpArrays [4e780e97-f5bf-4111-9dc4-b70aaf691b06] to "/home/pkgeval/.julia/compiled/v1.13/SnpArrays/jl_by1Cw5" (ProcessExited(1)). Stacktrace: [1] error(s::String) @ Base ./error.jl:44 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing) @ Base ./loading.jl:3356 [3] kwcall(::@NamedTuple{reasons::Dict{String, Int64}, loadable_exts::Nothing}, ::typeof(Base.compilecache), pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool) @ Base ./loading.jl:3234 [4] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})() @ Base ./loading.jl:2698 [5] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94 [6] #mkpidlock#7 @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined] [7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115 [8] #invokelatest_gr#234 @ ./reflection.jl:1335 [inlined] [9] invokelatest_gr @ ./reflection.jl:1327 [inlined] [10] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, pkg::Base.PkgId, srcpath::String; stale_age::Int64) @ Base ./loading.jl:3927 [11] maybe_cachefile_lock @ ./loading.jl:3924 [inlined] [12] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2684 [13] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2512 [14] macro expansion @ ./loading.jl:2440 [inlined] [15] macro expansion @ ./lock.jl:376 [inlined] [16] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2404 [17] require @ ./loading.jl:2380 [inlined] [18] eval_import_path @ ./module.jl:36 [inlined] [19] eval_import_path_all(at::Module, path::Expr, keyword::String) @ Base ./module.jl:60 [20] _eval_using(to::Module, path::Expr) @ Base ./module.jl:137 [21] top-level scope @ ~/.julia/packages/OrdinalGWAS/r0sGl/src/OrdinalGWAS.jl:7 [22] include(mod::Module, _path::String) @ Base ./Base.jl:309 [23] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing) @ Base ./loading.jl:3069 [24] top-level scope @ stdin:5 [25] eval(m::Module, e::Any) @ Core ./boot.jl:489 [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2915 [27] include_string @ ./loading.jl:2925 [inlined] [28] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [29] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/OrdinalGWAS/r0sGl/src/OrdinalGWAS.jl:3 in expression starting at stdin: in expression starting at /PkgEval.jl/scripts/precompile.jl:37 Precompilation failed after 914.86s ################################################################################ # Loading # Loading OrdinalGWAS... Precompiling packages... ✗ SnpArrays Info Given OrdinalGWAS was explicitly requested, output will be shown live  ERROR: LoadError: invalid assignment to constant SnpArrays.AbstractSnpArray. This redefinition may be permitted using the `const` keyword. Stacktrace:  [1] top-level scope  @ ~/.julia/packages/SnpArrays/CSYLc/src/SnpArrays.jl:48  [2] include(mod::Module, _path::String)  @ Base ./Base.jl:309  [3] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::String)  @ Base ./loading.jl:3069  [4] top-level scope  @ stdin:5  [5] eval(m::Module, e::Any)  @ Core ./boot.jl:489  [6] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:2915  [7] include_string  @ ./loading.jl:2925 [inlined]  [8] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:328  [9] _start()  @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/SnpArrays/CSYLc/src/SnpArrays.jl:3 in expression starting at stdin:5 ERROR: LoadError: Failed to precompile SnpArrays [4e780e97-f5bf-4111-9dc4-b70aaf691b06] to "/home/pkgeval/.julia/compiled/v1.13/SnpArrays/jl_CKpeFT" (ProcessExited(1)). Stacktrace:  [1] error(s::String)  @ Base ./error.jl:44  [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing)  @ Base ./loading.jl:3356  [3] kwcall(::@NamedTuple{reasons::Dict{String, Int64}, loadable_exts::Nothing}, ::typeof(Base.compilecache), pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool)  @ Base ./loading.jl:3234  [4] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})()  @ Base ./loading.jl:2698  [5] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool})  @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94  [6] #mkpidlock#7  @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined]  [7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64})  @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115  [8] #invokelatest_gr#234  @ ./reflection.jl:1335 [inlined]  [9] invokelatest_gr  @ ./reflection.jl:1327 [inlined]  [10] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, pkg::Base.PkgId, srcpath::String; stale_age::Int64)  @ Base ./loading.jl:3927  [11] maybe_cachefile_lock  @ ./loading.jl:3924 [inlined]  [12] __require_prelocked(pkg::Base.PkgId, env::String)  @ Base ./loading.jl:2684  [13] _require_prelocked(uuidkey::Base.PkgId, env::String)  @ Base ./loading.jl:2512  [14] macro expansion  @ ./loading.jl:2440 [inlined]  [15] macro expansion  @ ./lock.jl:376 [inlined]  [16] __require(into::Module, mod::Symbol)  @ Base ./loading.jl:2404  [17] require  @ ./loading.jl:2380 [inlined]  [18] eval_import_path  @ ./module.jl:36 [inlined]  [19] eval_import_path_all(at::Module, path::Expr, keyword::String)  @ Base ./module.jl:60  [20] _eval_using(to::Module, path::Expr)  @ Base ./module.jl:137  [21] top-level scope  @ ~/.julia/packages/OrdinalGWAS/r0sGl/src/OrdinalGWAS.jl:7  [22] include(mod::Module, _path::String)  @ Base ./Base.jl:309  [23] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)  @ Base ./loading.jl:3069  [24] top-level scope  @ stdin:5  [25] eval(m::Module, e::Any)  @ Core ./boot.jl:489  [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:2915  [27] include_string  @ ./loading.jl:2925 [inlined]  [28] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:328  [29] _start()  @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/OrdinalGWAS/r0sGl/src/OrdinalGWAS.jl:3 in expression starting at stdin:5 ✗ OrdinalGWAS 0 dependencies successfully precompiled in 74 seconds. 205 already precompiled. ERROR: The following 1 direct dependency failed to precompile: OrdinalGWAS Failed to precompile OrdinalGWAS [00428148-03d9-50ae-bfb7-4a690d5612f1] to "/home/pkgeval/.julia/compiled/v1.13/OrdinalGWAS/jl_tcZOS5" (ProcessExited(1)). ERROR: LoadError: invalid assignment to constant SnpArrays.AbstractSnpArray. This redefinition may be permitted using the `const` keyword. Stacktrace: [1] top-level scope @ ~/.julia/packages/SnpArrays/CSYLc/src/SnpArrays.jl:48 [2] include(mod::Module, _path::String) @ Base ./Base.jl:309 [3] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::String) @ Base ./loading.jl:3069 [4] top-level scope @ stdin:5 [5] eval(m::Module, e::Any) @ Core ./boot.jl:489 [6] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2915 [7] include_string @ ./loading.jl:2925 [inlined] [8] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [9] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/SnpArrays/CSYLc/src/SnpArrays.jl:3 in expression starting at stdin:5 ERROR: LoadError: Failed to precompile SnpArrays [4e780e97-f5bf-4111-9dc4-b70aaf691b06] to "/home/pkgeval/.julia/compiled/v1.13/SnpArrays/jl_CKpeFT" (ProcessExited(1)). Stacktrace: [1] error(s::String) @ Base ./error.jl:44 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing) @ Base ./loading.jl:3356 [3] kwcall(::@NamedTuple{reasons::Dict{String, Int64}, loadable_exts::Nothing}, ::typeof(Base.compilecache), pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool) @ Base ./loading.jl:3234 [4] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})() @ Base ./loading.jl:2698 [5] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94 [6] #mkpidlock#7 @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined] [7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115 [8] #invokelatest_gr#234 @ ./reflection.jl:1335 [inlined] [9] invokelatest_gr @ ./reflection.jl:1327 [inlined] [10] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, pkg::Base.PkgId, srcpath::String; stale_age::Int64) @ Base ./loading.jl:3927 [11] maybe_cachefile_lock @ ./loading.jl:3924 [inlined] [12] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2684 [13] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2512 [14] macro expansion @ ./loading.jl:2440 [inlined] [15] macro expansion @ ./lock.jl:376 [inlined] [16] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2404 [17] require @ ./loading.jl:2380 [inlined] [18] eval_import_path @ ./module.jl:36 [inlined] [19] eval_import_path_all(at::Module, path::Expr, keyword::String) @ Base ./module.jl:60 [20] _eval_using(to::Module, path::Expr) @ Base ./module.jl:137 [21] top-level scope @ ~/.julia/packages/OrdinalGWAS/r0sGl/src/OrdinalGWAS.jl:7 [22] include(mod::Module, _path::String) @ Base ./Base.jl:309 [23] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing) @ Base ./loading.jl:3069 [24] top-level scope @ stdin:5 [25] eval(m::Module, e::Any) @ Core ./boot.jl:489 [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2915 [27] include_string @ ./loading.jl:2925 [inlined] [28] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [29] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/OrdinalGWAS/r0sGl/src/OrdinalGWAS.jl:3 in expression starting at stdin: Loading failed after 76.47s ERROR: LoadError: failed process: Process(`/opt/julia/bin/julia -C native -J/opt/julia/lib/julia/sys.so -g1 --check-bounds=yes --inline=yes --pkgimages=existing -e 'using OrdinalGWAS'`, ProcessExited(1)) [1] Stacktrace: [1] pipeline_error @ ./process.jl:611 [inlined] [2] run(::Cmd; wait::Bool) @ Base ./process.jl:526 [3] run(::Cmd) @ Base ./process.jl:523 [4] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:193 [5] include(mod::Module, _path::String) @ Base ./Base.jl:309 [6] exec_options(opts::Base.JLOptions) @ Base ./client.jl:330 [7] _start() @ Base ./client.jl:563 in expression starting at /PkgEval.jl/scripts/evaluate.jl:184 PkgEval failed after 1039.63s: package fails to precompile