Package evaluation of TrajGWAS on Julia 1.13.0-DEV.1191 (63a270f4d4*) started at 2025-09-23T14:25:23.346 ################################################################################ # Set-up # Set-up completed after 0.19s ################################################################################ # Installation # Installing TrajGWAS... Resolving package versions... Installed Glob ───────────────────────────── v1.3.1 Installed Bzip2_jll ──────────────────────── v1.0.9+0 Installed CommonWorldInvalidations ───────── v1.0.0 Installed OrderedCollections ─────────────── v1.8.1 Installed SIMDTypes ──────────────────────── v0.1.0 Installed InlineStrings ──────────────────── v1.4.5 Installed HypothesisTests ────────────────── v0.11.5 Installed Optim ──────────────────────────── v1.13.2 Installed Xorg_libpciaccess_jll ──────────── v0.18.1+0 Installed MUMPS_seq_jll ──────────────────── v500.800.100+0 Installed Ipopt_jll ──────────────────────── v300.1400.1900+0 Installed CpuId ──────────────────────────── v0.3.1 Installed SentinelArrays ─────────────────── v1.4.8 Installed NaNMath ────────────────────────── v1.1.3 Installed QuadGK ─────────────────────────── v2.11.2 Installed StaticArrayInterface ───────────── v1.8.0 Installed OpenSpecFun_jll ────────────────── v0.5.6+0 Installed WoodburyMatrices ───────────────── v1.0.0 Installed EnumX ──────────────────────────── v1.0.5 Installed Reexport ───────────────────────── v1.2.2 Installed Tables ─────────────────────────── v1.12.1 Installed NLSolversBase ──────────────────── v7.10.0 Installed DBInterface ────────────────────── v2.6.1 Installed InverseFunctions ───────────────── v0.1.17 Installed Missings ───────────────────────── v1.2.0 Installed Crayons ────────────────────────── v4.1.1 Installed UnPack ─────────────────────────── v1.0.2 Installed Static ─────────────────────────── v1.2.0 Installed TableTraits ────────────────────── v1.0.1 Installed LaTeXStrings ───────────────────── v1.4.0 Installed Preferences ────────────────────── v1.5.0 Installed SortingAlgorithms ──────────────── v1.2.2 Installed DiffResults ────────────────────── v1.1.0 Installed CodecZstd ──────────────────────── v0.8.6 Installed ADTypes ────────────────────────── v1.18.0 Installed MacroTools ─────────────────────── v0.5.16 Installed ManualMemory ───────────────────── v0.1.8 Installed DataStructures ─────────────────── v0.19.1 Installed VCFTools ───────────────────────── v0.2.10 Installed FillArrays ─────────────────────── v1.14.0 Installed DelimitedFiles ─────────────────── v1.9.1 Installed CodecZlib ──────────────────────── v0.7.8 Installed VectorizationBase ──────────────── v0.21.72 Installed DataValueInterfaces ────────────── v1.0.0 Installed ArrayInterface ─────────────────── v7.20.0 Installed StatsBase ──────────────────────── v0.34.6 Installed CommonSubexpressions ───────────── v0.3.1 Installed HostCPUFeatures ────────────────── v0.1.17 Installed IrrationalConstants ────────────── v0.2.4 Installed LayoutPointers ─────────────────── v0.1.17 Installed Hwloc_jll ──────────────────────── v2.12.2+0 Installed SPRAL_jll ──────────────────────── v2025.5.20+0 Installed BufferedStreams ────────────────── v1.2.2 Installed Setfield ───────────────────────── v1.1.2 Installed PooledArrays ───────────────────── v1.4.3 Installed Roots ──────────────────────────── v2.2.10 Installed PDMats ─────────────────────────── v0.11.35 Installed CodecXz ────────────────────────── v0.7.4 Installed BenchmarkTools ─────────────────── v1.6.0 Installed Interpolations ─────────────────── v0.16.2 Installed WorkerUtilities ────────────────── v1.6.1 Installed CompositionsBase ───────────────── v0.1.2 Installed SQLite ─────────────────────────── v1.6.1 Installed DocStringExtensions ────────────── v0.9.5 Installed CommonSolve ────────────────────── v0.2.4 Installed DifferentiationInterface ───────── v0.7.7 Installed MathOptInterface ───────────────── v1.45.0 Installed Rmath_jll ──────────────────────── v0.5.1+0 Installed SLEEFPirates ───────────────────── v0.6.43 Installed AliasTables ────────────────────── v1.1.3 Installed ForwardDiff ────────────────────── v1.2.1 Installed BitTwiddlingConvenienceFunctions ─ v0.1.6 Installed StatsModels ────────────────────── v0.7.7 Installed WiSER ──────────────────────────── v0.2.6 Installed IteratorInterfaceExtensions ────── v1.0.0 Installed ShiftedArrays ──────────────────── v2.0.0 Installed Combinatorics ──────────────────── v1.0.3 Installed SIMD ───────────────────────────── v3.7.1 Installed DataAPI ────────────────────────── v1.16.0 Installed InvertedIndices ────────────────── v1.3.1 Installed StaticArraysCore ───────────────── v1.4.3 Installed AxisAlgorithms ─────────────────── v1.1.0 Installed StaticArrays ───────────────────── v1.9.15 Installed StringManipulation ─────────────── v0.4.1 Installed Requires ───────────────────────── v1.3.1 Installed GeneticVariantBase ─────────────── v0.1.2 Installed DiffRules ──────────────────────── v1.15.1 Installed LogExpFunctions ────────────────── v0.3.29 Installed OpenBLAS32_jll ─────────────────── v0.3.29+0 Installed Parsers ────────────────────────── v2.8.3 Installed JSON ───────────────────────────── v0.21.4 Installed PrettyTables ───────────────────── v3.0.10 Installed Distributions ──────────────────── v0.25.120 Installed Rmath ──────────────────────────── v0.8.0 Installed BioGenerics ────────────────────── v0.1.5 Installed FiniteDiff ─────────────────────── v2.28.1 Installed StatsFuns ──────────────────────── v1.5.0 Installed CloseOpenIntervals ─────────────── v0.1.13 Installed WeakRefStrings ─────────────────── v1.4.2 Installed XZ_jll ─────────────────────────── v5.8.1+0 Installed JLLWrappers ────────────────────── v1.7.1 Installed StructTypes ────────────────────── v1.11.0 Installed MutableArithmetics ─────────────── v1.6.5 Installed DataFrames ─────────────────────── v1.8.0 Installed TrajGWAS ───────────────────────── v0.4.7 Installed BGZFStreams ────────────────────── v0.3.2 Installed NLopt ──────────────────────────── v0.6.5 Installed VariantCallFormat ──────────────── v0.5.7 Installed ThreadingUtilities ─────────────── v0.5.5 Installed Accessors ──────────────────────── v0.1.42 Installed CategoricalArrays ──────────────── v0.10.8 Installed Adapt ──────────────────────────── v4.3.0 Installed ConstructionBase ───────────────── v1.6.0 Installed FilePathsBase ──────────────────── v0.9.24 Installed Compat ─────────────────────────── v4.18.0 Installed HypergeometricFunctions ────────── v0.3.28 Installed CSV ────────────────────────────── v0.10.15 Installed TranscodingStreams ─────────────── v0.9.13 Installed LoopVectorization ──────────────── v0.12.172 Installed PositiveFactorizations ─────────── v0.2.4 Installed Statistics ─────────────────────── v1.11.1 Installed PrecompileTools ────────────────── v1.3.3 Installed StatsAPI ───────────────────────── v1.7.1 Installed OffsetArrays ───────────────────── v1.17.0 Installed ASL_jll ────────────────────────── v0.1.3+0 Installed ProgressMeter ──────────────────── v1.11.0 Installed CodecBzip2 ─────────────────────── v0.8.5 Installed Ratios ─────────────────────────── v0.4.5 Installed CPUSummary ─────────────────────── v0.2.7 Installed ChainRulesCore ─────────────────── v1.26.0 Installed Parameters ─────────────────────── v0.12.3 Installed XML2_jll ───────────────────────── v2.13.8+0 Installed IfElse ─────────────────────────── v0.1.1 Installed PtrArrays ──────────────────────── v1.3.0 Installed JSON3 ──────────────────────────── v1.14.3 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 LineSearches ───────────────────── v7.4.0 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 MathProgBase ───────────────────── v0.7.8 Installed SnpArrays ──────────────────────── v0.3.22 Installed BGEN ───────────────────────────── v0.2.2 Installing 16 artifacts Installed artifact Xorg_libpciaccess 24.8 KiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact Ipopt 1.3 MiB Installed artifact XML2 2.5 MiB Installed artifact METIS 1.1 MiB Installed artifact XZ 1.5 MiB Installed artifact ASL 276.3 KiB Installed artifact Rmath 121.9 KiB Installed artifact SPRAL 691.8 KiB Installed artifact Bzip2 503.5 KiB Installed artifact SQLite 5.0 MiB Installed artifact Hwloc 3.5 MiB Installed artifact NLopt 322.7 KiB Installed artifact Libiconv 1.9 MiB Installed artifact MUMPS_seq 8.6 MiB Installed artifact OpenBLAS32 10.0 MiB Updating `~/.julia/environments/v1.13/Project.toml` [9514c204] + TrajGWAS v0.4.7 Updating `~/.julia/environments/v1.13/Manifest.toml` [47edcb42] + ADTypes v1.18.0 [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 [13072b0f] + AxisAlgorithms v1.1.0 [6db4b851] + BGEN v0.2.2 [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 [d360d2e6] + ChainRulesCore v1.26.0 [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 [a0c0ee7d] + DifferentiationInterface v0.7.7 [31c24e10] + Distributions v0.25.120 [ffbed154] + DocStringExtensions v0.9.5 [4e289a0a] + EnumX v1.0.5 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.14.0 [6a86dc24] + FiniteDiff v2.28.1 [f6369f11] + ForwardDiff v1.2.1 [2447270c] + GeneticVariantBase v0.1.2 [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 [a98d9a8b] + Interpolations v0.16.2 [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 [d3d80556] + LineSearches v7.4.0 [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 [d8a4904e] + MutableArithmetics v1.6.5 [d41bc354] + NLSolversBase v7.10.0 ⌅ [76087f3c] + NLopt v0.6.5 [77ba4419] + NaNMath v1.1.3 [6fe1bfb0] + OffsetArrays v1.17.0 [429524aa] + Optim v1.13.2 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.35 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.8.3 [1d0040c9] + PolyesterWeave v0.2.2 [2dfb63ee] + PooledArrays v1.4.3 [85a6dd25] + PositiveFactorizations v0.2.4 [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 [c84ed2f1] + Ratios v0.4.5 [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 [91c51154] + SentinelArrays v1.4.8 [efcf1570] + Setfield v1.1.2 [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 [90137ffa] + StaticArrays v1.9.15 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.6 [4c63d2b9] + StatsFuns v1.5.0 [3eaba693] + StatsModels v0.7.7 [892a3eda] + StringManipulation v0.4.1 [856f2bd8] + StructTypes v1.11.0 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [8290d209] + ThreadingUtilities v0.5.5 [9514c204] + TrajGWAS v0.4.7 ⌅ [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 [2ff19380] + WiSER v0.2.6 [efce3f68] + WoodburyMatrices v1.0.0 [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 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.13.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [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 19.14s ################################################################################ # 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... 3685.8 ms ✓ MacroTools 1540.2 ms ✓ InlineStrings 759.7 ms ✓ Reexport 1072.7 ms ✓ ConstructionBase 2051.7 ms ✓ IrrationalConstants 774.1 ms ✓ DataValueInterfaces 823.8 ms ✓ StatsAPI 2044.8 ms ✓ Combinatorics 775.2 ms ✓ CommonSolve 827.2 ms ✓ LaTeXStrings 835.2 ms ✓ Glob 1078.9 ms ✓ Statistics 885.1 ms ✓ StaticArraysCore 783.9 ms ✓ IfElse 807.7 ms ✓ PtrArrays 932.4 ms ✓ ManualMemory 956.2 ms ✓ PositiveFactorizations 991.4 ms ✓ DataAPI 923.6 ms ✓ CommonWorldInvalidations 870.3 ms ✓ InvertedIndices 927.2 ms ✓ InverseFunctions 834.8 ms ✓ CompositionsBase 777.3 ms ✓ ShiftedArrays 861.9 ms ✓ EnumX 981.3 ms ✓ WorkerUtilities 2201.2 ms ✓ FillArrays 779.6 ms ✓ UnPack 788.9 ms ✓ DBInterface 1184.5 ms ✓ OrderedCollections 1353.9 ms ✓ ADTypes 1076.8 ms ✓ DocStringExtensions 1956.3 ms ✓ OffsetArrays 1009.5 ms ✓ BufferedStreams 746.6 ms ✓ SIMDTypes 749.1 ms ✓ IteratorInterfaceExtensions 1840.1 ms ✓ Crayons 966.6 ms ✓ DelimitedFiles 982.1 ms ✓ NaNMath 1165.7 ms ✓ Requires 1225.4 ms ✓ SuiteSparse 1837.5 ms ✓ CpuId 2051.7 ms ✓ MathProgBase 1395.3 ms ✓ WoodburyMatrices 3919.6 ms ✓ SentinelArrays 1502.0 ms ✓ StructTypes 1645.7 ms ✓ ProgressMeter 1090.2 ms ✓ Compat 1118.7 ms ✓ Preferences 2415.9 ms ✓ TranscodingStreams 11171.6 ms ✓ MutableArithmetics 1718.0 ms ✓ CommonSubexpressions 801.9 ms ✓ ConstructionBase → ConstructionBaseLinearAlgebraExt 1270.4 ms ✓ Statistics → SparseArraysExt 818.5 ms ✓ DiffResults 922.2 ms ✓ AliasTables 1686.5 ms ✓ ThreadingUtilities 938.1 ms ✓ Missings 1016.7 ms ✓ PooledArrays 902.8 ms ✓ InverseFunctions → InverseFunctionsDatesExt 1805.2 ms ✓ InverseFunctions → InverseFunctionsTestExt 865.8 ms ✓ CompositionsBase → CompositionsBaseInverseFunctionsExt 1567.6 ms ✓ FillArrays → FillArraysSparseArraysExt 981.8 ms ✓ FillArrays → FillArraysStatisticsExt 938.7 ms ✓ Parameters 3528.6 ms ✓ DataStructures 810.6 ms ✓ ADTypes → ADTypesConstructionBaseExt 1842.7 ms ✓ DifferentiationInterface 1285.3 ms ✓ LogExpFunctions 713.9 ms ✓ TableTraits 776.7 ms ✓ Ratios 788.3 ms ✓ Adapt 1626.6 ms ✓ PDMats 1331.5 ms ✓ AxisAlgorithms 831.1 ms ✓ Compat → CompatLinearAlgebraExt 880.2 ms ✓ PrecompileTools 1202.0 ms ✓ JLLWrappers 1703.6 ms ✓ BioGenerics 2600.5 ms ✓ CodecZstd 1719.0 ms ✓ CodecZlib 3037.1 ms ✓ Setfield 6948.8 ms ✓ CategoricalArrays 5088.6 ms ✓ Accessors 1082.0 ms ✓ SortingAlgorithms 2301.3 ms ✓ QuadGK 1304.9 ms ✓ DifferentiationInterface → DifferentiationInterfaceSparseArraysExt 781.4 ms ✓ LogExpFunctions → LogExpFunctionsInverseFunctionsExt 1696.1 ms ✓ Tables 976.1 ms ✓ ArrayInterface 1235.5 ms ✓ Adapt → AdaptSparseArraysExt 849.8 ms ✓ OffsetArrays → OffsetArraysAdaptExt 1406.6 ms ✓ FillArrays → FillArraysPDMatsExt 2674.6 ms ✓ ChainRulesCore 2068.9 ms ✓ FilePathsBase 3114.4 ms ✓ StringManipulation 18043.4 ms ✓ SIMD 12818.0 ms ✓ StaticArrays 16691.8 ms ✓ Parsers 5212.3 ms ✓ Static 1434.3 ms ✓ OpenBLAS32_jll 1414.0 ms ✓ Bzip2_jll 1495.4 ms ✓ XZ_jll 1459.9 ms ✓ NLopt_jll 1421.8 ms ✓ Rmath_jll 1432.2 ms ✓ OpenSpecFun_jll 1387.1 ms ✓ ASL_jll 1486.0 ms ✓ SQLite_jll 1736.1 ms ✓ METIS_jll 1413.5 ms ✓ Xorg_libpciaccess_jll 1327.8 ms ✓ Libiconv_jll 1725.8 ms ✓ BGZFStreams 1156.8 ms ✓ CategoricalArrays → CategoricalArraysSentinelArraysExt 1003.6 ms ✓ CategoricalArrays → CategoricalArraysStructTypesExt 1893.9 ms ✓ Accessors → TestExt 2650.1 ms ✓ Accessors → LinearAlgebraExt 4500.2 ms ✓ StatsBase 763.6 ms ✓ ArrayInterface → ArrayInterfaceStaticArraysCoreExt 1293.8 ms ✓ ArrayInterface → ArrayInterfaceSparseArraysExt 1352.1 ms ✓ ChainRulesCore → ChainRulesCoreSparseArraysExt 881.2 ms ✓ ADTypes → ADTypesChainRulesCoreExt 916.0 ms ✓ DifferentiationInterface → DifferentiationInterfaceChainRulesCoreExt 3216.3 ms ✓ LogExpFunctions → LogExpFunctionsChainRulesCoreExt 844.3 ms ✓ ArrayInterface → ArrayInterfaceChainRulesCoreExt 2952.4 ms ✓ FilePathsBase → FilePathsBaseTestExt 965.2 ms ✓ FilePathsBase → FilePathsBaseMmapExt 38663.2 ms ✓ PrettyTables 22698.8 ms ✓ Automa 1534.7 ms ✓ StaticArrays → StaticArraysStatisticsExt 1732.1 ms ✓ StaticArrays → StaticArraysChainRulesCoreExt 1417.1 ms ✓ ConstructionBase → ConstructionBaseStaticArraysExt 1384.2 ms ✓ DifferentiationInterface → DifferentiationInterfaceStaticArraysExt 1346.3 ms ✓ Adapt → AdaptStaticArraysExt 1557.7 ms ✓ Accessors → StaticArraysExt 15237.5 ms ✓ JSON3 4062.0 ms ✓ JSON 1015.2 ms ✓ InlineStrings → ParsersExt 955.1 ms ✓ BitTwiddlingConvenienceFunctions 2732.2 ms ✓ CPUSummary 8932.2 ms ✓ StaticArrayInterface 1861.8 ms ✓ CodecBzip2 1752.2 ms ✓ CodecXz 1371.4 ms ✓ Rmath 4647.6 ms ✓ SpecialFunctions 1413.0 ms ✓ MUMPS_seq_jll 1397.9 ms ✓ XML2_jll 7114.2 ms ✓ Roots 1915.0 ms ✓ GeneticVariantBase 1343.4 ms ✓ FiniteDiff 90206.8 ms ✓ DataFrames 21245.7 ms ✓ VariantCallFormat 4447.7 ms ✓ Interpolations 3027.5 ms ✓ BenchmarkTools 1128.6 ms ✓ CategoricalArrays → CategoricalArraysJSONExt 2410.3 ms ✓ WeakRefStrings 1545.4 ms ✓ HostCPUFeatures 1846.3 ms ✓ PolyesterWeave 1068.0 ms ✓ StaticArrayInterface → StaticArrayInterfaceOffsetArraysExt 1588.0 ms ✓ StaticArrayInterface → StaticArrayInterfaceStaticArraysExt 1161.9 ms ✓ CloseOpenIntervals 1371.3 ms ✓ LayoutPointers 4126.0 ms ✓ SpecialFunctions → SpecialFunctionsChainRulesCoreExt 2540.6 ms ✓ HypergeometricFunctions 1271.2 ms ✓ DiffRules 1467.3 ms ✓ Hwloc_jll 1272.0 ms ✓ Roots → RootsChainRulesCoreExt 1408.2 ms ✓ FiniteDiff → FiniteDiffStaticArraysExt 1290.1 ms ✓ FiniteDiff → FiniteDiffSparseArraysExt 1015.7 ms ✓ DifferentiationInterface → DifferentiationInterfaceFiniteDiffExt 31401.5 ms ✓ CSV 4149.4 ms ✓ SQLite 17637.1 ms ✓ VectorizationBase 2998.9 ms ✓ StatsFuns 6906.9 ms ✓ ForwardDiff 1503.9 ms ✓ SPRAL_jll 7380.2 ms ✓ BGEN 5791.8 ms ✓ SLEEFPirates 3532.2 ms ✓ StatsFuns → StatsFunsChainRulesCoreExt 1060.5 ms ✓ StatsFuns → StatsFunsInverseFunctionsExt 4803.6 ms ✓ StatsModels 9418.6 ms ✓ Distributions 1693.4 ms ✓ ForwardDiff → ForwardDiffStaticArraysExt 1410.3 ms ✓ DifferentiationInterface → DifferentiationInterfaceForwardDiffExt 1363.1 ms ✓ Roots → RootsForwardDiffExt 2679.4 ms ✓ Interpolations → InterpolationsForwardDiffExt 77570.4 ms ✓ MathOptInterface 1560.0 ms ✓ Ipopt_jll 43253.4 ms ✓ LoopVectorization 3645.4 ms ✓ Distributions → DistributionsTestExt 3186.5 ms ✓ Distributions → DistributionsChainRulesCoreExt 4509.4 ms ✓ HypothesisTests 2222.8 ms ✓ NLSolversBase 7218.5 ms ✓ NLopt 1294.7 ms ✓ Ipopt 5040.1 ms ✓ LoopVectorization → SpecialFunctionsExt 5507.0 ms ✓ LoopVectorization → ForwardDiffExt 8136.9 ms ✓ VCFTools 4214.1 ms ✓ LineSearches 47282.7 ms ✓ Ipopt → IpoptMathOptInterfaceExt ✗ SnpArrays 6433.8 ms ✓ Optim 22271.4 ms ✓ WiSER 6749.1 ms ✓ Optim → OptimMOIExt ✗ TrajGWAS 200 dependencies successfully precompiled in 937 seconds. 40 already precompiled. 1 dependency had output during precompilation: ┌ VariantCallFormat │ [ Info: Compiling VCF parser... └ ERROR: LoadError: The following 1 direct dependency failed to precompile: TrajGWAS Failed to precompile TrajGWAS [9514c204-b736-47c9-8157-11c3e9e5ab30] to "/home/pkgeval/.julia/compiled/v1.13/TrajGWAS/jl_yWW3G0" (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_39gSdq" (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/TrajGWAS/y0Cm6/src/TrajGWAS.jl:3 [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/TrajGWAS/y0Cm6/src/TrajGWAS.jl:1 in expression starting at stdin: in expression starting at /PkgEval.jl/scripts/precompile.jl:37 Precompilation failed after 944.8s ################################################################################ # Loading # Loading TrajGWAS... Precompiling packages... ✗ SnpArrays Info Given TrajGWAS 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_o8g0Kt" (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/TrajGWAS/y0Cm6/src/TrajGWAS.jl:3  [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/TrajGWAS/y0Cm6/src/TrajGWAS.jl:1 in expression starting at stdin:5 ✗ TrajGWAS 0 dependencies successfully precompiled in 71 seconds. 240 already precompiled. ERROR: The following 1 direct dependency failed to precompile: TrajGWAS Failed to precompile TrajGWAS [9514c204-b736-47c9-8157-11c3e9e5ab30] to "/home/pkgeval/.julia/compiled/v1.13/TrajGWAS/jl_zD1Q2a" (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_o8g0Kt" (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/TrajGWAS/y0Cm6/src/TrajGWAS.jl:3 [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/TrajGWAS/y0Cm6/src/TrajGWAS.jl:1 in expression starting at stdin: Loading failed after 73.41s 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 TrajGWAS'`, 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 1059.26s: package fails to precompile