Package evaluation to test OpenADMIXTURE on Julia 1.14.0-DEV.65 (b05afe0f25*) started at 2025-11-11T23:50:26.405 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 10.33s ################################################################################ # Installation # Installing OpenADMIXTURE... Resolving package versions... Installed Glob ───────────────────────────── v1.3.1 Installed CommonWorldInvalidations ───────── v1.0.0 Installed Formatting ─────────────────────── v0.4.3 Installed ManualMemory ───────────────────── v0.1.8 Installed CodecZstd ──────────────────────── v0.8.7 Installed FilePathsBase ──────────────────── v0.9.24 Installed SparseKmeansFeatureRanking ─────── v0.1.2 Installed DataStructures ─────────────────── v0.19.3 Installed Bzip2_jll ──────────────────────── v1.0.9+0 Installed DelimitedFiles ─────────────────── v1.9.1 Installed Adapt ──────────────────────────── v3.7.2 Installed InlineStrings ──────────────────── v1.4.5 Installed AliasTables ────────────────────── v1.1.3 Installed SLEEFPirates ───────────────────── v0.6.43 Installed VectorizationBase ──────────────── v0.21.72 Installed BitTwiddlingConvenienceFunctions ─ v0.1.6 Installed StatsBase ──────────────────────── v0.34.8 Installed SIMDTypes ──────────────────────── v0.1.0 Installed CodecZlib ──────────────────────── v0.7.8 Installed OrderedCollections ─────────────── v1.8.1 Installed TranscodingStreams ─────────────── v0.9.13 Installed ArrayInterface ─────────────────── v7.7.1 Installed Compat ─────────────────────────── v4.18.1 Installed DataAPI ────────────────────────── v1.16.0 Installed IteratorInterfaceExtensions ────── v1.0.0 Installed Suppressor ─────────────────────── v0.2.8 Installed SIMD ───────────────────────────── v3.7.2 Installed HostCPUFeatures ────────────────── v0.1.17 Installed StrideArraysCore ───────────────── v0.5.8 Installed LoopVectorization ──────────────── v0.12.173 Installed StatsAPI ───────────────────────── v1.7.1 Installed InvertedIndices ────────────────── v1.3.1 Installed DataValueInterfaces ────────────── v1.0.0 Installed CpuId ──────────────────────────── v0.3.1 Installed Statistics ─────────────────────── v1.11.1 Installed OffsetArrays ───────────────────── v1.17.0 Installed PrecompileTools ────────────────── v1.3.3 Installed ProgressMeter ──────────────────── v1.11.0 Installed LayoutPointers ─────────────────── v0.1.17 Installed SentinelArrays ─────────────────── v1.4.8 Installed IrrationalConstants ────────────── v0.2.6 Installed CodecBzip2 ─────────────────────── v0.8.5 Installed Distances ──────────────────────── v0.10.12 Installed StaticArrayInterface ───────────── v1.8.0 Installed CPUSummary ─────────────────────── v0.2.7 Installed SciMLPublic ────────────────────── v1.0.0 Installed Requires ───────────────────────── v1.3.1 Installed OpenSpecFun_jll ────────────────── v0.5.6+0 Installed NaNMath ────────────────────────── v1.1.3 Installed StringManipulation ─────────────── v0.4.1 Installed Tullio ─────────────────────────── v0.3.8 Installed IfElse ─────────────────────────── v0.1.1 Installed DiffRules ──────────────────────── v1.15.1 Installed BufferedStreams ────────────────── v1.2.2 Installed LogExpFunctions ────────────────── v0.3.29 Installed Parsers ────────────────────────── v2.8.3 Installed BioGenerics ────────────────────── v0.1.5 Installed CloseOpenIntervals ─────────────── v0.1.13 Installed Polyester ──────────────────────── v0.7.18 Installed PtrArrays ──────────────────────── v1.3.0 Installed Tables ─────────────────────────── v1.12.1 Installed PrettyTables ───────────────────── v3.1.0 Installed Reexport ───────────────────────── v1.2.2 Installed Missings ───────────────────────── v1.2.0 Installed SpecialFunctions ───────────────── v2.6.1 Installed DataFrames ─────────────────────── v1.8.1 Installed OpenADMIXTURE ──────────────────── v0.1.0 Installed Static ─────────────────────────── v1.3.1 Installed Preferences ────────────────────── v1.5.0 Installed WeakRefStrings ─────────────────── v1.4.2 Installed PooledArrays ───────────────────── v1.4.3 Installed JLLWrappers ────────────────────── v1.7.1 Installed LaTeXStrings ───────────────────── v1.4.0 Installed TableTraits ────────────────────── v1.0.1 Installed SortingAlgorithms ──────────────── v1.2.2 Installed XZ_jll ─────────────────────────── v5.8.1+0 Installed Crayons ────────────────────────── v4.1.1 Installed BGZFStreams ────────────────────── v0.3.2 Installed Automa ─────────────────────────── v1.1.0 Installed VariantCallFormat ──────────────── v0.5.9 Installed CodecXz ────────────────────────── v0.7.4 Installed CSV ────────────────────────────── v0.10.15 Installed UnPack ─────────────────────────── v1.0.2 Installed WorkerUtilities ────────────────── v1.6.1 Installed ThreadingUtilities ─────────────── v0.5.5 Installed PolyesterWeave ─────────────────── v0.2.2 Installed DocStringExtensions ────────────── v0.9.5 Installed SnpArrays ──────────────────────── v0.3.22 Installing 3 artifacts Installed artifact OpenSpecFun 194.9 KiB Installed artifact Bzip2 503.5 KiB Installed artifact XZ 1.5 MiB Updating `~/.julia/environments/v1.14/Project.toml` [425c031d] + OpenADMIXTURE v0.1.0 Updating `~/.julia/environments/v1.14/Manifest.toml` ⌅ [79e6a3ab] + Adapt v3.7.2 [66dad0bd] + AliasTables v1.1.3 ⌃ [4fba245c] + ArrayInterface v7.7.1 [67c07d97] + Automa v1.1.0 [28d598bf] + BGZFStreams v0.3.2 [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 [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 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.18.1 [adafc99b] + CpuId v0.3.1 [a8cc5b0e] + Crayons v4.1.1 [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 [b552c78f] + DiffRules v1.15.1 [b4f34e82] + Distances v0.10.12 [ffbed154] + DocStringExtensions v0.9.5 [48062228] + FilePathsBase v0.9.24 [59287772] + Formatting v0.4.3 [c27321d9] + Glob v1.3.1 [3e5b6fbb] + HostCPUFeatures v0.1.17 [615f187c] + IfElse v0.1.1 [842dd82b] + InlineStrings v1.4.5 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.6 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 [b964fa9f] + LaTeXStrings v1.4.0 [10f19ff3] + LayoutPointers v0.1.17 [2ab3a3ac] + LogExpFunctions v0.3.29 [bdcacae8] + LoopVectorization v0.12.173 [d125e4d3] + ManualMemory v0.1.8 [e1d29d7a] + Missings v1.2.0 [77ba4419] + NaNMath v1.1.3 [6fe1bfb0] + OffsetArrays v1.17.0 [425c031d] + OpenADMIXTURE v0.1.0 [bac558e1] + OrderedCollections v1.8.1 [69de0a69] + Parsers v2.8.3 [f517fe37] + Polyester v0.7.18 [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 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [fdea26ae] + SIMD v3.7.2 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.43 [431bcebd] + SciMLPublic v1.0.0 [91c51154] + SentinelArrays v1.4.8 [4e780e97] + SnpArrays v0.3.22 [a2af1166] + SortingAlgorithms v1.2.2 [a6138be3] + SparseKmeansFeatureRanking v0.1.2 [276daf66] + SpecialFunctions v2.6.1 [aedffcd0] + Static v1.3.1 [0d7ed370] + StaticArrayInterface v1.8.0 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.8 [7792a7ef] + StrideArraysCore v0.5.8 [892a3eda] + StringManipulation v0.4.1 [fd094767] + Suppressor v0.2.8 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [8290d209] + ThreadingUtilities v0.5.5 ⌅ [3bb67fe8] + TranscodingStreams v0.9.13 [bc48ee85] + Tullio v0.3.8 [3a884ed6] + UnPack v1.0.2 [28eba6e3] + VariantCallFormat v0.5.9 [3d5dd08c] + VectorizationBase v0.21.72 [ea10d353] + WeakRefStrings v1.4.2 [76eceee3] + WorkerUtilities v1.6.1 [6e34b625] + Bzip2_jll v1.0.9+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [ffd25f8a] + XZ_jll v5.8.1+0 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [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 [de0858da] + Printf 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 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+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 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 11.27s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv. 4604.6 ms ✓ TestEnv 1 dependency successfully precompiled in 5 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... 870.1 ms ✓ Glob 2146.7 ms ✓ Crayons 1687.0 ms ✓ InlineStrings 913.0 ms ✓ ManualMemory 773.2 ms ✓ Reexport 1082.0 ms ✓ Statistics 846.5 ms ✓ DataAPI 867.2 ms ✓ SciMLPublic 2141.4 ms ✓ IrrationalConstants 785.0 ms ✓ UnPack 776.7 ms ✓ CommonWorldInvalidations 765.3 ms ✓ DataValueInterfaces 831.5 ms ✓ StatsAPI 1133.6 ms ✓ Requires 1244.5 ms ✓ OrderedCollections 918.0 ms ✓ InvertedIndices 1132.9 ms ✓ DocStringExtensions 1016.5 ms ✓ WorkerUtilities 805.0 ms ✓ Suppressor 1641.1 ms ✓ OffsetArrays 1759.9 ms ✓ BufferedStreams 1282.1 ms ✓ IfElse 975.2 ms ✓ PtrArrays 989.1 ms ✓ SIMDTypes 1086.0 ms ✓ IteratorInterfaceExtensions 840.3 ms ✓ LaTeXStrings 1225.9 ms ✓ SuiteSparse ┌ Warning: DEPRECATION NOTICE │ │ Formatting.jl has been unmaintained for a while, with some serious │ correctness bugs compromising the original purpose of the package. As a result, │ it has been deprecated - consider using an alternative, such as │ `Format.jl` (https://github.com/JuliaString/Format.jl) or the `Printf` stdlib directly. │ │ If you are not using Formatting.jl as a direct dependency, please consider │ opening an issue on any packages you are using that do use it as a dependency. │ From Julia 1.9 onwards, you can query `]why Formatting` to figure out which │ package originally brings it in as a dependency. └ @ Formatting ~/.julia/packages/Formatting/3VxOt/src/Formatting.jl:12 1203.6 ms ✓ Formatting 1012.6 ms ✓ NaNMath 978.5 ms ✓ DelimitedFiles 1786.4 ms ✓ ProgressMeter 3249.8 ms ✓ SentinelArrays 1777.1 ms ✓ CpuId 1152.5 ms ✓ Compat 1131.6 ms ✓ Preferences 2274.6 ms ✓ TranscodingStreams 1844.4 ms ✓ ThreadingUtilities 1289.5 ms ✓ Statistics → SparseArraysExt 972.1 ms ✓ Missings 1023.7 ms ✓ PooledArrays 1461.6 ms ✓ Distances 937.6 ms ✓ Adapt 3728.9 ms ✓ DataStructures 1653.0 ms ✓ LogExpFunctions 969.8 ms ✓ AliasTables 766.8 ms ✓ TableTraits 847.8 ms ✓ Compat → CompatLinearAlgebraExt 1204.3 ms ✓ JLLWrappers 901.2 ms ✓ PrecompileTools 1545.8 ms ✓ BioGenerics 2713.0 ms ✓ CodecZstd 1606.6 ms ✓ CodecZlib 1262.8 ms ✓ Distances → DistancesSparseArraysExt 1638.2 ms ✓ ArrayInterface 816.9 ms ✓ OffsetArrays → OffsetArraysAdaptExt 1046.9 ms ✓ SortingAlgorithms 1758.3 ms ✓ Tables 2175.0 ms ✓ FilePathsBase 1443.7 ms ✓ Bzip2_jll 1494.1 ms ✓ XZ_jll 1419.9 ms ✓ OpenSpecFun_jll 3180.7 ms ✓ StringManipulation 18349.3 ms ✓ SIMD 17435.7 ms ✓ Parsers 6079.4 ms ✓ Static 1681.1 ms ✓ BGZFStreams 4445.5 ms ✓ StatsBase 2646.5 ms ✓ FilePathsBase → FilePathsBaseTestExt 942.9 ms ✓ FilePathsBase → FilePathsBaseMmapExt 1653.7 ms ✓ CodecBzip2 1581.6 ms ✓ CodecXz 5185.5 ms ✓ SpecialFunctions 40970.6 ms ✓ PrettyTables 23728.4 ms ✓ Automa 930.6 ms ✓ InlineStrings → ParsersExt 961.8 ms ✓ BitTwiddlingConvenienceFunctions 2606.3 ms ✓ CPUSummary 17484.9 ms ✓ StaticArrayInterface 1294.3 ms ✓ DiffRules 96348.0 ms ✓ DataFrames [ Info: Compiling VCF parser... 20374.5 ms ✓ VariantCallFormat 2585.3 ms ✓ WeakRefStrings 1612.7 ms ✓ HostCPUFeatures 1796.2 ms ✓ PolyesterWeave 1652.8 ms ✓ StaticArrayInterface → StaticArrayInterfaceOffsetArraysExt 1684.4 ms ✓ CloseOpenIntervals 1867.5 ms ✓ LayoutPointers ERROR: LoadError: UndefVarError: `_shrink` not defined in `Base` Suggestion: check for spelling errors or missing imports. Stacktrace:  [1] getproperty  @ ./Base_compiler.jl:50 [inlined]  [2] _precompile_()  @ Tullio._Precompile_Base ~/.julia/packages/Tullio/2zyFP/src/precompile/precompile_Base.jl:77  [3] top-level scope  @ ~/.julia/packages/Tullio/2zyFP/src/precompile.jl:14  [4] include(mapexpr::Function, mod::Module, _path::String)  @ Base ./Base.jl:310  [5] top-level scope  @ ~/.julia/packages/Tullio/2zyFP/src/Tullio.jl:27  [6] include(mod::Module, _path::String)  @ Base ./Base.jl:309  [7] 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  [8] top-level scope  @ stdin:5  [9] eval(m::Module, e::Any)  @ Core ./boot.jl:489  [10] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:2997  [11] include_string  @ ./loading.jl:3007 [inlined]  [12] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:342  [13] _start()  @ Base ./client.jl:577 in expression starting at /home/pkgeval/.julia/packages/Tullio/2zyFP/src/precompile.jl:13 in expression starting at /home/pkgeval/.julia/packages/Tullio/2zyFP/src/Tullio.jl:1 in expression starting at stdin:5 2 dependencies had output during precompilation: ┌ VariantCallFormat │ [ Info: Compiling VCF parser... └ ┌ Formatting │ ┌ Warning: DEPRECATION NOTICE │ │ │ │ Formatting.jl has been unmaintained for a while, with some serious │ │ correctness bugs compromising the original purpose of the package. As a result, │ │ it has been deprecated - consider using an alternative, such as │ │ `Format.jl` (https://github.com/JuliaString/Format.jl) or the `Printf` stdlib directly. │ │ │ │ If you are not using Formatting.jl as a direct dependency, please consider │ │ opening an issue on any packages you are using that do use it as a dependency. │ │ From Julia 1.9 onwards, you can query `]why Formatting` to figure out which │ │ package originally brings it in as a dependency. │ └ @ Formatting ~/.julia/packages/Formatting/3VxOt/src/Formatting.jl:12 └ Precompilation completed after 389.25s ################################################################################ # Testing # Testing OpenADMIXTURE Status `/tmp/jl_ItAf0c/Project.toml` ⌅ [79e6a3ab] Adapt v3.7.2 [59287772] Formatting v0.4.3 [bdcacae8] LoopVectorization v0.12.173 [425c031d] OpenADMIXTURE v0.1.0 [f517fe37] Polyester v0.7.18 [92933f4c] ProgressMeter v1.11.0 [ae029012] Requires v1.3.1 [4e780e97] SnpArrays v0.3.22 [a6138be3] SparseKmeansFeatureRanking v0.1.2 [fd094767] Suppressor v0.2.8 [37e2e46d] LinearAlgebra v1.13.0 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_ItAf0c/Manifest.toml` ⌅ [79e6a3ab] Adapt v3.7.2 [66dad0bd] AliasTables v1.1.3 ⌃ [4fba245c] ArrayInterface v7.7.1 [67c07d97] Automa v1.1.0 [28d598bf] BGZFStreams v0.3.2 [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 [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 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.18.1 [adafc99b] CpuId v0.3.1 [a8cc5b0e] Crayons v4.1.1 [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 [b552c78f] DiffRules v1.15.1 [b4f34e82] Distances v0.10.12 [ffbed154] DocStringExtensions v0.9.5 [48062228] FilePathsBase v0.9.24 [59287772] Formatting v0.4.3 [c27321d9] Glob v1.3.1 [3e5b6fbb] HostCPUFeatures v0.1.17 [615f187c] IfElse v0.1.1 [842dd82b] InlineStrings v1.4.5 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.6 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.1 [b964fa9f] LaTeXStrings v1.4.0 [10f19ff3] LayoutPointers v0.1.17 [2ab3a3ac] LogExpFunctions v0.3.29 [bdcacae8] LoopVectorization v0.12.173 [d125e4d3] ManualMemory v0.1.8 [e1d29d7a] Missings v1.2.0 [77ba4419] NaNMath v1.1.3 [6fe1bfb0] OffsetArrays v1.17.0 [425c031d] OpenADMIXTURE v0.1.0 [bac558e1] OrderedCollections v1.8.1 [69de0a69] Parsers v2.8.3 [f517fe37] Polyester v0.7.18 [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 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [fdea26ae] SIMD v3.7.2 [94e857df] SIMDTypes v0.1.0 [476501e8] SLEEFPirates v0.6.43 [431bcebd] SciMLPublic v1.0.0 [91c51154] SentinelArrays v1.4.8 [4e780e97] SnpArrays v0.3.22 [a2af1166] SortingAlgorithms v1.2.2 [a6138be3] SparseKmeansFeatureRanking v0.1.2 [276daf66] SpecialFunctions v2.6.1 [aedffcd0] Static v1.3.1 [0d7ed370] StaticArrayInterface v1.8.0 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.1 [2913bbd2] StatsBase v0.34.8 [7792a7ef] StrideArraysCore v0.5.8 [892a3eda] StringManipulation v0.4.1 [fd094767] Suppressor v0.2.8 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [8290d209] ThreadingUtilities v0.5.5 ⌅ [3bb67fe8] TranscodingStreams v0.9.13 [bc48ee85] Tullio v0.3.8 [3a884ed6] UnPack v1.0.2 [28eba6e3] VariantCallFormat v0.5.9 [3d5dd08c] VectorizationBase v0.21.72 [ea10d353] WeakRefStrings v1.4.2 [76eceee3] WorkerUtilities v1.6.1 [6e34b625] Bzip2_jll v1.0.9+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [ffd25f8a] XZ_jll v5.8.1+0 [56f22d72] Artifacts v1.11.0 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versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. Testing Running tests... ERROR: LoadError: UndefVarError: `_shrink` not defined in `Base` Suggestion: check for spelling errors or missing imports. Stacktrace:  [1] getproperty  @ ./Base_compiler.jl:50 [inlined]  [2] _precompile_()  @ Tullio._Precompile_Base ~/.julia/packages/Tullio/2zyFP/src/precompile/precompile_Base.jl:77  [3] top-level scope  @ ~/.julia/packages/Tullio/2zyFP/src/precompile.jl:14  [4] include(mapexpr::Function, mod::Module, _path::String)  @ Base ./Base.jl:310  [5] top-level scope  @ ~/.julia/packages/Tullio/2zyFP/src/Tullio.jl:27  [6] include(mod::Module, _path::String)  @ Base ./Base.jl:309  [7] 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  [8] top-level scope  @ stdin:5  [9] eval(m::Module, e::Any)  @ Core ./boot.jl:489  [10] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:2997  [11] include_string  @ ./loading.jl:3007 [inlined]  [12] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:342  [13] _start()  @ Base ./client.jl:577 in expression starting at /home/pkgeval/.julia/packages/Tullio/2zyFP/src/precompile.jl:13 in expression starting at /home/pkgeval/.julia/packages/Tullio/2zyFP/src/Tullio.jl:1 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_ykfLYK" (ProcessExited(1)). in expression starting at /home/pkgeval/.julia/packages/OpenADMIXTURE/SRfRR/src/OpenADMIXTURE.jl:1 in expression starting at /home/pkgeval/.julia/packages/OpenADMIXTURE/SRfRR/test/runtests.jl:1 Testing failed after 180.48s ERROR: LoadError: Package OpenADMIXTURE 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 616.41s: package fails to precompile