Package evaluation of PERMANOVA on Julia 1.13.0-DEV.923 (d2bbd0af86*) started at 2025-07-30T16:41:22.343 ################################################################################ # Set-up # Set-up completed after 0.26s ################################################################################ # Installation # Installing PERMANOVA... Resolving package versions... Installed Formatting ─────────────────────── v0.4.3 Installed Rmath_jll ──────────────────────── v0.5.1+0 Installed CommonWorldInvalidations ───────── v1.0.0 Installed ManualMemory ───────────────────── v0.1.8 Installed FillArrays ─────────────────────── v1.13.0 Installed GLM ────────────────────────────── v1.8.3 Installed DataStructures ─────────────────── v0.18.22 Installed PERMANOVA ──────────────────────── v0.1.1 Installed InlineStrings ──────────────────── v1.4.4 Installed Adapt ──────────────────────────── v4.3.0 Installed DelimitedFiles ─────────────────── v1.9.1 Installed HypergeometricFunctions ────────── v0.3.28 Installed VectorizationBase ──────────────── v0.21.71 Installed AliasTables ────────────────────── v1.1.3 Installed StatsModels ────────────────────── v0.6.33 Installed SLEEFPirates ───────────────────── v0.6.43 Installed SIMDTypes ──────────────────────── v0.1.0 Installed BitTwiddlingConvenienceFunctions ─ v0.1.6 Installed ShiftedArrays ──────────────────── v2.0.0 Installed TexTables ──────────────────────── v0.2.7 Installed OrderedCollections ─────────────── v1.8.1 Installed ArrayInterface ─────────────────── v7.19.0 Installed StatsBase ──────────────────────── v0.33.21 Installed LoopVectorization ──────────────── v0.12.172 Installed IteratorInterfaceExtensions ────── v1.0.0 Installed Compat ─────────────────────────── v4.18.0 Installed Combinatorics ──────────────────── v1.0.3 Installed HostCPUFeatures ────────────────── v0.1.17 Installed DataAPI ────────────────────────── v1.16.0 Installed InvertedIndices ────────────────── v1.3.1 Installed Statistics ─────────────────────── v1.11.1 Installed PrecompileTools ────────────────── v1.3.2 Installed StatsAPI ───────────────────────── v1.7.1 Installed CpuId ──────────────────────────── v0.3.1 Installed DataValueInterfaces ────────────── v1.0.0 Installed IrrationalConstants ────────────── v0.2.4 Installed OffsetArrays ───────────────────── v1.17.0 Installed Distances ──────────────────────── v0.10.12 Installed LayoutPointers ─────────────────── v0.1.17 Installed SentinelArrays ─────────────────── v1.4.8 Installed CPUSummary ─────────────────────── v0.2.6 Installed Requires ───────────────────────── v1.3.1 Installed StaticArrayInterface ───────────── v1.8.0 Installed OpenSpecFun_jll ────────────────── v0.5.6+0 Installed QuadGK ─────────────────────────── v2.11.2 Installed StringManipulation ─────────────── v0.4.1 Installed LogExpFunctions ────────────────── v0.3.29 Installed Rmath ──────────────────────────── v0.8.0 Installed IfElse ─────────────────────────── v0.1.1 Installed Parameters ─────────────────────── v0.12.3 Installed PrettyTables ───────────────────── v2.4.0 Installed CloseOpenIntervals ─────────────── v0.1.13 Installed StatsFuns ──────────────────────── v1.5.0 Installed Tables ─────────────────────────── v1.12.1 Installed Distributions ──────────────────── v0.25.120 Installed PtrArrays ──────────────────────── v1.3.0 Installed Reexport ───────────────────────── v1.2.2 Installed Missings ───────────────────────── v1.2.0 Installed PooledArrays ───────────────────── v1.4.3 Installed Static ─────────────────────────── v1.2.0 Installed SpecialFunctions ───────────────── v2.5.1 Installed Preferences ────────────────────── v1.4.3 Installed DataFrames ─────────────────────── v1.7.0 Installed JLLWrappers ────────────────────── v1.7.1 Installed LaTeXStrings ───────────────────── v1.4.0 Installed TableTraits ────────────────────── v1.0.1 Installed NamedArrays ────────────────────── v0.9.6 Installed Crayons ────────────────────────── v4.1.1 Installed PDMats ─────────────────────────── v0.11.35 Installed ThreadingUtilities ─────────────── v0.5.5 Installed SortingAlgorithms ──────────────── v1.2.1 Installed PolyesterWeave ─────────────────── v0.2.2 Installed UnPack ─────────────────────────── v1.0.2 Installed DocStringExtensions ────────────── v0.9.5 Installing 2 artifacts Installed artifact Rmath 121.9 KiB Installed artifact OpenSpecFun 194.9 KiB Updating `~/.julia/environments/v1.13/Project.toml` [f33fedc7] + PERMANOVA v0.1.1 Updating `~/.julia/environments/v1.13/Manifest.toml` [79e6a3ab] + Adapt v4.3.0 [66dad0bd] + AliasTables v1.1.3 [4fba245c] + ArrayInterface v7.19.0 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [2a0fbf3d] + CPUSummary v0.2.6 [fb6a15b2] + CloseOpenIntervals v0.1.13 [861a8166] + Combinatorics v1.0.3 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.18.0 [adafc99b] + CpuId v0.3.1 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.7.0 [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.120 [ffbed154] + DocStringExtensions v0.9.5 [1a297f60] + FillArrays v1.13.0 [59287772] + Formatting v0.4.3 ⌃ [38e38edf] + GLM v1.8.3 [3e5b6fbb] + HostCPUFeatures v0.1.17 [34004b35] + HypergeometricFunctions v0.3.28 [615f187c] + IfElse v0.1.1 [842dd82b] + InlineStrings v1.4.4 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.4 [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 v0.12.172 [d125e4d3] + ManualMemory v0.1.8 [e1d29d7a] + Missings v1.2.0 ⌅ [86f7a689] + NamedArrays v0.9.6 [6fe1bfb0] + OffsetArrays v1.17.0 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.35 [f33fedc7] + PERMANOVA v0.1.1 [d96e819e] + Parameters v0.12.3 [1d0040c9] + PolyesterWeave v0.2.2 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.3.2 [21216c6a] + Preferences v1.4.3 [08abe8d2] + PrettyTables v2.4.0 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [79098fc4] + Rmath v0.8.0 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.43 [91c51154] + SentinelArrays v1.4.8 [1277b4bf] + ShiftedArrays v2.0.0 [a2af1166] + SortingAlgorithms v1.2.1 [276daf66] + SpecialFunctions v2.5.1 [aedffcd0] + Static v1.2.0 [0d7ed370] + StaticArrayInterface v1.8.0 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 ⌅ [2913bbd2] + StatsBase v0.33.21 [4c63d2b9] + StatsFuns v1.5.0 ⌅ [3eaba693] + StatsModels v0.6.33 [892a3eda] + StringManipulation v0.4.1 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 ⌅ [ebf5ac4f] + TexTables v0.2.7 [8290d209] + ThreadingUtilities v0.5.5 [3a884ed6] + UnPack v1.0.2 [3d5dd08c] + VectorizationBase v0.21.71 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates 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 v0.7.0 [9e88b42a] + Serialization v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.13.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [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 v0.8.5+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [8e850b90] + libblastrampoline_jll v5.13.1+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 12.34s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... No packages added to or removed from `~/.julia/environments/pkgeval/Project.toml` No packages added to or removed from `~/.julia/environments/pkgeval/Manifest.toml` Precompiling package dependencies... Precompiling packages... 960.4 ms ✓ ShiftedArrays 814.9 ms ✓ PtrArrays 1243.8 ms ✓ OrderedCollections 721.6 ms ✓ IteratorInterfaceExtensions 1805.2 ms ✓ Crayons 751.1 ms ✓ CommonWorldInvalidations 1633.4 ms ✓ OffsetArrays 764.1 ms ✓ IfElse 1085.3 ms ✓ Statistics 742.0 ms ✓ SIMDTypes 754.1 ms ✓ Reexport 1065.7 ms ✓ DocStringExtensions 920.7 ms ✓ ManualMemory 1867.9 ms ✓ FillArrays 754.8 ms ✓ DataValueInterfaces 827.2 ms ✓ DataAPI 2166.2 ms ✓ IrrationalConstants 1699.0 ms ✓ InlineStrings 835.1 ms ✓ LaTeXStrings 791.6 ms ✓ UnPack 1201.5 ms ✓ SuiteSparse 845.8 ms ✓ InvertedIndices 812.7 ms ✓ StatsAPI 2013.8 ms ✓ Combinatorics 953.9 ms ✓ DelimitedFiles 1133.7 ms ✓ Requires 1205.0 ms ✓ Formatting 1954.4 ms ✓ CpuId 3808.2 ms ✓ SentinelArrays 1129.2 ms ✓ Preferences 1136.3 ms ✓ Compat 972.0 ms ✓ AliasTables 743.3 ms ✓ TableTraits 1284.1 ms ✓ Statistics → SparseArraysExt 1826.6 ms ✓ ThreadingUtilities 1804.5 ms ✓ FillArrays → FillArraysSparseArraysExt 1044.0 ms ✓ FillArrays → FillArraysStatisticsExt 1215.8 ms ✓ PooledArrays 1079.6 ms ✓ Missings 1693.5 ms ✓ LogExpFunctions 970.2 ms ✓ Parameters 1817.3 ms ✓ PDMats 1485.2 ms ✓ Distances 913.4 ms ✓ Adapt 1119.9 ms ✓ JLLWrappers 914.5 ms ✓ PrecompileTools 881.9 ms ✓ Compat → CompatLinearAlgebraExt 1749.5 ms ✓ Tables 1359.3 ms ✓ FillArrays → FillArraysPDMatsExt 1220.5 ms ✓ Distances → DistancesSparseArraysExt 1116.8 ms ✓ ArrayInterface 1234.3 ms ✓ Adapt → AdaptSparseArraysExt 867.9 ms ✓ OffsetArrays → OffsetArraysAdaptExt 1352.4 ms ✓ OpenSpecFun_jll 1340.5 ms ✓ Rmath_jll 3304.3 ms ✓ StringManipulation 5161.8 ms ✓ Static 4192.2 ms ✓ DataStructures 1206.0 ms ✓ ArrayInterface → ArrayInterfaceSparseArraysExt 5311.3 ms ✓ SpecialFunctions 1696.3 ms ✓ Rmath 27073.0 ms ✓ PrettyTables 903.8 ms ✓ BitTwiddlingConvenienceFunctions 2700.2 ms ✓ CPUSummary 9333.7 ms ✓ StaticArrayInterface 2836.4 ms ✓ QuadGK 1753.3 ms ✓ SortingAlgorithms ✗ NamedArrays 2498.9 ms ✓ HypergeometricFunctions 1421.2 ms ✓ HostCPUFeatures 2131.1 ms ✓ PolyesterWeave 1027.9 ms ✓ StaticArrayInterface → StaticArrayInterfaceOffsetArraysExt 1122.2 ms ✓ CloseOpenIntervals 1255.8 ms ✓ LayoutPointers 7965.9 ms ✓ StatsBase 79028.3 ms ✓ DataFrames 3025.9 ms ✓ StatsFuns 17424.9 ms ✓ VectorizationBase 6788.8 ms ✓ StatsModels 13835.9 ms ✓ Distributions 5422.3 ms ✓ SLEEFPirates 8547.4 ms ✓ GLM 40966.4 ms ✓ LoopVectorization 12993.6 ms ✓ TexTables 5387.3 ms ✓ LoopVectorization → SpecialFunctionsExt ✗ PERMANOVA 84 dependencies successfully precompiled in 368 seconds. 18 already precompiled. 2 dependencies had output during precompilation: ┌ VectorizationBase │ WARNING: Constructor for type "Int16" was extended in `VectorizationBase` without explicit qualification or import. │ NOTE: Assumed "Int16" refers to `Base.Int16`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function Int16 end`. │ Hint: To silence the warning, qualify `Int16` as `Base.Int16` in the method signature or explicitly `import Base: Int16`. │ WARNING: Constructor for type "Int64" was extended in `VectorizationBase` without explicit qualification or import. │ NOTE: Assumed "Int64" refers to `Base.Int64`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function Int64 end`. │ Hint: To silence the warning, qualify `Int64` as `Base.Int64` in the method signature or explicitly `import Base: Int64`. │ WARNING: Constructor for type "Int32" was extended in `VectorizationBase` without explicit qualification or import. │ NOTE: Assumed "Int32" refers to `Base.Int32`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function Int32 end`. │ Hint: To silence the warning, qualify `Int32` as `Base.Int32` in the method signature or explicitly `import Base: Int32`. │ WARNING: Constructor for type "UInt8" was extended in `VectorizationBase` without explicit qualification or import. │ NOTE: Assumed "UInt8" refers to `Base.UInt8`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function UInt8 end`. │ Hint: To silence the warning, qualify `UInt8` as `Base.UInt8` in the method signature or explicitly `import Base: UInt8`. │ WARNING: Constructor for type "UInt16" was extended in `VectorizationBase` without explicit qualification or import. │ NOTE: Assumed "UInt16" refers to `Base.UInt16`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function UInt16 end`. │ Hint: To silence the warning, qualify `UInt16` as `Base.UInt16` in the method signature or explicitly `import Base: UInt16`. │ WARNING: Constructor for type "Float32" was extended in `VectorizationBase` without explicit qualification or import. │ NOTE: Assumed "Float32" refers to `Base.Float32`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function Float32 end`. │ Hint: To silence the warning, qualify `Float32` as `Base.Float32` in the method signature or explicitly `import Base: Float32`. │ WARNING: Constructor for type "UInt64" was extended in `VectorizationBase` without explicit qualification or import. │ NOTE: Assumed "UInt64" refers to `Base.UInt64`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function UInt64 end`. │ Hint: To silence the warning, qualify `UInt64` as `Base.UInt64` in the method signature or explicitly `import Base: UInt64`. │ WARNING: Constructor for type "Bool" was extended in `VectorizationBase` without explicit qualification or import. │ NOTE: Assumed "Bool" refers to `Base.Bool`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function Bool end`. │ Hint: To silence the warning, qualify `Bool` as `Base.Bool` in the method signature or explicitly `import Base: Bool`. │ WARNING: Constructor for type "Int8" was extended in `VectorizationBase` without explicit qualification or import. │ NOTE: Assumed "Int8" refers to `Base.Int8`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function Int8 end`. │ Hint: To silence the warning, qualify `Int8` as `Base.Int8` in the method signature or explicitly `import Base: Int8`. │ WARNING: Constructor for type "Float64" was extended in `VectorizationBase` without explicit qualification or import. │ NOTE: Assumed "Float64" refers to `Base.Float64`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function Float64 end`. │ Hint: To silence the warning, qualify `Float64` as `Base.Float64` in the method signature or explicitly `import Base: Float64`. │ WARNING: Constructor for type "UInt32" was extended in `VectorizationBase` without explicit qualification or import. │ NOTE: Assumed "UInt32" refers to `Base.UInt32`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function UInt32 end`. │ Hint: To silence the warning, qualify `UInt32` as `Base.UInt32` in the method signature or explicitly `import Base: UInt32`. │ WARNING: Constructor for type "Float16" was extended in `VectorizationBase` without explicit qualification or import. │ NOTE: Assumed "Float16" refers to `Base.Float16`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function Float16 end`. │ Hint: To silence the warning, qualify `Float16` as `Base.Float16` in the method signature or explicitly `import Base: Float16`. └ ┌ 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 └ ERROR: LoadError: The following 1 direct dependency failed to precompile: PERMANOVA Failed to precompile PERMANOVA [f33fedc7-88ab-426d-b3f4-502f30fbdde3] to "/home/pkgeval/.julia/compiled/v1.13/PERMANOVA/jl_fygNMo" (ProcessExited(1)). WARNING: Imported binding Base._sortslices was undeclared at import time during import to NamedArrays. WARNING: Imported binding Base._negdims was undeclared at import time during import to NamedArrays. WARNING: Imported binding Base.DimSelector was undeclared at import time during import to NamedArrays. ERROR: LoadError: invalid method definition in NamedArrays: exported function Base._sortslices does not exist Stacktrace: [1] top-level scope @ ~/.julia/packages/NamedArrays/TuJLn/src/rearrange.jl:102 [2] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [3] top-level scope @ ~/.julia/packages/NamedArrays/TuJLn/src/NamedArrays.jl:35 [4] include(mod::Module, _path::String) @ Base ./Base.jl:311 [5] 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:3002 [6] top-level scope @ stdin:5 [7] eval(m::Module, e::Any) @ Core ./boot.jl:489 [8] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2848 [9] include_string @ ./loading.jl:2858 [inlined] [10] exec_options(opts::Base.JLOptions) @ Base ./client.jl:318 [11] _start() @ Base ./client.jl:553 in expression starting at /home/pkgeval/.julia/packages/NamedArrays/TuJLn/src/rearrange.jl:102 in expression starting at /home/pkgeval/.julia/packages/NamedArrays/TuJLn/src/NamedArrays.jl:9 in expression starting at stdin:5 ERROR: LoadError: Failed to precompile NamedArrays [86f7a689-2022-50b4-a561-43c23ac3c673] to "/home/pkgeval/.julia/compiled/v1.13/NamedArrays/jl_Pd56A7" (ProcessExited(1)). Stacktrace: [1] error(s::String) @ Base ./error.jl:44 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing) @ Base ./loading.jl:3289 [3] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId})() @ Base ./loading.jl:2654 [4] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94 [5] #mkpidlock#7 @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined] [6] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115 [7] #invokelatest_gr#235 @ ./reflection.jl:1333 [inlined] [8] invokelatest_gr @ ./reflection.jl:1325 [inlined] [9] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId}, pkg::Base.PkgId, srcpath::String; stale_age::Int64) @ Base ./loading.jl:3860 [10] maybe_cachefile_lock @ ./loading.jl:3857 [inlined] [11] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2640 [12] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2468 [13] macro expansion @ ./loading.jl:2396 [inlined] [14] macro expansion @ ./lock.jl:376 [inlined] [15] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2360 [16] require @ ./loading.jl:2336 [inlined] [17] eval_import_path @ ./module.jl:36 [inlined] [18] eval_import_path_all(at::Module, path::Expr, keyword::String) @ Base ./module.jl:60 [19] _eval_using(to::Module, path::Expr) @ Base ./module.jl:137 [20] top-level scope @ ~/.julia/packages/PERMANOVA/fGmaY/src/PERMANOVA.jl:3 [21] include(mod::Module, _path::String) @ Base ./Base.jl:311 [22] 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:3002 [23] top-level scope @ stdin:5 [24] eval(m::Module, e::Any) @ Core ./boot.jl:489 [25] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2848 [26] include_string @ ./loading.jl:2858 [inlined] [27] exec_options(opts::Base.JLOptions) @ Base ./client.jl:318 [28] _start() @ Base ./client.jl:553 in expression starting at /home/pkgeval/.julia/packages/PERMANOVA/fGmaY/src/PERMANOVA.jl:1 in expression starting at stdin: in expression starting at /PkgEval.jl/scripts/precompile.jl:37 Precompilation failed after 375.68s ################################################################################ # Loading # Loading PERMANOVA... Precompiling packages... ✗ NamedArrays Info Given PERMANOVA was explicitly requested, output will be shown live  WARNING: Imported binding Base._sortslices was undeclared at import time during import to NamedArrays. WARNING: Imported binding Base._negdims was undeclared at import time during import to NamedArrays. WARNING: Imported binding Base.DimSelector was undeclared at import time during import to NamedArrays. ERROR: LoadError: invalid method definition in NamedArrays: exported function Base._sortslices does not exist Stacktrace:  [1] top-level scope  @ ~/.julia/packages/NamedArrays/TuJLn/src/rearrange.jl:102  [2] include(mapexpr::Function, mod::Module, _path::String)  @ Base ./Base.jl:312  [3] top-level scope  @ ~/.julia/packages/NamedArrays/TuJLn/src/NamedArrays.jl:35  [4] include(mod::Module, _path::String)  @ Base ./Base.jl:311  [5] 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:3002  [6] top-level scope  @ stdin:5  [7] eval(m::Module, e::Any)  @ Core ./boot.jl:489  [8] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:2848  [9] include_string  @ ./loading.jl:2858 [inlined]  [10] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:318  [11] _start()  @ Base ./client.jl:553 in expression starting at /home/pkgeval/.julia/packages/NamedArrays/TuJLn/src/rearrange.jl:102 in expression starting at /home/pkgeval/.julia/packages/NamedArrays/TuJLn/src/NamedArrays.jl:9 in expression starting at stdin:5 ERROR: LoadError: Failed to precompile NamedArrays [86f7a689-2022-50b4-a561-43c23ac3c673] to "/home/pkgeval/.julia/compiled/v1.13/NamedArrays/jl_QiEqP3" (ProcessExited(1)). Stacktrace:  [1] error(s::String)  @ Base ./error.jl:44  [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing)  @ Base ./loading.jl:3289  [3] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId})()  @ Base ./loading.jl:2654  [4] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool})  @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94  [5] #mkpidlock#7  @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined]  [6] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64})  @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115  [7] #invokelatest_gr#235  @ ./reflection.jl:1333 [inlined]  [8] invokelatest_gr  @ ./reflection.jl:1325 [inlined]  [9] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId}, pkg::Base.PkgId, srcpath::String; stale_age::Int64)  @ Base ./loading.jl:3860  [10] maybe_cachefile_lock  @ ./loading.jl:3857 [inlined]  [11] __require_prelocked(pkg::Base.PkgId, env::String)  @ Base ./loading.jl:2640  [12] _require_prelocked(uuidkey::Base.PkgId, env::String)  @ Base ./loading.jl:2468  [13] macro expansion  @ ./loading.jl:2396 [inlined]  [14] macro expansion  @ ./lock.jl:376 [inlined]  [15] __require(into::Module, mod::Symbol)  @ Base ./loading.jl:2360  [16] require  @ ./loading.jl:2336 [inlined]  [17] eval_import_path  @ ./module.jl:36 [inlined]  [18] eval_import_path_all(at::Module, path::Expr, keyword::String)  @ Base ./module.jl:60  [19] _eval_using(to::Module, path::Expr)  @ Base ./module.jl:137  [20] top-level scope  @ ~/.julia/packages/PERMANOVA/fGmaY/src/PERMANOVA.jl:3  [21] include(mod::Module, _path::String)  @ Base ./Base.jl:311  [22] 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:3002  [23] top-level scope  @ stdin:5  [24] eval(m::Module, e::Any)  @ Core ./boot.jl:489  [25] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:2848  [26] include_string  @ ./loading.jl:2858 [inlined]  [27] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:318  [28] _start()  @ Base ./client.jl:553 in expression starting at /home/pkgeval/.julia/packages/PERMANOVA/fGmaY/src/PERMANOVA.jl:1 in expression starting at stdin:5 ✗ PERMANOVA 0 dependencies successfully precompiled in 23 seconds. 102 already precompiled. ERROR: The following 1 direct dependency failed to precompile: PERMANOVA Failed to precompile PERMANOVA [f33fedc7-88ab-426d-b3f4-502f30fbdde3] to "/home/pkgeval/.julia/compiled/v1.13/PERMANOVA/jl_H06PCy" (ProcessExited(1)). WARNING: Imported binding Base._sortslices was undeclared at import time during import to NamedArrays. WARNING: Imported binding Base._negdims was undeclared at import time during import to NamedArrays. WARNING: Imported binding Base.DimSelector was undeclared at import time during import to NamedArrays. ERROR: LoadError: invalid method definition in NamedArrays: exported function Base._sortslices does not exist Stacktrace: [1] top-level scope @ ~/.julia/packages/NamedArrays/TuJLn/src/rearrange.jl:102 [2] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [3] top-level scope @ ~/.julia/packages/NamedArrays/TuJLn/src/NamedArrays.jl:35 [4] include(mod::Module, _path::String) @ Base ./Base.jl:311 [5] 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:3002 [6] top-level scope @ stdin:5 [7] eval(m::Module, e::Any) @ Core ./boot.jl:489 [8] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2848 [9] include_string @ ./loading.jl:2858 [inlined] [10] exec_options(opts::Base.JLOptions) @ Base ./client.jl:318 [11] _start() @ Base ./client.jl:553 in expression starting at /home/pkgeval/.julia/packages/NamedArrays/TuJLn/src/rearrange.jl:102 in expression starting at /home/pkgeval/.julia/packages/NamedArrays/TuJLn/src/NamedArrays.jl:9 in expression starting at stdin:5 ERROR: LoadError: Failed to precompile NamedArrays [86f7a689-2022-50b4-a561-43c23ac3c673] to "/home/pkgeval/.julia/compiled/v1.13/NamedArrays/jl_QiEqP3" (ProcessExited(1)). Stacktrace: [1] error(s::String) @ Base ./error.jl:44 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing) @ Base ./loading.jl:3289 [3] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId})() @ Base ./loading.jl:2654 [4] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94 [5] #mkpidlock#7 @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined] [6] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115 [7] #invokelatest_gr#235 @ ./reflection.jl:1333 [inlined] [8] invokelatest_gr @ ./reflection.jl:1325 [inlined] [9] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId}, pkg::Base.PkgId, srcpath::String; stale_age::Int64) @ Base ./loading.jl:3860 [10] maybe_cachefile_lock @ ./loading.jl:3857 [inlined] [11] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2640 [12] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2468 [13] macro expansion @ ./loading.jl:2396 [inlined] [14] macro expansion @ ./lock.jl:376 [inlined] [15] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2360 [16] require @ ./loading.jl:2336 [inlined] [17] eval_import_path @ ./module.jl:36 [inlined] [18] eval_import_path_all(at::Module, path::Expr, keyword::String) @ Base ./module.jl:60 [19] _eval_using(to::Module, path::Expr) @ Base ./module.jl:137 [20] top-level scope @ ~/.julia/packages/PERMANOVA/fGmaY/src/PERMANOVA.jl:3 [21] include(mod::Module, _path::String) @ Base ./Base.jl:311 [22] 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:3002 [23] top-level scope @ stdin:5 [24] eval(m::Module, e::Any) @ Core ./boot.jl:489 [25] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2848 [26] include_string @ ./loading.jl:2858 [inlined] [27] exec_options(opts::Base.JLOptions) @ Base ./client.jl:318 [28] _start() @ Base ./client.jl:553 in expression starting at /home/pkgeval/.julia/packages/PERMANOVA/fGmaY/src/PERMANOVA.jl:1 in expression starting at stdin: Loading failed after 25.66s ERROR: LoadError: failed process: Process(`/opt/julia/bin/julia -C native -J/opt/julia/lib/julia/sys.so -g1 --check-bounds=yes --inline=yes --pkgimages=existing -e 'using PERMANOVA'`, ProcessExited(1)) [1] Stacktrace: [1] pipeline_error @ ./process.jl:602 [inlined] [2] run(::Cmd; wait::Bool) @ Base ./process.jl:517 [3] run(::Cmd) @ Base ./process.jl:514 [4] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:193 [5] include(mod::Module, _path::String) @ Base ./Base.jl:311 [6] exec_options(opts::Base.JLOptions) @ Base ./client.jl:320 [7] _start() @ Base ./client.jl:553 in expression starting at /PkgEval.jl/scripts/evaluate.jl:184 PkgEval failed after 433.44s: package fails to precompile