Package evaluation of EBayes on Julia 1.10.9 (96dc2d8c45*) started at 2025-06-06T22:23:24.587


################################################################################
# Set-up
#

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 4.77s


################################################################################
# Installation
#

Installing EBayes...
   Resolving package versions...
   Installed CategoricalArrays ─ v0.7.7
    Updating `~/.julia/environments/v1.10/Project.toml`
  [bad9efff] + EBayes v0.1.2
    Updating `~/.julia/environments/v1.10/Manifest.toml`
⌅ [79e6a3ab] + Adapt v2.4.0
  [fbb218c0] + BSON v0.3.9
  [49dc2e85] + Calculus v0.5.2
⌅ [324d7699] + CategoricalArrays v0.7.7
  [944b1d66] + CodecZlib v0.7.8
⌅ [3da002f7] + ColorTypes v0.10.12
  [bbf7d656] + CommonSubexpressions v0.3.1
⌅ [34da2185] + Compat v3.47.0
  [ed09eef8] + ComputationalResources v0.3.2
  [a8cc5b0e] + Crayons v4.1.1
  [9a962f9c] + DataAPI v1.16.0
  [864edb3b] + DataStructures v0.18.22
  [e2d170a0] + DataValueInterfaces v1.0.0
  [8bb1440f] + DelimitedFiles v1.9.1
⌃ [01453d9d] + DiffEqDiffTools v0.14.0
  [163ba53b] + DiffResults v1.1.0
⌃ [b552c78f] + DiffRules v1.14.0
⌅ [31c24e10] + Distributions v0.23.8
  [ffbed154] + DocStringExtensions v0.9.4
  [bad9efff] + EBayes v0.1.2
  [48062228] + FilePathsBase v0.9.24
⌅ [1a297f60] + FillArrays v0.8.14
  [53c48c17] + FixedPointNumbers v0.8.5
  [59287772] + Formatting v0.4.3
⌅ [f6369f11] + ForwardDiff v0.10.38
⌅ [cd3eb016] + HTTP v0.8.19
  [83e8ac13] + IniFile v0.5.1
  [41ab1584] + InvertedIndices v1.3.1
  [92d709cd] + IrrationalConstants v0.2.4
  [82899510] + IteratorInterfaceExtensions v1.0.0
  [692b3bcd] + JLLWrappers v1.7.0
  [9da8a3cd] + JLSO v2.7.0
  [682c06a0] + JSON v0.21.4
  [b964fa9f] + LaTeXStrings v1.4.0
⌅ [7f8f8fb0] + LearnBase v0.4.1
⌃ [d3d80556] + LineSearches v7.1.1
  [2ab3a3ac] + LogExpFunctions v0.3.29
⌅ [30fc2ffe] + LossFunctions v0.6.2
  [9920b226] + MLDataPattern v0.5.5
⌅ [a7f614a8] + MLJBase v0.12.8
⌅ [e80e1ace] + MLJModelInterface v0.2.7
⌅ [2e2323e0] + MLJScientificTypes v0.2.4
  [66a33bbf] + MLLabelUtils v0.5.7
  [1914dd2f] + MacroTools v0.5.16
  [dbb5928d] + MappedArrays v0.4.2
  [739be429] + MbedTLS v1.1.9
  [f28f55f0] + Memento v1.4.1
⌅ [e1d29d7a] + Missings v0.4.5
⌅ [d41bc354] + NLSolversBase v7.5.0
⌅ [77ba4419] + NaNMath v0.3.7
⌅ [429524aa] + Optim v0.20.6
  [bac558e1] + OrderedCollections v1.8.1
⌅ [90014a1f] + PDMats v0.10.1
  [d96e819e] + Parameters v0.12.3
  [69de0a69] + Parsers v2.8.3
  [85a6dd25] + PositiveFactorizations v0.2.4
⌅ [aea7be01] + PrecompileTools v1.2.1
  [21216c6a] + Preferences v1.4.3
⌅ [08abe8d2] + PrettyTables v0.9.1
  [92933f4c] + ProgressMeter v1.10.4
  [1fd47b50] + QuadGK v2.11.2
  [3cdcf5f2] + RecipesBase v1.3.4
⌅ [189a3867] + Reexport v0.2.0
  [ae029012] + Requires v1.3.1
⌅ [79098fc4] + Rmath v0.7.1
⌅ [321657f4] + ScientificTypes v0.7.2
  [a2af1166] + SortingAlgorithms v1.2.1
⌅ [276daf66] + SpecialFunctions v0.10.3
⌅ [90137ffa] + StaticArrays v0.12.6
  [1e83bf80] + StaticArraysCore v1.4.3
  [82ae8749] + StatsAPI v1.7.1
⌅ [2913bbd2] + StatsBase v0.33.21
⌅ [4c63d2b9] + StatsFuns v0.9.7
⌅ [09ab397b] + StructArrays v0.4.4
  [3783bdb8] + TableTraits v1.0.1
  [bd369af6] + Tables v1.12.1
  [3bb67fe8] + TranscodingStreams v0.11.3
  [3a884ed6] + UnPack v1.0.2
  [efe28fd5] + OpenSpecFun_jll v0.5.6+0
⌅ [f50d1b31] + Rmath_jll v0.4.3+0
  [0dad84c5] + ArgTools v1.1.1
  [56f22d72] + Artifacts
  [2a0f44e3] + Base64
  [ade2ca70] + Dates
  [8ba89e20] + Distributed
  [f43a241f] + Downloads v1.6.0
  [7b1f6079] + FileWatching
  [9fa8497b] + Future
  [b77e0a4c] + InteractiveUtils
  [b27032c2] + LibCURL v0.6.4
  [76f85450] + LibGit2
  [8f399da3] + Libdl
  [37e2e46d] + LinearAlgebra
  [56ddb016] + Logging
  [d6f4376e] + Markdown
  [a63ad114] + Mmap
  [ca575930] + NetworkOptions v1.2.0
  [44cfe95a] + Pkg v1.10.0
  [de0858da] + Printf
  [3fa0cd96] + REPL
  [9a3f8284] + Random
  [ea8e919c] + SHA v0.7.0
  [9e88b42a] + Serialization
  [1a1011a3] + SharedArrays
  [6462fe0b] + Sockets
  [2f01184e] + SparseArrays v1.10.0
  [10745b16] + Statistics v1.10.0
  [4607b0f0] + SuiteSparse
  [fa267f1f] + TOML v1.0.3
  [a4e569a6] + Tar v1.10.0
  [8dfed614] + Test
  [cf7118a7] + UUIDs
  [4ec0a83e] + Unicode
  [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0
  [deac9b47] + LibCURL_jll v8.4.0+0
  [e37daf67] + LibGit2_jll v1.6.4+0
  [29816b5a] + LibSSH2_jll v1.11.0+1
  [c8ffd9c3] + MbedTLS_jll v2.28.2+1
  [14a3606d] + MozillaCACerts_jll v2023.1.10
  [4536629a] + OpenBLAS_jll v0.3.23+4
  [bea87d4a] + SuiteSparse_jll v7.2.1+1
  [83775a58] + Zlib_jll v1.2.13+1
  [8e850b90] + libblastrampoline_jll v5.11.0+0
  [8e850ede] + nghttp2_jll v1.52.0+1
  [3f19e933] + p7zip_jll v17.4.0+2
        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 9.84s


################################################################################
# Precompilation
#

Precompiling PkgEval dependencies...

Precompiling package dependencies...
┌ Warning: Circular dependency detected.
│ Precompilation will be skipped for dependencies in this cycle:
│  ┌ FilePathsBase → FilePathsBaseTestExt
│  └─ FilePathsBase → FilePathsBaseMmapExt
│ Precompilation will also be skipped for the following, which depend on the above cycle:
│   EBayes
│   JLSO
│   MLJTuning
│   MLJ
│   MLJModels
│   MLJBase
└ @ Pkg.API.Precompilation /opt/julia/share/julia/stdlib/v1.10/Pkg/src/precompilation.jl:583

Precompilation completed after 401.02s


################################################################################
# Testing
#

     Testing EBayes
      Status `/tmp/jl_qJNEW3/Project.toml`
  [bad9efff] EBayes v0.1.2
  [38e38edf] GLM v1.9.0
⌃ [add582a8] MLJ v0.10.3
⌅ [a7f614a8] MLJBase v0.12.8
⌅ [d491faf4] MLJModels v0.9.10
⌃ [f3b207a7] StatsPlots v0.14.32
⌅ [09ab397b] StructArrays v0.4.4
  [b77e0a4c] InteractiveUtils
  [9a3f8284] Random
  [8dfed614] Test
      Status `/tmp/jl_qJNEW3/Manifest.toml`
  [621f4979] AbstractFFTs v1.5.0
⌅ [79e6a3ab] Adapt v2.4.0
⌅ [7d9fca2a] Arpack v0.4.0
⌃ [13072b0f] AxisAlgorithms v1.0.1
  [fbb218c0] BSON v0.3.9
  [49dc2e85] Calculus v0.5.2
⌅ [324d7699] CategoricalArrays v0.7.7
  [d360d2e6] ChainRulesCore v1.25.1
⌅ [aaaa29a8] Clustering v0.14.4
  [944b1d66] CodecZlib v0.7.8
⌃ [35d6a980] ColorSchemes v3.26.0
⌅ [3da002f7] ColorTypes v0.10.12
⌅ [c3611d14] ColorVectorSpace v0.10.0
⌅ [5ae59095] Colors v0.12.11
  [bbf7d656] CommonSubexpressions v0.3.1
⌅ [34da2185] Compat v3.47.0
  [ed09eef8] ComputationalResources v0.3.2
  [d38c429a] Contour v0.6.3
  [a8cc5b0e] Crayons v4.1.1
  [9a962f9c] DataAPI v1.16.0
  [864edb3b] DataStructures v0.18.22
  [e2d170a0] DataValueInterfaces v1.0.0
  [e7dc6d0d] DataValues v0.4.13
  [8bb1440f] DelimitedFiles v1.9.1
⌃ [01453d9d] DiffEqDiffTools v0.14.0
  [163ba53b] DiffResults v1.1.0
⌃ [b552c78f] DiffRules v1.14.0
⌅ [b4f34e82] Distances v0.8.2
⌅ [31c24e10] Distributions v0.23.8
  [ffbed154] DocStringExtensions v0.9.4
  [bad9efff] EBayes v0.1.2
  [c87230d0] FFMPEG v0.4.2
  [7a1cc6ca] FFTW v1.9.0
  [48062228] FilePathsBase v0.9.24
⌅ [1a297f60] FillArrays v0.8.14
  [53c48c17] FixedPointNumbers v0.8.5
  [59287772] Formatting v0.4.3
⌅ [f6369f11] ForwardDiff v0.10.38
  [38e38edf] GLM v1.9.0
⌅ [28b8d3ca] GR v0.69.5
  [42e2da0e] Grisu v1.0.2
⌅ [cd3eb016] HTTP v0.8.19
  [83e8ac13] IniFile v0.5.1
⌅ [a98d9a8b] Interpolations v0.13.6
  [41ab1584] InvertedIndices v1.3.1
  [92d709cd] IrrationalConstants v0.2.4
  [82899510] IteratorInterfaceExtensions v1.0.0
  [1019f520] JLFzf v0.1.11
  [692b3bcd] JLLWrappers v1.7.0
  [9da8a3cd] JLSO v2.7.0
  [682c06a0] JSON v0.21.4
  [5ab0869b] KernelDensity v0.6.9
  [b964fa9f] LaTeXStrings v1.4.0
⌅ [23fbe1c1] Latexify v0.15.21
⌅ [7f8f8fb0] LearnBase v0.4.1
⌃ [d3d80556] LineSearches v7.1.1
  [2ab3a3ac] LogExpFunctions v0.3.29
⌅ [30fc2ffe] LossFunctions v0.6.2
  [9920b226] MLDataPattern v0.5.5
⌃ [add582a8] MLJ v0.10.3
⌅ [a7f614a8] MLJBase v0.12.8
⌅ [e80e1ace] MLJModelInterface v0.2.7
⌅ [d491faf4] MLJModels v0.9.10
⌅ [2e2323e0] MLJScientificTypes v0.2.4
⌅ [03970b2e] MLJTuning v0.3.6
  [66a33bbf] MLLabelUtils v0.5.7
  [1914dd2f] MacroTools v0.5.16
  [dbb5928d] MappedArrays v0.4.2
  [739be429] MbedTLS v1.1.9
  [442fdcdd] Measures v0.3.2
  [f28f55f0] Memento v1.4.1
⌅ [e1d29d7a] Missings v0.4.5
⌅ [6f286f6a] MultivariateStats v0.7.0
⌅ [d41bc354] NLSolversBase v7.5.0
⌅ [77ba4419] NaNMath v0.3.7
⌃ [b8a86587] NearestNeighbors v0.4.4
⌅ [510215fc] Observables v0.4.0
  [6fe1bfb0] OffsetArrays v1.17.0
⌅ [429524aa] Optim v0.20.6
  [bac558e1] OrderedCollections v1.8.1
⌅ [90014a1f] PDMats v0.10.1
  [d96e819e] Parameters v0.12.3
  [69de0a69] Parsers v2.8.3
  [ccf2f8ad] PlotThemes v3.3.0
⌃ [995b91a9] PlotUtils v1.2.0
⌃ [91a5bcdd] Plots v1.35.0
  [85a6dd25] PositiveFactorizations v0.2.4
⌅ [aea7be01] PrecompileTools v1.2.1
  [21216c6a] Preferences v1.4.3
⌅ [08abe8d2] PrettyTables v0.9.1
  [92933f4c] ProgressMeter v1.10.4
  [1fd47b50] QuadGK v2.11.2
  [c84ed2f1] Ratios v0.4.5
  [3cdcf5f2] RecipesBase v1.3.4
⌅ [01d81517] RecipesPipeline v0.5.2
⌅ [189a3867] Reexport v0.2.0
  [05181044] RelocatableFolders v1.0.1
  [ae029012] Requires v1.3.1
⌅ [79098fc4] Rmath v0.7.1
⌅ [321657f4] ScientificTypes v0.7.2
  [6c6a2e73] Scratch v1.2.1
  [91c51154] SentinelArrays v1.4.8
  [1277b4bf] ShiftedArrays v2.0.0
  [992d4aef] Showoff v1.0.3
  [66db9d55] SnoopPrecompile v1.0.3
  [a2af1166] SortingAlgorithms v1.2.1
⌅ [276daf66] SpecialFunctions v0.10.3
⌅ [90137ffa] StaticArrays v0.12.6
  [1e83bf80] StaticArraysCore v1.4.3
  [82ae8749] StatsAPI v1.7.1
⌅ [2913bbd2] StatsBase v0.33.21
⌅ [4c63d2b9] StatsFuns v0.9.7
  [3eaba693] StatsModels v0.7.4
⌃ [f3b207a7] StatsPlots v0.14.32
⌅ [09ab397b] StructArrays v0.4.4
  [ab02a1b2] TableOperations v1.2.0
  [3783bdb8] TableTraits v1.0.1
  [bd369af6] Tables v1.12.1
  [62fd8b95] TensorCore v0.1.1
  [3bb67fe8] TranscodingStreams v0.11.3
  [3a884ed6] UnPack v1.0.2
  [1cfade01] UnicodeFun v0.4.1
  [41fe7b60] Unzip v0.2.0
  [cc8bc4a8] Widgets v0.6.7
⌅ [efce3f68] WoodburyMatrices v0.5.6
⌅ [68821587] Arpack_jll v3.5.1+1
  [6e34b625] Bzip2_jll v1.0.9+0
  [83423d85] Cairo_jll v1.18.5+0
  [ee1fde0b] Dbus_jll v1.16.2+0
  [2702e6a9] EpollShim_jll v0.0.20230411+1
  [2e619515] Expat_jll v2.6.5+0
⌅ [b22a6f82] FFMPEG_jll v4.4.2+2
  [f5851436] FFTW_jll v3.3.11+0
  [a3f928ae] Fontconfig_jll v2.16.0+0
  [d7e528f0] FreeType2_jll v2.13.4+0
  [559328eb] FriBidi_jll v1.0.17+0
  [0656b61e] GLFW_jll v3.4.0+2
⌅ [d2c73de3] GR_jll v0.69.1+0
  [78b55507] Gettext_jll v0.21.0+0
  [7746bdde] Glib_jll v2.84.0+0
  [3b182d85] Graphite2_jll v1.3.15+0
  [2e76f6c2] HarfBuzz_jll v8.5.1+0
  [1d5cc7b8] IntelOpenMP_jll v2025.0.4+0
  [aacddb02] JpegTurbo_jll v3.1.1+0
  [c1c5ebd0] LAME_jll v3.100.2+0
⌅ [88015f11] LERC_jll v3.0.0+1
  [1d63c593] LLVMOpenMP_jll v18.1.8+0
  [dd4b983a] LZO_jll v2.10.3+0
  [e9f186c6] Libffi_jll v3.4.7+0
  [7e76a0d4] Libglvnd_jll v1.7.1+1
  [94ce4f54] Libiconv_jll v1.18.0+0
  [4b2f31a3] Libmount_jll v2.41.0+0
⌅ [89763e89] Libtiff_jll v4.4.0+0
  [38a345b3] Libuuid_jll v2.41.0+0
  [856f044c] MKL_jll v2025.0.1+1
  [e7412a2a] Ogg_jll v1.3.5+1
⌅ [458c3c95] OpenSSL_jll v1.1.23+1
  [efe28fd5] OpenSpecFun_jll v0.5.6+0
  [91d4177d] Opus_jll v1.3.3+0
  [36c8627f] Pango_jll v1.56.3+0
⌅ [30392449] Pixman_jll v0.44.2+0
  [ea2cea3b] Qt5Base_jll v5.15.3+2
⌅ [f50d1b31] Rmath_jll v0.4.3+0
  [a2964d1f] Wayland_jll v1.23.1+0
  [2381bf8a] Wayland_protocols_jll v1.36.0+0
⌅ [02c8fc9c] XML2_jll v2.13.6+1
  [4f6342f7] Xorg_libX11_jll v1.8.12+0
  [0c0b7dd1] Xorg_libXau_jll v1.0.13+0
  [935fb764] Xorg_libXcursor_jll v1.2.4+0
  [a3789734] Xorg_libXdmcp_jll v1.1.6+0
  [1082639a] Xorg_libXext_jll v1.3.7+0
  [d091e8ba] Xorg_libXfixes_jll v6.0.1+0
  [a51aa0fd] Xorg_libXi_jll v1.8.3+0
  [d1454406] Xorg_libXinerama_jll v1.1.6+0
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  [ea2f1a96] Xorg_libXrender_jll v0.9.12+0
  [c7cfdc94] Xorg_libxcb_jll v1.17.1+0
  [cc61e674] Xorg_libxkbfile_jll v1.1.3+0
  [12413925] Xorg_xcb_util_image_jll v0.4.0+1
  [2def613f] Xorg_xcb_util_jll v0.4.0+1
  [975044d2] Xorg_xcb_util_keysyms_jll v0.4.0+1
  [0d47668e] Xorg_xcb_util_renderutil_jll v0.3.9+1
  [c22f9ab0] Xorg_xcb_util_wm_jll v0.4.1+1
  [35661453] Xorg_xkbcomp_jll v1.4.7+0
  [33bec58e] Xorg_xkeyboard_config_jll v2.44.0+0
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  [3161d3a3] Zstd_jll v1.5.7+1
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  [0ac62f75] libass_jll v0.15.2+0
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⌅ [1270edf5] x264_jll v2021.5.5+0
⌅ [dfaa095f] x265_jll v3.5.0+0
  [d8fb68d0] xkbcommon_jll v1.8.1+0
  [0dad84c5] ArgTools v1.1.1
  [56f22d72] Artifacts
  [2a0f44e3] Base64
  [ade2ca70] Dates
  [8ba89e20] Distributed
  [f43a241f] Downloads v1.6.0
  [7b1f6079] FileWatching
  [9fa8497b] Future
  [b77e0a4c] InteractiveUtils
  [4af54fe1] LazyArtifacts
  [b27032c2] LibCURL v0.6.4
  [76f85450] LibGit2
  [8f399da3] Libdl
  [37e2e46d] LinearAlgebra
  [56ddb016] Logging
  [d6f4376e] Markdown
  [a63ad114] Mmap
  [ca575930] NetworkOptions v1.2.0
  [44cfe95a] Pkg v1.10.0
  [de0858da] Printf
  [3fa0cd96] REPL
  [9a3f8284] Random
  [ea8e919c] SHA v0.7.0
  [9e88b42a] Serialization
  [1a1011a3] SharedArrays
  [6462fe0b] Sockets
  [2f01184e] SparseArrays v1.10.0
  [10745b16] Statistics v1.10.0
  [4607b0f0] SuiteSparse
  [fa267f1f] TOML v1.0.3
  [a4e569a6] Tar v1.10.0
  [8dfed614] Test
  [cf7118a7] UUIDs
  [4ec0a83e] Unicode
  [e66e0078] CompilerSupportLibraries_jll v1.1.1+0
  [deac9b47] LibCURL_jll v8.4.0+0
  [e37daf67] LibGit2_jll v1.6.4+0
  [29816b5a] LibSSH2_jll v1.11.0+1
  [c8ffd9c3] MbedTLS_jll v2.28.2+1
  [14a3606d] MozillaCACerts_jll v2023.1.10
  [4536629a] OpenBLAS_jll v0.3.23+4
  [efcefdf7] PCRE2_jll v10.42.0+1
  [bea87d4a] SuiteSparse_jll v7.2.1+1
  [83775a58] Zlib_jll v1.2.13+1
  [8e850b90] libblastrampoline_jll v5.11.0+0
  [8e850ede] nghttp2_jll v1.52.0+1
  [3f19e933] p7zip_jll v17.4.0+2
        Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading.
     Testing Running tests...
WARNING: method definition for catvaluetype at /home/pkgeval/.julia/packages/CategoricalArrays/dmrjI/src/value.jl:48 declares type variable R but does not use it.
WARNING: method definition for rand at /home/pkgeval/.julia/packages/MLJBase/qJs1o/src/hyperparam/one_dimensional_range_methods.jl:406 declares type variable I but does not use it.
WARNING: method definition for rand at /home/pkgeval/.julia/packages/MLJBase/qJs1o/src/hyperparam/one_dimensional_range_methods.jl:408 declares type variable I but does not use it.
WARNING: method definition for TwiceDifferentiable at /home/pkgeval/.julia/packages/NLSolversBase/NsXIC/src/objective_types/incomplete.jl:86 declares type variable TH but does not use it.
WARNING: method definition for TwiceDifferentiable at /home/pkgeval/.julia/packages/NLSolversBase/NsXIC/src/objective_types/incomplete.jl:94 declares type variable TH but does not use it.
WARNING: using MLJBase.predict in module Main conflicts with an existing identifier.
[ Info: Model metadata loaded from registry. 
WARNING: Method definition show(IO, Random.MersenneTwister) in module Random at /source/usr/share/julia/stdlib/v1.10/Random/src/RNGs.jl:145 overwritten in module MLJ at /home/pkgeval/.julia/packages/MLJ/Skpxc/src/ensembles.jl:2.
ERROR: Method overwriting is not permitted during Module precompilation. Use `__precompile__(false)` to opt-out of precompilation.
WARNING: Method definition show(IO, Random.MersenneTwister) in module Random at /source/usr/share/julia/stdlib/v1.10/Random/src/RNGs.jl:145 overwritten in module MLJ at /home/pkgeval/.julia/packages/MLJ/Skpxc/src/ensembles.jl:2.
WARNING: using MLJ.predict in module Main conflicts with an existing identifier.
     Testing EBayes tests passed 

Testing completed after 250.54s

PkgEval succeeded after 688.66s