Package evaluation to test OrdinalGWAS on Julia 1.14.0-DEV.65 (b05afe0f25*) started at 2025-11-12T02:52:08.863 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 12.03s ################################################################################ # Installation # Installing OrdinalGWAS... Resolving package versions... Installed Bzip2_jll ──────────────────────── v1.0.9+0 Installed CommonWorldInvalidations ───────── v1.0.0 Installed InlineStrings ──────────────────── v1.4.5 Installed Glob ───────────────────────────── v1.3.1 Installed MUMPS_seq_jll ──────────────────── v500.800.100+0 Installed SIMDTypes ──────────────────────── v0.1.0 Installed OrderedCollections ─────────────── v1.8.1 Installed HypothesisTests ────────────────── v0.11.6 Installed Xorg_libpciaccess_jll ──────────── v0.18.1+0 Installed CpuId ──────────────────────────── v0.3.1 Installed SentinelArrays ─────────────────── v1.4.8 Installed StaticArrayInterface ───────────── v1.8.0 Installed QuadGK ─────────────────────────── v2.11.2 Installed Ipopt_jll ──────────────────────── v300.1400.1900+0 Installed NaNMath ────────────────────────── v1.1.3 Installed OpenSpecFun_jll ────────────────── v0.5.6+0 Installed FileIO ─────────────────────────── v1.17.1 Installed Tables ─────────────────────────── v1.12.1 Installed InverseFunctions ───────────────── v0.1.17 Installed Reexport ───────────────────────── v1.2.2 Installed Missings ───────────────────────── v1.2.0 Installed DBInterface ────────────────────── v2.6.1 Installed Preferences ────────────────────── v1.5.0 Installed TableTraits ────────────────────── v1.0.1 Installed Static ─────────────────────────── v1.3.1 Installed TZJData ────────────────────────── v1.5.0+2025b Installed Crayons ────────────────────────── v4.1.1 Installed LaTeXStrings ───────────────────── v1.4.0 Installed UnPack ─────────────────────────── v1.0.2 Installed SortingAlgorithms ──────────────── v1.2.2 Installed DiffResults ────────────────────── v1.1.0 Installed MacroTools ─────────────────────── v0.5.16 Installed CodecZstd ──────────────────────── v0.8.7 Installed DataStructures ─────────────────── v0.19.3 Installed ManualMemory ───────────────────── v0.1.8 Installed FillArrays ─────────────────────── v1.15.0 Installed VCFTools ───────────────────────── v0.2.10 Installed StatsBase ──────────────────────── v0.34.8 Installed CodecZlib ──────────────────────── v0.7.8 Installed ExprTools ──────────────────────── v0.1.10 Installed VectorizationBase ──────────────── v0.21.72 Installed DelimitedFiles ─────────────────── v1.9.1 Installed ArrayInterface ─────────────────── v7.22.0 Installed HostCPUFeatures ────────────────── v0.1.17 Installed TimeZones ──────────────────────── v1.22.1 Installed DataValueInterfaces ────────────── v1.0.0 Installed LayoutPointers ─────────────────── v0.1.17 Installed CommonSubexpressions ───────────── v0.3.1 Installed StructUtils ────────────────────── v2.6.0 Installed IrrationalConstants ────────────── v0.2.6 Installed Hwloc_jll ──────────────────────── v2.12.2+0 Installed BufferedStreams ────────────────── v1.2.2 Installed Scratch ────────────────────────── v1.3.0 Installed Roots ──────────────────────────── v2.2.10 Installed PooledArrays ───────────────────── v1.4.3 Installed PDMats ─────────────────────────── v0.11.36 Installed CodecXz ────────────────────────── v0.7.4 Installed WorkerUtilities ────────────────── v1.6.1 Installed BenchmarkTools ─────────────────── v1.6.3 Installed SPRAL_jll ──────────────────────── v2025.5.20+0 Installed DocStringExtensions ────────────── v0.9.5 Installed SQLite ─────────────────────────── v1.6.1 Installed CompositionsBase ───────────────── v0.1.2 Installed Rmath_jll ──────────────────────── v0.5.1+0 Installed CommonSolve ────────────────────── v0.2.4 Installed ForwardDiff ────────────────────── v1.2.2 Installed StatsModels ────────────────────── v0.7.7 Installed SLEEFPirates ───────────────────── v0.6.43 Installed AliasTables ────────────────────── v1.1.3 Installed BitTwiddlingConvenienceFunctions ─ v0.1.6 Installed ShiftedArrays ──────────────────── v2.0.0 Installed OrdinalGWAS ────────────────────── v0.7.2 Installed Combinatorics ──────────────────── v1.0.3 Installed IteratorInterfaceExtensions ────── v1.0.0 Installed SIMD ───────────────────────────── v3.7.2 Installed DataAPI ────────────────────────── v1.16.0 Installed InvertedIndices ────────────────── v1.3.1 Installed MathOptInterface ───────────────── v1.46.0 Installed SciMLPublic ────────────────────── v1.0.0 Installed StaticArraysCore ───────────────── v1.4.4 Installed Requires ───────────────────────── v1.3.1 Installed StringManipulation ─────────────── v0.4.1 Installed LogExpFunctions ────────────────── v0.3.29 Installed DiffRules ──────────────────────── v1.15.1 Installed OpenBLAS32_jll ─────────────────── v0.3.29+0 Installed JSON ───────────────────────────── v1.2.1 Installed Rmath ──────────────────────────── v0.9.0 Installed Parsers ────────────────────────── v2.8.3 Installed PrettyTables ───────────────────── v3.1.0 Installed BioGenerics ────────────────────── v0.1.5 Installed Distributions ──────────────────── v0.25.122 Installed CloseOpenIntervals ─────────────── v0.1.13 Installed StatsFuns ──────────────────────── v1.5.2 Installed RData ──────────────────────────── v0.8.3 Installed WeakRefStrings ─────────────────── v1.4.2 Installed XZ_jll ─────────────────────────── v5.8.1+0 Installed JLLWrappers ────────────────────── v1.7.1 Installed DataFrames ─────────────────────── v1.8.1 Installed StructTypes ────────────────────── v1.11.0 Installed MutableArithmetics ─────────────── v1.6.7 Installed NLopt ──────────────────────────── v0.6.5 Installed BGZFStreams ────────────────────── v0.3.2 Installed ThreadingUtilities ─────────────── v0.5.5 Installed VariantCallFormat ──────────────── v0.5.9 Installed Accessors ──────────────────────── v0.1.42 Installed CategoricalArrays ──────────────── v0.10.7 Installed FilePathsBase ──────────────────── v0.9.24 Installed Adapt ──────────────────────────── v4.4.0 Installed OrdinalMultinomialModels ───────── v0.4.5 Installed GLM ────────────────────────────── v1.9.0 Installed ConstructionBase ───────────────── v1.6.0 Installed HypergeometricFunctions ────────── v0.3.28 Installed TranscodingStreams ─────────────── v0.9.13 Installed Compat ─────────────────────────── v4.18.1 Installed Statistics ─────────────────────── v1.11.1 Installed StatsAPI ───────────────────────── v1.7.1 Installed OffsetArrays ───────────────────── v1.17.0 Installed PrecompileTools ────────────────── v1.3.3 Installed LoopVectorization ──────────────── v0.12.173 Installed ProgressMeter ──────────────────── v1.11.0 Installed ASL_jll ────────────────────────── v0.1.3+0 Installed RDatasets ──────────────────────── v0.7.7 Installed CodecBzip2 ─────────────────────── v0.8.5 Installed CPUSummary ─────────────────────── v0.2.7 Installed IfElse ─────────────────────────── v0.1.1 Installed PtrArrays ──────────────────────── v1.3.0 Installed JSON3 ──────────────────────────── v1.14.3 Installed XML2_jll ───────────────────────── v2.13.9+0 Installed SpecialFunctions ───────────────── v2.6.1 Installed Libiconv_jll ───────────────────── v1.18.0+0 Installed Ipopt ──────────────────────────── v1.13.0 Installed SQLite_jll ─────────────────────── v3.48.0+0 Installed Automa ─────────────────────────── v1.1.0 Installed METIS_jll ──────────────────────── v5.1.3+0 Installed MathProgBase ───────────────────── v0.7.8 Installed PolyesterWeave ─────────────────── v0.2.2 Installed Mocking ────────────────────────── v0.8.1 Installed NLopt_jll ──────────────────────── v2.10.0+0 Installed SnpArrays ──────────────────────── v0.3.22 Installed CSV ────────────────────────────── v0.10.15 Installed BGEN ───────────────────────────── v0.1.17 Installing 17 artifacts Installed artifact Rmath 121.9 KiB Installed artifact ASL 276.3 KiB Installed artifact Ipopt 1.3 MiB Installed artifact METIS 1.1 MiB Installed artifact Hwloc 3.5 MiB Installed artifact XZ 1.5 MiB Installed artifact Libiconv 1.9 MiB Installed artifact Xorg_libpciaccess 24.8 KiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact NLopt 322.7 KiB Installed artifact Bzip2 503.5 KiB Installed artifact XML2 2.5 MiB Installed artifact tzjdata 112.5 KiB Installed artifact SPRAL 691.8 KiB Installed artifact SQLite 5.0 MiB Installed artifact OpenBLAS32 10.0 MiB Installed artifact MUMPS_seq 8.6 MiB Updating `~/.julia/environments/v1.14/Project.toml` [00428148] + OrdinalGWAS v0.7.2 Updating `~/.julia/environments/v1.14/Manifest.toml` [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.4.0 [66dad0bd] + AliasTables v1.1.3 [4fba245c] + ArrayInterface v7.22.0 [67c07d97] + Automa v1.1.0 ⌅ [6db4b851] + BGEN v0.1.17 [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 [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 v1.0.3 [38540f10] + CommonSolve v0.2.4 [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 [31c24e10] + Distributions v0.25.122 [ffbed154] + DocStringExtensions v0.9.5 [e2ba6199] + ExprTools v0.1.10 [5789e2e9] + FileIO v1.17.1 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.15.0 [f6369f11] + ForwardDiff v1.2.2 [38e38edf] + GLM v1.9.0 [c27321d9] + Glob v1.3.1 [3e5b6fbb] + HostCPUFeatures v0.1.17 [34004b35] + HypergeometricFunctions v0.3.28 [09f84164] + HypothesisTests v0.11.6 [615f187c] + IfElse v0.1.1 [842dd82b] + InlineStrings v1.4.5 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 [b6b21f68] + Ipopt v1.13.0 [92d709cd] + IrrationalConstants v0.2.6 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 [682c06a0] + JSON v1.2.1 [0f8b85d8] + JSON3 v1.14.3 [b964fa9f] + LaTeXStrings v1.4.0 [10f19ff3] + LayoutPointers v0.1.17 [2ab3a3ac] + LogExpFunctions v0.3.29 [bdcacae8] + LoopVectorization v0.12.173 [1914dd2f] + MacroTools v0.5.16 [d125e4d3] + ManualMemory v0.1.8 [b8f27783] + MathOptInterface v1.46.0 [fdba3010] + MathProgBase v0.7.8 [e1d29d7a] + Missings v1.2.0 [78c3b35d] + Mocking v0.8.1 [d8a4904e] + MutableArithmetics v1.6.7 ⌅ [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 v0.11.36 [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 v3.1.0 [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 v0.9.0 [f2b01f46] + Roots v2.2.10 [fdea26ae] + SIMD v3.7.2 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.43 [0aa819cd] + SQLite v1.6.1 [431bcebd] + SciMLPublic v1.0.0 [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 v2.6.1 [aedffcd0] + Static v1.3.1 [0d7ed370] + StaticArrayInterface v1.8.0 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.8 [4c63d2b9] + StatsFuns v1.5.2 [3eaba693] + StatsModels v0.7.7 [892a3eda] + StringManipulation v0.4.1 [856f2bd8] + StructTypes v1.11.0 [ec057cc2] + StructUtils v2.6.0 [dc5dba14] + TZJData v1.5.0+2025b [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [8290d209] + ThreadingUtilities v0.5.5 [f269a46b] + TimeZones v1.22.1 ⌅ [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 [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 v2.13.9+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 v1.0.0 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.13.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.13.0 [de0858da] + Printf v1.11.0 [9abbd945] + Profile v1.11.0 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v1.0.0 [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 v2025.11.4 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.4+0 [efcefdf7] + PCRE2_jll v10.47.0+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 v5.15.0+0 [8e850ede] + nghttp2_jll v1.68.0+1 [3f19e933] + p7zip_jll v17.7.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 20.1s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv. 5160.0 ms ✓ TestEnv 1 dependency successfully precompiled in 6 seconds. 27 already precompiled. 1 dependency had output during precompilation: ┌ TestEnv │ WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv. └ ┌ Error: Failed to use TestEnv.jl; test dependencies will not be precompiled │ exception = │ UndefVarError: `project_rel_path` not defined in `TestEnv` │ Suggestion: this global was defined as `Pkg.Operations.project_rel_path` but not assigned a value. │ Stacktrace: │ [1] get_test_dir(ctx::Pkg.Types.Context, pkgspec::PackageSpec) │ @ TestEnv ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/common.jl:75 │ [2] test_dir_has_project_file │ @ ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/common.jl:52 [inlined] │ [3] maybe_gen_project_override! │ @ ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/common.jl:83 [inlined] │ [4] activate(pkg::String; allow_reresolve::Bool) │ @ TestEnv ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/activate_set.jl:12 │ [5] activate(pkg::String) │ @ TestEnv ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/activate_set.jl:9 │ [6] top-level scope │ @ /PkgEval.jl/scripts/precompile.jl:24 │ [7] include(mod::Module, _path::String) │ @ Base ./Base.jl:309 │ [8] exec_options(opts::Base.JLOptions) │ @ Base ./client.jl:344 │ [9] _start() │ @ Base ./client.jl:577 └ @ Main /PkgEval.jl/scripts/precompile.jl:26 Precompiling package dependencies... Precompiling packages... 4847.0 ms ✓ MacroTools 1819.7 ms ✓ InlineStrings 947.0 ms ✓ Reexport 1315.5 ms ✓ ConstructionBase 2530.7 ms ✓ IrrationalConstants 986.0 ms ✓ DataValueInterfaces 1006.6 ms ✓ StatsAPI 2316.6 ms ✓ Combinatorics 907.6 ms ✓ CommonSolve 920.4 ms ✓ LaTeXStrings 1019.8 ms ✓ Glob 1136.3 ms ✓ Statistics 1012.6 ms ✓ StaticArraysCore 839.3 ms ✓ IfElse 823.8 ms ✓ PtrArrays 943.6 ms ✓ ManualMemory 897.3 ms ✓ DataAPI 946.5 ms ✓ SciMLPublic 831.7 ms ✓ CommonWorldInvalidations 873.3 ms ✓ InvertedIndices 986.5 ms ✓ InverseFunctions 859.5 ms ✓ CompositionsBase 967.4 ms ✓ ShiftedArrays 1132.5 ms ✓ WorkerUtilities 975.2 ms ✓ TZJData 2660.0 ms ✓ FillArrays 865.4 ms ✓ ExprTools 789.7 ms ✓ UnPack 1043.5 ms ✓ DBInterface 1340.5 ms ✓ OrderedCollections 1337.7 ms ✓ DocStringExtensions 1727.0 ms ✓ OffsetArrays 1044.8 ms ✓ BufferedStreams 772.3 ms ✓ SIMDTypes 802.4 ms ✓ IteratorInterfaceExtensions 2241.9 ms ✓ Crayons 1070.2 ms ✓ DelimitedFiles 1061.0 ms ✓ NaNMath 1291.5 ms ✓ Requires 1287.4 ms ✓ SuiteSparse 1853.6 ms ✓ CpuId 2267.2 ms ✓ MathProgBase 948.2 ms ✓ Scratch 3449.2 ms ✓ SentinelArrays 2244.9 ms ✓ StructTypes 2205.5 ms ✓ StructUtils 2486.1 ms ✓ ProgressMeter 1190.1 ms ✓ Compat 1177.4 ms ✓ Preferences 2397.3 ms ✓ TranscodingStreams 11598.9 ms ✓ MutableArithmetics 1882.5 ms ✓ CommonSubexpressions 905.3 ms ✓ ConstructionBase → ConstructionBaseLinearAlgebraExt 1316.8 ms ✓ Statistics → SparseArraysExt 1009.2 ms ✓ DiffResults 1106.0 ms ✓ AliasTables 1974.5 ms ✓ ThreadingUtilities 1170.3 ms ✓ Missings 1054.5 ms ✓ PooledArrays 882.1 ms ✓ InverseFunctions → InverseFunctionsDatesExt 1743.8 ms ✓ InverseFunctions → InverseFunctionsTestExt 834.1 ms ✓ CompositionsBase → CompositionsBaseInverseFunctionsExt 1608.4 ms ✓ FillArrays → FillArraysSparseArraysExt 1013.0 ms ✓ FillArrays → FillArraysStatisticsExt 3708.8 ms ✓ DataStructures 1742.5 ms ✓ LogExpFunctions 781.5 ms ✓ TableTraits 967.1 ms ✓ Adapt 9686.6 ms ✓ FileIO 2007.9 ms ✓ PDMats 962.9 ms ✓ Compat → CompatLinearAlgebraExt 909.0 ms ✓ PrecompileTools 1196.7 ms ✓ JLLWrappers 1561.9 ms ✓ BioGenerics 2746.0 ms ✓ CodecZstd 1630.2 ms ✓ CodecZlib 7363.8 ms ✓ CategoricalArrays 5789.6 ms ✓ Accessors 1382.7 ms ✓ SortingAlgorithms 2592.9 ms ✓ QuadGK 820.3 ms ✓ LogExpFunctions → LogExpFunctionsInverseFunctionsExt 1745.3 ms ✓ Tables 1166.2 ms ✓ ArrayInterface 1237.0 ms ✓ Adapt → AdaptSparseArraysExt 883.0 ms ✓ OffsetArrays → OffsetArraysAdaptExt 1758.9 ms ✓ FillArrays → FillArraysPDMatsExt 1971.0 ms ✓ FilePathsBase 1554.7 ms ✓ Mocking 3492.9 ms ✓ StringManipulation 19104.7 ms ✓ SIMD 18885.5 ms ✓ Parsers 6236.3 ms ✓ Static 1454.8 ms ✓ OpenBLAS32_jll 1369.6 ms ✓ Bzip2_jll 1624.7 ms ✓ XZ_jll 1478.3 ms ✓ NLopt_jll 1388.3 ms ✓ Rmath_jll 1725.2 ms ✓ OpenSpecFun_jll 1703.6 ms ✓ ASL_jll 1588.1 ms ✓ SQLite_jll 1484.3 ms ✓ METIS_jll 1657.7 ms ✓ Xorg_libpciaccess_jll 1711.6 ms ✓ Libiconv_jll 1681.3 ms ✓ BGZFStreams 1805.0 ms ✓ Accessors → TestExt 2741.7 ms ✓ Accessors → LinearAlgebraExt 4867.9 ms ✓ StatsBase 891.5 ms ✓ StructUtils → StructUtilsTablesExt 1003.3 ms ✓ ArrayInterface → ArrayInterfaceStaticArraysCoreExt 1348.4 ms ✓ ArrayInterface → ArrayInterfaceSparseArraysExt 3291.2 ms ✓ FilePathsBase → FilePathsBaseTestExt 1011.9 ms ✓ FilePathsBase → FilePathsBaseMmapExt 5861.3 ms ✓ TimeZones 42006.7 ms ✓ PrettyTables 25055.7 ms ✓ Automa 15632.9 ms ✓ JSON3 7982.4 ms ✓ JSON 972.8 ms ✓ InlineStrings → ParsersExt 960.0 ms ✓ BitTwiddlingConvenienceFunctions 2596.7 ms ✓ CPUSummary 17201.1 ms ✓ StaticArrayInterface 1797.5 ms ✓ CodecBzip2 1808.2 ms ✓ CodecXz 1528.4 ms ✓ Rmath 5452.9 ms ✓ SpecialFunctions 1491.0 ms ✓ MUMPS_seq_jll 1512.8 ms ✓ XML2_jll 7457.0 ms ✓ Roots 1428.4 ms ✓ PDMats → StatsBaseExt 102285.1 ms ✓ DataFrames [ Info: Compiling VCF parser... 21711.1 ms ✓ VariantCallFormat 3660.1 ms ✓ BenchmarkTools 2737.0 ms ✓ WeakRefStrings 1602.1 ms ✓ HostCPUFeatures 1777.4 ms ✓ PolyesterWeave 1115.1 ms ✓ StaticArrayInterface → StaticArrayInterfaceOffsetArraysExt 1136.5 ms ✓ CloseOpenIntervals 1363.3 ms ✓ LayoutPointers 2587.7 ms ✓ HypergeometricFunctions 1322.6 ms ✓ DiffRules 1500.4 ms ✓ Hwloc_jll 25767.5 ms ✓ RData 31218.6 ms ✓ CSV 4120.1 ms ✓ SQLite 16690.3 ms ✓ VectorizationBase 2675.1 ms ✓ StatsFuns 6715.9 ms ✓ ForwardDiff 1535.8 ms ✓ SPRAL_jll 22255.3 ms ✓ RDatasets 8993.0 ms ✓ BGEN 4523.3 ms ✓ SLEEFPirates 1542.0 ms ✓ StatsFuns → StatsFunsInverseFunctionsExt 5161.4 ms ✓ StatsModels 9445.1 ms ✓ Distributions 2027.2 ms ✓ Roots → RootsForwardDiffExt 82632.5 ms ✓ MathOptInterface 1695.1 ms ✓ Ipopt_jll 42544.6 ms ✓ LoopVectorization 5497.2 ms ✓ GLM 3695.1 ms ✓ Distributions → DistributionsTestExt 4365.7 ms ✓ HypothesisTests 8142.3 ms ✓ NLopt 1286.4 ms ✓ Ipopt 3488.4 ms ✓ LoopVectorization → SpecialFunctionsExt 8408.3 ms ✓ VCFTools 47978.4 ms ✓ Ipopt → IpoptMathOptInterfaceExt 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::Nothing)  @ Base ./loading.jl:3151  [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:2997  [7] include_string  @ ./loading.jl:3007 [inlined]  [8] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:342  [9] _start()  @ Base ./client.jl:577 in expression starting at /home/pkgeval/.julia/packages/SnpArrays/CSYLc/src/SnpArrays.jl:3 in expression starting at stdin:5 1 dependency had output during precompilation: ┌ VariantCallFormat │ [ Info: Compiling VCF parser... └ Precompilation completed after 917.44s ################################################################################ # Testing # Testing OrdinalGWAS Status `/tmp/jl_j1yjTT/Project.toml` ⌅ [6db4b851] BGEN v0.1.17 [336ed68f] CSV v0.10.15 [a93c6f00] DataFrames v1.8.1 [31c24e10] Distributions v0.25.122 [b8f27783] MathOptInterface v1.46.0 [00428148] OrdinalGWAS v0.7.2 [b51826c6] OrdinalMultinomialModels v0.4.5 [189a3867] Reexport v1.2.2 [4e780e97] SnpArrays v0.3.22 [3eaba693] StatsModels v0.7.7 [a620830f] VCFTools v0.2.10 [28eba6e3] VariantCallFormat v0.5.9 [37e2e46d] LinearAlgebra v1.13.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_j1yjTT/Manifest.toml` [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.4.0 [66dad0bd] AliasTables v1.1.3 [4fba245c] ArrayInterface v7.22.0 [67c07d97] Automa v1.1.0 ⌅ [6db4b851] BGEN v0.1.17 [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 [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 v1.0.3 [38540f10] CommonSolve v0.2.4 [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 [31c24e10] Distributions v0.25.122 [ffbed154] DocStringExtensions v0.9.5 [e2ba6199] ExprTools v0.1.10 [5789e2e9] FileIO v1.17.1 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.15.0 [f6369f11] ForwardDiff v1.2.2 [38e38edf] GLM v1.9.0 [c27321d9] Glob v1.3.1 [3e5b6fbb] HostCPUFeatures v0.1.17 [34004b35] HypergeometricFunctions v0.3.28 [09f84164] HypothesisTests v0.11.6 [615f187c] IfElse v0.1.1 [842dd82b] InlineStrings v1.4.5 [3587e190] InverseFunctions v0.1.17 [41ab1584] InvertedIndices v1.3.1 [b6b21f68] Ipopt v1.13.0 [92d709cd] IrrationalConstants v0.2.6 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.1 [682c06a0] JSON v1.2.1 [0f8b85d8] JSON3 v1.14.3 [b964fa9f] LaTeXStrings v1.4.0 [10f19ff3] LayoutPointers v0.1.17 [2ab3a3ac] LogExpFunctions v0.3.29 [bdcacae8] LoopVectorization v0.12.173 [1914dd2f] MacroTools v0.5.16 [d125e4d3] ManualMemory v0.1.8 [b8f27783] MathOptInterface v1.46.0 [fdba3010] MathProgBase v0.7.8 [e1d29d7a] Missings v1.2.0 [78c3b35d] Mocking v0.8.1 [d8a4904e] MutableArithmetics v1.6.7 ⌅ [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 v0.11.36 [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 v3.1.0 [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 v0.9.0 [f2b01f46] Roots v2.2.10 [fdea26ae] SIMD v3.7.2 [94e857df] SIMDTypes v0.1.0 [476501e8] SLEEFPirates v0.6.43 [0aa819cd] SQLite v1.6.1 [431bcebd] SciMLPublic v1.0.0 [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 v2.6.1 [aedffcd0] Static v1.3.1 [0d7ed370] StaticArrayInterface v1.8.0 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.1 [2913bbd2] StatsBase v0.34.8 [4c63d2b9] StatsFuns v1.5.2 [3eaba693] StatsModels v0.7.7 [892a3eda] StringManipulation v0.4.1 [856f2bd8] StructTypes v1.11.0 [ec057cc2] StructUtils v2.6.0 [dc5dba14] TZJData v1.5.0+2025b [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [8290d209] ThreadingUtilities v0.5.5 [f269a46b] TimeZones v1.22.1 ⌅ [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 [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 v2.13.9+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 v1.0.0 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.13.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.3.0 [44cfe95a] Pkg v1.13.0 [de0858da] Printf v1.11.0 [9abbd945] Profile v1.11.0 [3fa0cd96] REPL v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v1.0.0 [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 v2025.11.4 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.4+0 [efcefdf7] PCRE2_jll v10.47.0+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 v5.15.0+0 [8e850ede] nghttp2_jll v1.68.0+1 [3f19e933] p7zip_jll v17.7.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... 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::Nothing)  @ Base ./loading.jl:3151  [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:2997  [7] include_string  @ ./loading.jl:3007 [inlined]  [8] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:342  [9] _start()  @ Base ./client.jl:577 in expression starting at /home/pkgeval/.julia/packages/SnpArrays/CSYLc/src/SnpArrays.jl:3 in expression starting at stdin:5 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::Nothing)  @ Base ./loading.jl:3151  [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:2997  [7] include_string  @ ./loading.jl:3007 [inlined]  [8] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:342  [9] _start()  @ Base ./client.jl:577 in expression starting at /home/pkgeval/.julia/packages/SnpArrays/CSYLc/src/SnpArrays.jl:3 in expression starting at stdin:5 1 dependency had output during precompilation: ┌ SnpArrays │ [Output was shown above] └ ERROR: LoadError: The following 1 package failed to precompile: SnpArrays Failed to precompile SnpArrays [4e780e97-f5bf-4111-9dc4-b70aaf691b06] to "/home/pkgeval/.julia/compiled/v1.14/SnpArrays/jl_WOdd8x" (ProcessExited(1)). in expression starting at /home/pkgeval/.julia/packages/OrdinalGWAS/r0sGl/src/OrdinalGWAS.jl:3 in expression starting at /home/pkgeval/.julia/packages/OrdinalGWAS/r0sGl/test/runtests.jl:1 Testing failed after 104.31s ERROR: LoadError: Package OrdinalGWAS errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Types.jl:68 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2946 [3] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2795 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:572 [5] kwcall(::@NamedTuple{julia_args::Cmd, io::IOContext{IO}}, ::typeof(Pkg.API.test), ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:548 [6] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:172 [7] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:161 [8] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [9] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [inlined] [10] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:159 [11] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [12] include(mod::Module, _path::String) @ Base ./Base.jl:309 [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [14] _start() @ Base ./client.jl:577 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 1082.84s: package fails to precompile