Package evaluation of MendelPlots on Julia 1.13.0-DEV.449 (8d6b63c3a6*) started at 2025-04-29T07:49:00.872 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 7.39s ################################################################################ # Installation # Installing MendelPlots... Resolving package versions... Updating `~/.julia/environments/v1.13/Project.toml` [7ab2ea78] + MendelPlots v0.1.6 Updating `~/.julia/environments/v1.13/Manifest.toml` [621f4979] + AbstractFFTs v1.5.0 [79e6a3ab] + Adapt v4.3.0 [66dad0bd] + AliasTables v1.1.3 [13072b0f] + AxisAlgorithms v1.1.0 [159f3aea] + Cairo v1.1.1 [324d7699] + CategoricalArrays v0.10.8 [d360d2e6] + ChainRulesCore v1.25.1 [944b1d66] + CodecZlib v0.7.8 ⌅ [3da002f7] + ColorTypes v0.11.5 ⌅ [5ae59095] + Colors v0.12.11 [34da2185] + Compat v4.16.0 [a81c6b42] + Compose v0.9.5 [187b0558] + ConstructionBase v1.5.8 [d38c429a] + Contour v0.6.3 ⌅ [7ad07ef1] + CoupledFields v0.2.0 [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 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.119 [ffbed154] + DocStringExtensions v0.9.4 [497a8b3b] + DoubleFloats v1.4.3 [7a1cc6ca] + FFTW v1.8.1 [1a297f60] + FillArrays v1.13.0 [53c48c17] + FixedPointNumbers v0.8.5 [c91e804a] + Gadfly v1.4.0 [14197337] + GenericLinearAlgebra v0.3.17 [a2bd30eb] + Graphics v1.1.3 [42e2da0e] + Grisu v1.0.2 [a1b4810d] + Hexagons v0.2.0 [34004b35] + HypergeometricFunctions v0.3.28 [9b13fd28] + IndirectArrays v1.0.0 [842dd82b] + InlineStrings v1.4.3 [a98d9a8b] + Interpolations v0.15.1 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.4 [c8e1da08] + IterTools v1.10.0 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.0 [682c06a0] + JSON v0.21.4 [e5e0dc1b] + Juno v0.8.4 [5ab0869b] + KernelDensity v0.6.9 [b964fa9f] + LaTeXStrings v1.4.0 [4345ca2d] + Loess v0.6.4 [2ab3a3ac] + LogExpFunctions v0.3.29 [1914dd2f] + MacroTools v0.5.16 [442fdcdd] + Measures v0.3.2 [e89f7d12] + Media v0.5.0 [7ab2ea78] + MendelPlots v0.1.6 [e1d29d7a] + Missings v1.2.0 [77ba4419] + NaNMath v1.1.3 [4d1e1d77] + Nullables v1.0.0 [6fe1bfb0] + OffsetArrays v1.17.0 [bac558e1] + OrderedCollections v1.8.0 [90014a1f] + PDMats 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[1082639a] + Xorg_libXext_jll v1.3.7+0 [ea2f1a96] + Xorg_libXrender_jll v0.9.12+0 [c7cfdc94] + Xorg_libxcb_jll v1.17.1+0 [c5fb5394] + Xorg_xtrans_jll v1.6.0+0 [b53b4c65] + libpng_jll v1.6.47+0 [1317d2d5] + oneTBB_jll v2022.0.0+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 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.12.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.12.0 [de0858da] + Printf v1.11.0 [9abbd945] + Profile v1.11.0 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.12.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.12.1+1 [e37daf67] + LibGit2_jll v1.9.0+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2024.12.31 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.5+0 [458c3c95] + OpenSSL_jll v3.0.16+0 [efcefdf7] + PCRE2_jll v10.44.0+1 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.12.0+0 [8e850ede] + nghttp2_jll v1.65.0+0 [3f19e933] + p7zip_jll v17.5.0+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 4.19s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 88.01s ################################################################################ # Testing # Testing MendelPlots Status `/tmp/jl_VziWYk/Project.toml` [159f3aea] Cairo v1.1.1 ⌅ [5ae59095] Colors v0.12.11 [a81c6b42] Compose v0.9.5 [a93c6f00] DataFrames v1.7.0 [31c24e10] Distributions v0.25.119 [c91e804a] Gadfly v1.4.0 [7ab2ea78] MendelPlots v0.1.6 [189a3867] Reexport v1.2.2 [10745b16] Statistics v1.11.1 [e0df1984] TextParse v1.0.3 [8dfed614] Test v1.11.0 Status `/tmp/jl_VziWYk/Manifest.toml` [621f4979] AbstractFFTs v1.5.0 [79e6a3ab] Adapt v4.3.0 [66dad0bd] AliasTables v1.1.3 [13072b0f] AxisAlgorithms v1.1.0 [159f3aea] Cairo v1.1.1 [324d7699] CategoricalArrays v0.10.8 [d360d2e6] ChainRulesCore v1.25.1 [944b1d66] CodecZlib v0.7.8 ⌅ [3da002f7] ColorTypes v0.11.5 ⌅ [5ae59095] Colors v0.12.11 [34da2185] Compat v4.16.0 [a81c6b42] Compose v0.9.5 [187b0558] ConstructionBase v1.5.8 [d38c429a] Contour v0.6.3 ⌅ [7ad07ef1] CoupledFields v0.2.0 [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 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.119 [ffbed154] DocStringExtensions v0.9.4 [497a8b3b] DoubleFloats v1.4.3 [7a1cc6ca] FFTW v1.8.1 [1a297f60] FillArrays v1.13.0 [53c48c17] FixedPointNumbers v0.8.5 [c91e804a] Gadfly v1.4.0 [14197337] GenericLinearAlgebra v0.3.17 [a2bd30eb] Graphics v1.1.3 [42e2da0e] Grisu v1.0.2 [a1b4810d] Hexagons v0.2.0 [34004b35] HypergeometricFunctions v0.3.28 [9b13fd28] IndirectArrays v1.0.0 [842dd82b] InlineStrings v1.4.3 [a98d9a8b] Interpolations v0.15.1 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.4 [c8e1da08] IterTools v1.10.0 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.0 [682c06a0] JSON v0.21.4 [e5e0dc1b] Juno v0.8.4 [5ab0869b] KernelDensity v0.6.9 [b964fa9f] LaTeXStrings v1.4.0 [4345ca2d] Loess v0.6.4 [2ab3a3ac] LogExpFunctions v0.3.29 [1914dd2f] MacroTools v0.5.16 [442fdcdd] Measures v0.3.2 [e89f7d12] Media v0.5.0 [7ab2ea78] MendelPlots v0.1.6 [e1d29d7a] Missings v1.2.0 [77ba4419] NaNMath v1.1.3 [4d1e1d77] Nullables v1.0.0 [6fe1bfb0] OffsetArrays v1.17.0 [bac558e1] OrderedCollections v1.8.0 [90014a1f] PDMats v0.11.34 [69de0a69] Parsers v2.8.3 [f27b6e38] Polynomials v4.0.19 [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 [be4d8f0f] Quadmath v0.5.11 [c84ed2f1] Ratios v0.4.5 [3cdcf5f2] RecipesBase v1.3.4 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [79098fc4] Rmath v0.8.0 [91c51154] SentinelArrays v1.4.8 [efcf1570] Setfield v1.1.2 [992d4aef] Showoff v1.0.3 [a2af1166] SortingAlgorithms v1.2.1 [276daf66] SpecialFunctions v2.5.1 [90137ffa] StaticArrays v1.9.13 [1e83bf80] StaticArraysCore v1.4.3 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.0 ⌅ [2913bbd2] StatsBase v0.33.21 [4c63d2b9] 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Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. Testing Running tests... Precompiling packages... 57181.9 ms ✓ MendelPlots 1 dependency successfully precompiled in 60 seconds. 191 already precompiled. WARNING: Method definition PNG(Any...) in module Compose at /home/pkgeval/.julia/packages/Compose/9ma5l/src/Compose.jl:138 overwritten at /home/pkgeval/.julia/packages/Compose/9ma5l/src/cairo_backends.jl:208. WARNING: Method definition kwcall(NamedTuple{names, T} where T<:Tuple where names, typeof(Compose.PNG), Any...) in module Compose at /home/pkgeval/.julia/packages/Compose/9ma5l/src/Compose.jl:138 overwritten at /home/pkgeval/.julia/packages/Compose/9ma5l/src/cairo_backends.jl:208. WARNING: Method definition PDF(Any...) in module Compose at /home/pkgeval/.julia/packages/Compose/9ma5l/src/Compose.jl:138 overwritten at /home/pkgeval/.julia/packages/Compose/9ma5l/src/cairo_backends.jl:208. WARNING: Method definition kwcall(NamedTuple{names, T} where T<:Tuple where names, typeof(Compose.PDF), Any...) in module Compose at /home/pkgeval/.julia/packages/Compose/9ma5l/src/Compose.jl:138 overwritten at /home/pkgeval/.julia/packages/Compose/9ma5l/src/cairo_backends.jl:208. WARNING: Method definition PS(Any...) in module Compose at /home/pkgeval/.julia/packages/Compose/9ma5l/src/Compose.jl:138 overwritten at /home/pkgeval/.julia/packages/Compose/9ma5l/src/cairo_backends.jl:208. WARNING: Method definition kwcall(NamedTuple{names, T} where T<:Tuple where names, typeof(Compose.PS), Any...) in module Compose at /home/pkgeval/.julia/packages/Compose/9ma5l/src/Compose.jl:138 overwritten at /home/pkgeval/.julia/packages/Compose/9ma5l/src/cairo_backends.jl:208. 114.316716 seconds (48.52 M allocations: 2.477 GiB, 1.33% gc time, 98.01% compilation time) 4.450406 seconds (7.48 M allocations: 357.151 MiB, 6.54% gc time, 43.46% compilation time: <1% of which was recompilation) 9.529722 seconds (13.00 M allocations: 589.158 MiB, 10.99% gc time, 69.31% compilation time) Test Summary: | Pass Total Time Basic Manhattan Plots (pdf and png) | 3 3 2m10.3s No basepair information will be used as the basepair position variable was not specified properly. To use BP position info, use the `posvar` argument to specify the variable in the dataframe that uses basepairs. 4.874430 seconds (8.18 M allocations: 384.120 MiB, 3.76% gc time, 56.22% compilation time) Test Summary: | Pass Total Time Advanced Manhattan Plot | 1 1 4.9s 2.151493 seconds (6.97 M allocations: 329.712 MiB, 7.69% gc time, 5.74% compilation time) Test Summary: | Pass Total Time Advanced Manhattan Plot 2 | 1 1 2.2s 10.618004 seconds (10.96 M allocations: 541.256 MiB, 2.57% gc time, 79.59% compilation time) Test Summary: | Pass Total Time Manhattan Annotation | 1 1 10.6s 27.249490 seconds (24.48 M allocations: 1.220 GiB, 1.92% gc time, 89.86% compilation time) 3.022331 seconds (7.96 M allocations: 440.052 MiB, 11.10% gc time, 7.48% compilation time) Test Summary: | Pass Total Time Basic QQ Plots | 2 2 30.3s 8.531051 seconds (10.19 M allocations: 558.718 MiB, 4.53% gc time, 70.40% compilation time) Test Summary: | Pass Total Time Advanced QQ Plot | 1 1 8.5s Test Summary: | Pass Total Time ArgumentErrors | 5 5 0.5s Testing MendelPlots tests passed Testing completed after 370.91s PkgEval succeeded after 482.35s