Package evaluation to test TrajGWAS on Julia 1.12.4 (0f21d93eaa*) started at 2026-01-27T09:35:50.402 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.12` Set-up completed after 9.35s ################################################################################ # Installation # Installing TrajGWAS... Resolving package versions... Installed CodecXz ────────────────────────── v0.7.4 Installed SciMLPublic ────────────────────── v1.0.1 Installed BioGenerics ────────────────────── v0.1.5 Installed HypergeometricFunctions ────────── v0.3.28 Installed StatsFuns ──────────────────────── v1.5.2 Installed OffsetArrays ───────────────────── v1.17.0 Installed Preferences ────────────────────── v1.5.1 Installed MutableArithmetics ─────────────── v1.6.7 Installed InlineStrings ──────────────────── v1.4.5 Installed PDMats ─────────────────────────── v0.11.37 Installed ProgressMeter ──────────────────── v1.11.0 Installed Accessors ──────────────────────── v0.1.43 Installed EnumX ──────────────────────────── v1.0.6 Installed DelimitedFiles ─────────────────── v1.9.1 Installed StaticArrays ───────────────────── v1.9.16 Installed Roots ──────────────────────────── v2.2.10 Installed OpenBLAS32_jll ─────────────────── v0.3.30+0 Installed InvertedIndices ────────────────── v1.3.1 Installed Static ─────────────────────────── v1.3.1 Installed Missings ───────────────────────── v1.2.0 Installed Statistics ─────────────────────── v1.11.1 Installed SLEEFPirates ───────────────────── v0.6.43 Installed Xorg_libpciaccess_jll ──────────── v0.18.1+0 Installed IrrationalConstants ────────────── v0.2.6 Installed SIMDTypes ──────────────────────── v0.1.0 Installed SIMD ───────────────────────────── v3.7.2 Installed FiniteDiff ─────────────────────── v2.29.0 Installed JSON ───────────────────────────── v1.4.0 Installed PtrArrays ──────────────────────── v1.3.0 Installed MUMPS_seq_jll ──────────────────── v500.800.200+0 Installed CpuId ──────────────────────────── v0.3.1 Installed NLopt ──────────────────────────── v0.6.5 Installed Hwloc_jll ──────────────────────── v2.12.2+0 Installed ADTypes ────────────────────────── v1.21.0 Installed DataFrames ─────────────────────── v1.8.1 Installed Bzip2_jll ──────────────────────── v1.0.9+0 Installed XZ_jll ─────────────────────────── v5.8.2+0 Installed CodecBzip2 ─────────────────────── v0.8.5 Installed SentinelArrays ─────────────────── v1.4.9 Installed SpecialFunctions ───────────────── v2.6.1 Installed BenchmarkTools ─────────────────── v1.6.3 Installed IfElse ─────────────────────────── v0.1.1 Installed NaNMath ────────────────────────── v1.1.3 Installed StaticArraysCore ───────────────── v1.4.4 Installed WorkerUtilities ────────────────── v1.6.1 Installed ThreadingUtilities ─────────────── v0.5.5 Installed TranscodingStreams ─────────────── v0.9.13 Installed NLSolversBase ──────────────────── v7.10.0 Installed ManualMemory ───────────────────── v0.1.8 Installed Ipopt_jll ──────────────────────── v300.1400.1901+0 Installed DBInterface ────────────────────── v2.6.1 Installed HypothesisTests ────────────────── v0.11.6 Installed MathProgBase ───────────────────── v0.7.8 Installed MathOptInterface ───────────────── v1.48.0 Installed Rmath_jll ──────────────────────── v0.5.1+0 Installed TrajGWAS ───────────────────────── v0.4.7 Installed StatsModels ────────────────────── v0.7.8 Installed Ratios ─────────────────────────── v0.4.5 Installed WeakRefStrings ─────────────────── v1.4.2 Installed CommonSubexpressions ───────────── v0.3.1 Installed DataStructures ─────────────────── v0.19.3 Installed BufferedStreams ────────────────── v1.2.2 Installed StatsAPI ───────────────────────── v1.8.0 Installed Compat ─────────────────────────── v4.18.1 Installed CommonWorldInvalidations ───────── v1.0.0 Installed METIS_jll ──────────────────────── v5.1.3+0 Installed CodecZlib ──────────────────────── v0.7.8 Installed Glob ───────────────────────────── v1.4.0 Installed Automa ─────────────────────────── v1.1.0 Installed StaticArrayInterface ───────────── v1.8.0 Installed StructTypes ────────────────────── v1.11.0 Installed BitTwiddlingConvenienceFunctions ─ v0.1.6 Installed DiffRules ──────────────────────── v1.15.1 Installed StatsBase ──────────────────────── v0.34.10 Installed LayoutPointers ─────────────────── v0.1.17 Installed Zstd_jll ───────────────────────── v1.5.7+1 Installed SPRAL_jll ──────────────────────── v2025.9.18+0 Installed JSON3 ──────────────────────────── v1.14.3 Installed TableTraits ────────────────────── v1.0.1 Installed DiffResults ────────────────────── v1.1.0 Installed PositiveFactorizations ─────────── v0.2.4 Installed Setfield ───────────────────────── v1.1.2 Installed Parsers ────────────────────────── v2.8.3 Installed BGEN ───────────────────────────── v0.2.2 Installed CategoricalArrays ──────────────── v0.10.7 Installed PooledArrays ───────────────────── v1.4.3 Installed PrettyTables ───────────────────── v3.1.2 Installed LoopVectorization ──────────────── v0.12.173 Installed DataValueInterfaces ────────────── v1.0.0 Installed JLLWrappers ────────────────────── v1.7.1 Installed ConstructionBase ───────────────── v1.6.0 Installed OrderedCollections ─────────────── v1.8.1 Installed VCFTools ───────────────────────── v0.2.10 Installed ChainRulesCore ─────────────────── v1.26.0 Installed PolyesterWeave ─────────────────── v0.2.2 Installed Combinatorics ──────────────────── v1.1.0 Installed ArrayInterface ─────────────────── v7.22.0 Installed LineSearches ───────────────────── v7.5.1 Installed Reexport ───────────────────────── v1.2.2 Installed VariantCallFormat ──────────────── v0.5.9 Installed Interpolations ─────────────────── v0.16.2 Installed AliasTables ────────────────────── v1.1.3 Installed LogExpFunctions ────────────────── v0.3.29 Installed CompositionsBase ───────────────── v0.1.2 Installed CloseOpenIntervals ─────────────── v0.1.13 Installed MacroTools ─────────────────────── v0.5.16 Installed ASL_jll ────────────────────────── v0.1.3+0 Installed OpenSpecFun_jll ────────────────── v0.5.6+0 Installed UnPack ─────────────────────────── v1.0.2 Installed InverseFunctions ───────────────── v0.1.17 Installed CommonSolve ────────────────────── v0.2.6 Installed NLopt_jll ──────────────────────── v2.10.0+0 Installed Crayons ────────────────────────── v4.1.1 Installed Adapt ──────────────────────────── v4.4.0 Installed DocStringExtensions ────────────── v0.9.5 Installed SQLite ─────────────────────────── v1.7.1 Installed DifferentiationInterface ───────── v0.7.15 Installed dlfcn_win32_jll ────────────────── v1.4.2+0 Installed XML2_jll ───────────────────────── v2.13.9+0 Installed Rmath ──────────────────────────── v0.9.0 Installed SQLite_jll ─────────────────────── v3.51.2+0 Installed CPUSummary ─────────────────────── v0.2.7 Installed VectorizationBase ──────────────── v0.21.72 Installed Ipopt ──────────────────────────── v1.14.0 Installed DataAPI ────────────────────────── v1.16.0 Installed GeneticVariantBase ─────────────── v0.1.2 Installed Tables ─────────────────────────── v1.12.1 Installed IteratorInterfaceExtensions ────── v1.0.0 Installed Libiconv_jll ───────────────────── v1.18.0+0 Installed Optim ──────────────────────────── v1.13.3 Installed BGZFStreams ────────────────────── v0.3.2 Installed PrecompileTools ────────────────── v1.3.3 Installed LaTeXStrings ───────────────────── v1.4.0 Installed HostCPUFeatures ────────────────── v0.1.18 Installed FilePathsBase ──────────────────── v0.9.24 Installed CodecZstd ──────────────────────── v0.8.7 Installed FillArrays ─────────────────────── v1.16.0 Installed QuadGK ─────────────────────────── v2.11.2 Installed ForwardDiff ────────────────────── v1.3.1 Installed WiSER ──────────────────────────── v0.2.6 Installed AxisAlgorithms ─────────────────── v1.1.0 Installed ShiftedArrays ──────────────────── v2.0.0 Installed Requires ───────────────────────── v1.3.1 Installed StringManipulation ─────────────── v0.4.2 Installed SortingAlgorithms ──────────────── v1.2.2 Installed WoodburyMatrices ───────────────── v1.1.0 Installed StructUtils ────────────────────── v2.6.2 Installed Distributions ──────────────────── v0.25.123 Installed SnpArrays ──────────────────────── v0.3.22 Installed CSV ────────────────────────────── v0.10.15 Installing 17 artifacts Installed artifact NLopt 322.7 KiB Installed artifact SPRAL 691.9 KiB Installed artifact METIS 1.1 MiB Installed artifact Bzip2 503.5 KiB Installed artifact XML2 2.5 MiB Installed artifact Libiconv 1.9 MiB Installed artifact Xorg_libpciaccess 24.8 KiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact Ipopt 1.3 MiB Installed artifact Zstd 646.0 KiB Installed artifact ASL 276.3 KiB Installed artifact Hwloc 3.5 MiB Installed artifact Rmath 121.9 KiB Installed artifact XZ 1.5 MiB Installed artifact SQLite 1.7 MiB Installed artifact OpenBLAS32 10.0 MiB Installed artifact MUMPS_seq 8.6 MiB Updating `~/.julia/environments/v1.12/Project.toml` [9514c204] + TrajGWAS v0.4.7 Updating `~/.julia/environments/v1.12/Manifest.toml` [47edcb42] + ADTypes v1.21.0 [7d9f7c33] + Accessors v0.1.43 [79e6a3ab] + Adapt v4.4.0 [66dad0bd] + AliasTables v1.1.3 [4fba245c] + ArrayInterface v7.22.0 [67c07d97] + Automa v1.1.0 [13072b0f] + AxisAlgorithms v1.1.0 [6db4b851] + BGEN v0.2.2 [28d598bf] + BGZFStreams v0.3.2 [6e4b80f9] + BenchmarkTools v1.6.3 [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 v0.10.7 [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 v0.8.7 [861a8166] + Combinatorics v1.1.0 [38540f10] + CommonSolve v0.2.6 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.18.1 [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 v1.8.1 [864edb3b] + DataStructures v0.19.3 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [a0c0ee7d] + DifferentiationInterface v0.7.15 [31c24e10] + Distributions v0.25.123 [ffbed154] + DocStringExtensions v0.9.5 [4e289a0a] + EnumX v1.0.6 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.16.0 [6a86dc24] + FiniteDiff v2.29.0 [f6369f11] + ForwardDiff v1.3.1 [2447270c] + GeneticVariantBase v0.1.2 [c27321d9] + Glob v1.4.0 [3e5b6fbb] + HostCPUFeatures v0.1.18 [34004b35] + HypergeometricFunctions v0.3.28 [09f84164] + HypothesisTests v0.11.6 [615f187c] + IfElse v0.1.1 [842dd82b] + InlineStrings v1.4.5 [a98d9a8b] + Interpolations v0.16.2 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 [b6b21f68] + Ipopt v1.14.0 [92d709cd] + IrrationalConstants v0.2.6 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 [682c06a0] + JSON v1.4.0 [0f8b85d8] + JSON3 v1.14.3 [b964fa9f] + LaTeXStrings v1.4.0 [10f19ff3] + LayoutPointers v0.1.17 ⌃ [d3d80556] + LineSearches v7.5.1 [2ab3a3ac] + LogExpFunctions v0.3.29 [bdcacae8] + LoopVectorization v0.12.173 [1914dd2f] + MacroTools v0.5.16 [d125e4d3] + ManualMemory v0.1.8 [b8f27783] + MathOptInterface v1.48.0 [fdba3010] + MathProgBase v0.7.8 [e1d29d7a] + Missings v1.2.0 [d8a4904e] + MutableArithmetics v1.6.7 ⌅ [d41bc354] + NLSolversBase v7.10.0 ⌅ [76087f3c] + NLopt v0.6.5 [77ba4419] + NaNMath v1.1.3 [6fe1bfb0] + OffsetArrays v1.17.0 ⌅ [429524aa] + Optim v1.13.3 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.37 [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 v1.5.1 [08abe8d2] + PrettyTables v3.1.2 [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 v0.9.0 [f2b01f46] + Roots v2.2.10 [fdea26ae] + SIMD v3.7.2 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.43 [0aa819cd] + SQLite v1.7.1 [431bcebd] + SciMLPublic v1.0.1 [91c51154] + SentinelArrays v1.4.9 [efcf1570] + Setfield v1.1.2 [1277b4bf] + ShiftedArrays v2.0.0 [4e780e97] + SnpArrays v0.3.22 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.6.1 [aedffcd0] + Static v1.3.1 [0d7ed370] + StaticArrayInterface v1.8.0 [90137ffa] + StaticArrays v1.9.16 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.8.0 [2913bbd2] + StatsBase v0.34.10 [4c63d2b9] + StatsFuns v1.5.2 [3eaba693] + StatsModels v0.7.8 [892a3eda] + StringManipulation v0.4.2 [856f2bd8] + StructTypes v1.11.0 [ec057cc2] + StructUtils v2.6.2 [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 v0.5.9 [3d5dd08c] + VectorizationBase v0.21.72 [ea10d353] + WeakRefStrings v1.4.2 [2ff19380] + WiSER v0.2.6 [efce3f68] + WoodburyMatrices v1.1.0 [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 v300.1400.1901+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [d00139f3] + METIS_jll v5.1.3+0 [d7ed1dd3] + MUMPS_seq_jll v500.800.200+0 [079eb43e] + NLopt_jll v2.10.0+0 [656ef2d0] + OpenBLAS32_jll v0.3.30+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [319450e9] + SPRAL_jll v2025.9.18+0 [76ed43ae] + SQLite_jll v3.51.2+0 ⌅ [02c8fc9c] + XML2_jll v2.13.9+0 [ffd25f8a] + XZ_jll v5.8.2+0 [a65dc6b1] + Xorg_libpciaccess_jll v0.18.1+0 [3161d3a3] + Zstd_jll v1.5.7+1 [c4b69c83] + dlfcn_win32_jll v1.4.2+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 v1.12.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.12.1 [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 v1.12.0 [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 v8.15.0+0 [e37daf67] + LibGit2_jll v1.9.0+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.11.4 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.4+0 [bea87d4a] + SuiteSparse_jll v7.8.3+2 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.15.0+0 [8e850ede] + nghttp2_jll v1.64.0+1 [3f19e933] + p7zip_jll v17.7.0+0 Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. To see why use `status --outdated -m` Installation completed after 18.78s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 4082.4 ms ✓ TestEnv 1 dependency successfully precompiled in 4 seconds. 26 already precompiled. Precompiling package dependencies... Precompiling packages... 2133.0 ms ✓ Combinatorics 784.5 ms ✓ LaTeXStrings 922.1 ms ✓ PositiveFactorizations 973.3 ms ✓ Glob 726.7 ms ✓ IteratorInterfaceExtensions 997.0 ms ✓ WorkerUtilities 821.3 ms ✓ StatsAPI 1411.7 ms ✓ ADTypes 1674.2 ms ✓ OffsetArrays 769.4 ms ✓ UnPack 1900.6 ms ✓ FillArrays 884.5 ms ✓ InverseFunctions 979.9 ms ✓ BufferedStreams 1085.9 ms ✓ Statistics 747.7 ms ✓ CommonSolve 7118.7 ms ✓ MacroTools 1197.0 ms ✓ ManualMemory 864.8 ms ✓ ShiftedArrays 3826.1 ms ✓ OrderedCollections 1186.7 ms ✓ Requires 747.4 ms ✓ DataValueInterfaces 857.1 ms ✓ EnumX 774.7 ms ✓ Reexport 748.1 ms ✓ SIMDTypes 1113.0 ms ✓ DocStringExtensions 1705.3 ms ✓ InlineStrings 4897.8 ms ✓ IrrationalConstants 803.0 ms ✓ CompositionsBase 788.9 ms ✓ PtrArrays 781.0 ms ✓ DBInterface 3775.8 ms ✓ NaNMath 924.8 ms ✓ DelimitedFiles 830.8 ms ✓ InvertedIndices 765.9 ms ✓ IfElse 3797.5 ms ✓ ConstructionBase 795.3 ms ✓ CommonWorldInvalidations 863.5 ms ✓ DataAPI 4630.6 ms ✓ Crayons 856.1 ms ✓ SciMLPublic 969.2 ms ✓ StaticArraysCore 1853.0 ms ✓ ProgressMeter 1746.6 ms ✓ PDMats 1346.5 ms ✓ WoodburyMatrices 4762.2 ms ✓ MathProgBase 1989.1 ms ✓ SentinelArrays 4326.9 ms ✓ StructTypes 3630.6 ms ✓ StructUtils 1878.4 ms ✓ CpuId 1137.7 ms ✓ Preferences 3868.1 ms ✓ Compat 2275.9 ms ✓ TranscodingStreams 11217.8 ms ✓ MutableArithmetics 734.9 ms ✓ TableTraits 4536.8 ms ✓ DifferentiationInterface 1383.1 ms ✓ FillArrays → FillArraysSparseArraysExt 1657.6 ms ✓ InverseFunctions → InverseFunctionsTestExt 831.6 ms ✓ InverseFunctions → InverseFunctionsDatesExt 1242.9 ms ✓ Statistics → SparseArraysExt 904.7 ms ✓ FillArrays → FillArraysStatisticsExt 1578.2 ms ✓ CommonSubexpressions 4533.4 ms ✓ ThreadingUtilities 3380.3 ms ✓ DataStructures 816.3 ms ✓ Ratios 892.6 ms ✓ Adapt 1327.9 ms ✓ LogExpFunctions 798.6 ms ✓ CompositionsBase → CompositionsBaseInverseFunctionsExt 958.7 ms ✓ AliasTables 797.7 ms ✓ ConstructionBase → ConstructionBaseLinearAlgebraExt 759.7 ms ✓ ADTypes → ADTypesConstructionBaseExt 975.4 ms ✓ PooledArrays 3567.8 ms ✓ Missings 847.9 ms ✓ DiffResults 1335.4 ms ✓ FillArrays → FillArraysPDMatsExt 1311.2 ms ✓ AxisAlgorithms 1154.3 ms ✓ JLLWrappers 917.4 ms ✓ PrecompileTools 880.4 ms ✓ Compat → CompatLinearAlgebraExt 4658.2 ms ✓ BioGenerics 1676.6 ms ✓ CodecZlib 4011.0 ms ✓ Tables 1750.5 ms ✓ DifferentiationInterface → DifferentiationInterfaceSparseArraysExt 1199.3 ms ✓ SortingAlgorithms 4715.1 ms ✓ QuadGK 1249.7 ms ✓ Adapt → AdaptSparseArraysExt 3704.1 ms ✓ ArrayInterface 883.0 ms ✓ OffsetArrays → OffsetArraysAdaptExt 779.2 ms ✓ LogExpFunctions → LogExpFunctionsInverseFunctionsExt 2925.6 ms ✓ Setfield 7799.6 ms ✓ Accessors 7673.5 ms ✓ CategoricalArrays 1110.1 ms ✓ dlfcn_win32_jll 1407.9 ms ✓ Bzip2_jll 1339.0 ms ✓ Xorg_libpciaccess_jll 1371.1 ms ✓ METIS_jll 1341.0 ms ✓ Rmath_jll 1321.6 ms ✓ ASL_jll 1410.7 ms ✓ XZ_jll 1361.3 ms ✓ NLopt_jll 1358.7 ms ✓ Zstd_jll 1394.5 ms ✓ Libiconv_jll 1374.7 ms ✓ OpenSpecFun_jll 1410.1 ms ✓ OpenBLAS32_jll 17573.4 ms ✓ StaticArrays 3379.8 ms ✓ StringManipulation 19793.2 ms ✓ SIMD 20712.1 ms ✓ Parsers 7903.6 ms ✓ Static 2368.1 ms ✓ FilePathsBase 5161.7 ms ✓ ChainRulesCore 1693.4 ms ✓ BGZFStreams 817.6 ms ✓ StructUtils → StructUtilsTablesExt 7816.8 ms ✓ StatsBase 1818.0 ms ✓ ArrayInterface → ArrayInterfaceSparseArraysExt 1327.2 ms ✓ ArrayInterface → ArrayInterfaceStaticArraysCoreExt 2727.8 ms ✓ Accessors → LinearAlgebraExt 1921.5 ms ✓ Accessors → TestExt 1353.5 ms ✓ SQLite_jll 1716.6 ms ✓ CodecBzip2 1485.9 ms ✓ MUMPS_seq_jll 1662.6 ms ✓ Rmath 1581.8 ms ✓ CodecXz 2799.2 ms ✓ CodecZstd 1401.1 ms ✓ XML2_jll 5518.8 ms ✓ SpecialFunctions 1362.8 ms ✓ StaticArrays → StaticArraysStatisticsExt 1483.2 ms ✓ FillArrays → FillArraysStaticArraysExt 1418.5 ms ✓ ConstructionBase → ConstructionBaseStaticArraysExt 1355.8 ms ✓ DifferentiationInterface → DifferentiationInterfaceStaticArraysExt 1330.8 ms ✓ Adapt → AdaptStaticArraysExt 1513.5 ms ✓ Accessors → StaticArraysExt 45514.4 ms ✓ PrettyTables 24167.8 ms ✓ Automa 18071.0 ms ✓ JSON3 9848.7 ms ✓ JSON 911.4 ms ✓ InlineStrings → ParsersExt 852.7 ms ✓ BitTwiddlingConvenienceFunctions 2329.6 ms ✓ CPUSummary 9237.1 ms ✓ StaticArrayInterface 1312.6 ms ✓ FilePathsBase → FilePathsBaseMmapExt 3394.5 ms ✓ FilePathsBase → FilePathsBaseTestExt 4204.0 ms ✓ ChainRulesCore → ChainRulesCoreSparseArraysExt 875.1 ms ✓ ADTypes → ADTypesChainRulesCoreExt 893.6 ms ✓ DifferentiationInterface → DifferentiationInterfaceChainRulesCoreExt 3395.4 ms ✓ LogExpFunctions → LogExpFunctionsChainRulesCoreExt 862.3 ms ✓ ArrayInterface → ArrayInterfaceChainRulesCoreExt 4114.3 ms ✓ StaticArrays → StaticArraysChainRulesCoreExt 1600.3 ms ✓ GeneticVariantBase 1440.6 ms ✓ PDMats → StatsBaseExt 1901.6 ms ✓ FiniteDiff 9256.1 ms ✓ Roots 1445.4 ms ✓ Hwloc_jll 4206.8 ms ✓ SpecialFunctions → SpecialFunctionsChainRulesCoreExt 2222.6 ms ✓ HypergeometricFunctions 1328.9 ms ✓ DiffRules 89321.3 ms ✓ DataFrames 20687.1 ms ✓ VariantCallFormat 2963.5 ms ✓ BenchmarkTools 2107.9 ms ✓ WeakRefStrings 1808.8 ms ✓ HostCPUFeatures 1670.1 ms ✓ PolyesterWeave 1489.1 ms ✓ StaticArrayInterface → StaticArrayInterfaceStaticArraysExt 1046.1 ms ✓ StaticArrayInterface → StaticArrayInterfaceOffsetArraysExt 1166.9 ms ✓ CloseOpenIntervals 1286.5 ms ✓ LayoutPointers 6760.5 ms ✓ Interpolations 1136.0 ms ✓ FiniteDiff → FiniteDiffSparseArraysExt 1278.0 ms ✓ FiniteDiff → FiniteDiffStaticArraysExt 1457.3 ms ✓ DifferentiationInterface → DifferentiationInterfaceFiniteDiffExt 1615.1 ms ✓ Roots → RootsChainRulesCoreExt 1676.7 ms ✓ SPRAL_jll 5675.1 ms ✓ StatsFuns 9251.9 ms ✓ ForwardDiff 31423.8 ms ✓ CSV 3643.1 ms ✓ SQLite 20213.9 ms ✓ VectorizationBase 1502.6 ms ✓ Ipopt_jll 1053.0 ms ✓ StatsFuns → StatsFunsInverseFunctionsExt 3863.2 ms ✓ StatsFuns → StatsFunsChainRulesCoreExt 4525.7 ms ✓ StatsModels 11314.1 ms ✓ Distributions 1948.6 ms ✓ ForwardDiff → ForwardDiffStaticArraysExt 4582.0 ms ✓ DifferentiationInterface → DifferentiationInterfaceForwardDiffExt 1350.1 ms ✓ Roots → RootsForwardDiffExt 86036.4 ms ✓ MathOptInterface 2694.3 ms ✓ Interpolations → InterpolationsForwardDiffExt 6740.9 ms ✓ BGEN 5921.2 ms ✓ SLEEFPirates 1367.4 ms ✓ Ipopt 3411.4 ms ✓ Distributions → DistributionsTestExt 5630.3 ms ✓ Distributions → DistributionsChainRulesCoreExt 4117.4 ms ✓ HypothesisTests 1971.6 ms ✓ NLSolversBase 7504.5 ms ✓ NLopt 50775.5 ms ✓ LoopVectorization 53984.6 ms ✓ Ipopt → IpoptMathOptInterfaceExt 7800.2 ms ✓ VCFTools 4871.5 ms ✓ LineSearches 5360.2 ms ✓ LoopVectorization → SpecialFunctionsExt 8325.3 ms ✓ LoopVectorization → ForwardDiffExt 22793.5 ms ✓ WiSER 6530.4 ms ✓ Optim ✗ SnpArrays 6997.0 ms ✓ Optim → OptimMOIExt ✗ TrajGWAS 202 dependencies successfully precompiled in 1083 seconds. 40 already precompiled. 1 dependency had output during precompilation: ┌ VariantCallFormat │ [ Info: Compiling VCF parser... └ ERROR: LoadError: The following 2 direct dependencies failed to precompile: SnpArrays Failed to precompile SnpArrays [4e780e97-f5bf-4111-9dc4-b70aaf691b06] to "/home/pkgeval/.julia/compiled/v1.12/SnpArrays/jl_aWW0xE". 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:306 [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::Nothing) @ Base ./loading.jl:3024 [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:2870 [7] include_string @ ./loading.jl:2880 [inlined] [8] exec_options(opts::Base.JLOptions) @ Base ./client.jl:315 [9] _start() @ Base ./client.jl:550 in expression starting at /home/pkgeval/.julia/packages/SnpArrays/CSYLc/src/SnpArrays.jl:3 in expression starting at stdin:5 TrajGWAS Failed to precompile TrajGWAS [9514c204-b736-47c9-8157-11c3e9e5ab30] to "/home/pkgeval/.julia/compiled/v1.12/TrajGWAS/jl_QmN1UJ". 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:306 [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:3024 [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:2870 [7] include_string @ ./loading.jl:2880 [inlined] [8] exec_options(opts::Base.JLOptions) @ Base ./client.jl:315 [9] _start() @ Base ./client.jl:550 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/v1.12/SnpArrays/jl_7LBt5S". 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:3311 [3] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})() @ Base ./loading.jl:2679 [4] 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/v1.12/FileWatching/src/pidfile.jl:93 [5] #mkpidlock#7 @ /opt/julia/share/julia/stdlib/v1.12/FileWatching/src/pidfile.jl:88 [inlined] [6] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.12/FileWatching/src/pidfile.jl:114 [7] #invokelatest_gr#232 @ ./reflection.jl:1297 [inlined] [8] invokelatest_gr @ ./reflection.jl:1289 [inlined] [9] 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:3882 [10] maybe_cachefile_lock @ ./loading.jl:3879 [inlined] [11] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2665 [12] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2493 [13] macro expansion @ ./loading.jl:2421 [inlined] [14] macro expansion @ ./lock.jl:376 [inlined] [15] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2386 [16] require(into::Module, mod::Symbol) @ Base ./loading.jl:2362 [17] top-level scope @ ~/.julia/packages/TrajGWAS/y0Cm6/src/TrajGWAS.jl:3 [18] include(mod::Module, _path::String) @ Base ./Base.jl:306 [19] 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:3024 [20] top-level scope @ stdin:5 [21] eval(m::Module, e::Any) @ Core ./boot.jl:489 [22] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2870 [23] include_string @ ./loading.jl:2880 [inlined] [24] exec_options(opts::Base.JLOptions) @ Base ./client.jl:315 [25] _start() @ Base ./client.jl:550 in expression starting at /home/pkgeval/.julia/packages/TrajGWAS/y0Cm6/src/TrajGWAS.jl:1 in expression starting at stdin:5 in expression starting at /PkgEval.jl/scripts/precompile.jl:34 Precompilation failed after 1094.13s ################################################################################ # Testing # Testing TrajGWAS Status `/tmp/jl_vRU03v/Project.toml` [6db4b851] BGEN v0.2.2 [336ed68f] CSV v0.10.15 [a93c6f00] DataFrames v1.8.1 [31c24e10] Distributions v0.25.123 [a98d9a8b] Interpolations v0.16.2 [b8f27783] MathOptInterface v1.48.0 ⌅ [429524aa] Optim v1.13.3 [189a3867] Reexport v1.2.2 [4e780e97] SnpArrays v0.3.22 [10745b16] Statistics v1.11.1 [2913bbd2] StatsBase v0.34.10 [3eaba693] StatsModels v0.7.8 [bd369af6] Tables v1.12.1 [9514c204] TrajGWAS v0.4.7 [a620830f] VCFTools v0.2.10 [28eba6e3] VariantCallFormat v0.5.9 [2ff19380] WiSER v0.2.6 [37e2e46d] LinearAlgebra v1.12.0 [de0858da] Printf v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_vRU03v/Manifest.toml` [47edcb42] ADTypes v1.21.0 [7d9f7c33] Accessors v0.1.43 [79e6a3ab] Adapt v4.4.0 [66dad0bd] AliasTables v1.1.3 [4fba245c] ArrayInterface v7.22.0 [67c07d97] Automa v1.1.0 [13072b0f] AxisAlgorithms v1.1.0 [6db4b851] BGEN v0.2.2 [28d598bf] BGZFStreams v0.3.2 [6e4b80f9] BenchmarkTools v1.6.3 [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 v0.10.7 [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 v0.8.7 [861a8166] Combinatorics v1.1.0 [38540f10] CommonSolve v0.2.6 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.18.1 [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 v1.8.1 [864edb3b] DataStructures v0.19.3 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 [a0c0ee7d] DifferentiationInterface v0.7.15 [31c24e10] Distributions v0.25.123 [ffbed154] DocStringExtensions v0.9.5 [4e289a0a] EnumX v1.0.6 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.16.0 [6a86dc24] FiniteDiff v2.29.0 [f6369f11] ForwardDiff v1.3.1 [2447270c] GeneticVariantBase v0.1.2 [c27321d9] Glob v1.4.0 [3e5b6fbb] HostCPUFeatures v0.1.18 [34004b35] HypergeometricFunctions v0.3.28 [09f84164] HypothesisTests v0.11.6 [615f187c] IfElse v0.1.1 [842dd82b] InlineStrings v1.4.5 [a98d9a8b] Interpolations v0.16.2 [3587e190] InverseFunctions v0.1.17 [41ab1584] InvertedIndices v1.3.1 [b6b21f68] Ipopt v1.14.0 [92d709cd] IrrationalConstants v0.2.6 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.1 [682c06a0] JSON v1.4.0 [0f8b85d8] JSON3 v1.14.3 [b964fa9f] LaTeXStrings v1.4.0 [10f19ff3] LayoutPointers v0.1.17 ⌃ [d3d80556] LineSearches v7.5.1 [2ab3a3ac] LogExpFunctions v0.3.29 [bdcacae8] LoopVectorization v0.12.173 [1914dd2f] MacroTools v0.5.16 [d125e4d3] ManualMemory v0.1.8 [b8f27783] MathOptInterface v1.48.0 [fdba3010] MathProgBase v0.7.8 [e1d29d7a] Missings v1.2.0 [d8a4904e] MutableArithmetics v1.6.7 ⌅ [d41bc354] NLSolversBase v7.10.0 ⌅ [76087f3c] NLopt v0.6.5 [77ba4419] NaNMath v1.1.3 [6fe1bfb0] OffsetArrays v1.17.0 ⌅ [429524aa] Optim v1.13.3 [bac558e1] OrderedCollections v1.8.1 [90014a1f] PDMats v0.11.37 [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 v1.5.1 [08abe8d2] PrettyTables v3.1.2 [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 v0.9.0 [f2b01f46] Roots v2.2.10 [fdea26ae] SIMD v3.7.2 [94e857df] SIMDTypes v0.1.0 [476501e8] SLEEFPirates v0.6.43 [0aa819cd] SQLite v1.7.1 [431bcebd] SciMLPublic v1.0.1 [91c51154] SentinelArrays v1.4.9 [efcf1570] Setfield v1.1.2 [1277b4bf] ShiftedArrays v2.0.0 [4e780e97] SnpArrays v0.3.22 [a2af1166] SortingAlgorithms v1.2.2 [276daf66] SpecialFunctions v2.6.1 [aedffcd0] Static v1.3.1 [0d7ed370] StaticArrayInterface v1.8.0 [90137ffa] StaticArrays v1.9.16 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.8.0 [2913bbd2] StatsBase v0.34.10 [4c63d2b9] StatsFuns v1.5.2 [3eaba693] StatsModels v0.7.8 [892a3eda] StringManipulation v0.4.2 [856f2bd8] StructTypes v1.11.0 [ec057cc2] StructUtils v2.6.2 [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 v0.5.9 [3d5dd08c] VectorizationBase v0.21.72 [ea10d353] WeakRefStrings v1.4.2 [2ff19380] WiSER v0.2.6 [efce3f68] WoodburyMatrices v1.1.0 [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 v300.1400.1901+0 [94ce4f54] Libiconv_jll v1.18.0+0 [d00139f3] METIS_jll v5.1.3+0 [d7ed1dd3] MUMPS_seq_jll v500.800.200+0 [079eb43e] NLopt_jll v2.10.0+0 [656ef2d0] OpenBLAS32_jll v0.3.30+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [319450e9] SPRAL_jll v2025.9.18+0 [76ed43ae] SQLite_jll v3.51.2+0 ⌅ [02c8fc9c] XML2_jll v2.13.9+0 [ffd25f8a] XZ_jll v5.8.2+0 [a65dc6b1] Xorg_libpciaccess_jll v0.18.1+0 [3161d3a3] Zstd_jll v1.5.7+1 [c4b69c83] dlfcn_win32_jll v1.4.2+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 v1.12.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.3.0 [44cfe95a] Pkg v1.12.1 [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 v1.12.0 [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 v8.15.0+0 [e37daf67] LibGit2_jll v1.9.0+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.11.4 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.4+0 [bea87d4a] SuiteSparse_jll v7.8.3+2 [83775a58] Zlib_jll v1.3.1+2 [8e850b90] libblastrampoline_jll v5.15.0+0 [8e850ede] nghttp2_jll v1.64.0+1 [3f19e933] p7zip_jll v17.7.0+0 Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. Testing Running tests... 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:306  [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:3024  [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:2870  [7] include_string  @ ./loading.jl:2880 [inlined]  [8] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:315  [9] _start()  @ Base ./client.jl:550 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/v1.12/SnpArrays/jl_XXSluc". 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:3311  [3] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})()  @ Base ./loading.jl:2679  [4] 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/v1.12/FileWatching/src/pidfile.jl:93  [5] #mkpidlock#7  @ /opt/julia/share/julia/stdlib/v1.12/FileWatching/src/pidfile.jl:88 [inlined]  [6] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64})  @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.12/FileWatching/src/pidfile.jl:114  [7] #invokelatest_gr#232  @ ./reflection.jl:1297 [inlined]  [8] invokelatest_gr  @ ./reflection.jl:1289 [inlined]  [9] 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:3882  [10] maybe_cachefile_lock  @ ./loading.jl:3879 [inlined]  [11] __require_prelocked(pkg::Base.PkgId, env::String)  @ Base ./loading.jl:2665  [12] _require_prelocked(uuidkey::Base.PkgId, env::String)  @ Base ./loading.jl:2493  [13] macro expansion  @ ./loading.jl:2421 [inlined]  [14] macro expansion  @ ./lock.jl:376 [inlined]  [15] __require(into::Module, mod::Symbol)  @ Base ./loading.jl:2386  [16] require(into::Module, mod::Symbol)  @ Base ./loading.jl:2362  [17] top-level scope  @ ~/.julia/packages/TrajGWAS/y0Cm6/src/TrajGWAS.jl:3  [18] include(mod::Module, _path::String)  @ Base ./Base.jl:306  [19] 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:3024  [20] top-level scope  @ stdin:5  [21] eval(m::Module, e::Any)  @ Core ./boot.jl:489  [22] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:2870  [23] include_string  @ ./loading.jl:2880 [inlined]  [24] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:315  [25] _start()  @ Base ./client.jl:550 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 80 seconds. 242 already precompiled. ERROR: LoadError: The following 2 direct dependencies failed to precompile: SnpArrays Failed to precompile SnpArrays [4e780e97-f5bf-4111-9dc4-b70aaf691b06] to "/home/pkgeval/.julia/compiled/v1.12/SnpArrays/jl_GkkDeR". 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:306 [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::Nothing) @ Base ./loading.jl:3024 [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:2870 [7] include_string @ ./loading.jl:2880 [inlined] [8] exec_options(opts::Base.JLOptions) @ Base ./client.jl:315 [9] _start() @ Base ./client.jl:550 in expression starting at /home/pkgeval/.julia/packages/SnpArrays/CSYLc/src/SnpArrays.jl:3 in expression starting at stdin:5 TrajGWAS Failed to precompile TrajGWAS [9514c204-b736-47c9-8157-11c3e9e5ab30] to "/home/pkgeval/.julia/compiled/v1.12/TrajGWAS/jl_z9iBe6". 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:306 [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:3024 [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:2870 [7] include_string @ ./loading.jl:2880 [inlined] [8] exec_options(opts::Base.JLOptions) @ Base ./client.jl:315 [9] _start() @ Base ./client.jl:550 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/v1.12/SnpArrays/jl_XXSluc". 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:3311 [3] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})() @ Base ./loading.jl:2679 [4] 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/v1.12/FileWatching/src/pidfile.jl:93 [5] #mkpidlock#7 @ /opt/julia/share/julia/stdlib/v1.12/FileWatching/src/pidfile.jl:88 [inlined] [6] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.12/FileWatching/src/pidfile.jl:114 [7] #invokelatest_gr#232 @ ./reflection.jl:1297 [inlined] [8] invokelatest_gr @ ./reflection.jl:1289 [inlined] [9] 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:3882 [10] maybe_cachefile_lock @ ./loading.jl:3879 [inlined] [11] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2665 [12] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2493 [13] macro expansion @ ./loading.jl:2421 [inlined] [14] macro expansion @ ./lock.jl:376 [inlined] [15] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2386 [16] require(into::Module, mod::Symbol) @ Base ./loading.jl:2362 [17] top-level scope @ ~/.julia/packages/TrajGWAS/y0Cm6/src/TrajGWAS.jl:3 [18] include(mod::Module, _path::String) @ Base ./Base.jl:306 [19] 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:3024 [20] top-level scope @ stdin:5 [21] eval(m::Module, e::Any) @ Core ./boot.jl:489 [22] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2870 [23] include_string @ ./loading.jl:2880 [inlined] [24] exec_options(opts::Base.JLOptions) @ Base ./client.jl:315 [25] _start() @ Base ./client.jl:550 in expression starting at /home/pkgeval/.julia/packages/TrajGWAS/y0Cm6/src/TrajGWAS.jl:1 in expression starting at stdin:5 in expression starting at /home/pkgeval/.julia/packages/TrajGWAS/y0Cm6/test/runtests.jl:1 Testing failed after 91.51s ERROR: LoadError: Package TrajGWAS errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.12/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/v1.12/Pkg/src/Operations.jl:2535 [3] test @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2384 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:538 [5] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:169 [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:157 [7] test @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:157 [inlined] [8] #test#81 @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:156 [inlined] [9] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:223 [10] include(mod::Module, _path::String) @ Base ./Base.jl:306 [11] exec_options(opts::Base.JLOptions) @ Base ./client.jl:317 [12] _start() @ Base ./client.jl:550 in expression starting at /PkgEval.jl/scripts/evaluate.jl:214 PkgEval failed after 1242.31s: package fails to precompile