Package evaluation of PlotRNA on Julia 1.12.0-rc1.2 (995ff9db19*) started at 2025-07-14T22:08:37.222


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

Installing PkgEval dependencies (TestEnv)...
┌ Warning: could not download https://pkg.julialang.org/registries
│   exception = RequestError: Could not resolve host: pkg.julialang.org while requesting https://pkg.julialang.org/registries
└ @ Pkg.Registry /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Registry/Registry.jl:77

Set-up completed after 8.97s


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

Installing PlotRNA...
   Resolving package versions...
    Updating `~/.julia/environments/v1.12/Project.toml`
  [eab79ae3] + PlotRNA v0.3.2
    Updating `~/.julia/environments/v1.12/Manifest.toml`
  [67c07d97] + Automa v1.1.0
  [eeb925a3] + BioStockholm v0.2.1
  [fa961155] + CEnum v0.5.0
  [159f3aea] + Cairo v1.1.1
  [35d6a980] + ColorSchemes v3.30.0
  [3da002f7] + ColorTypes v0.12.1
  [c3611d14] + ColorVectorSpace v0.11.0
  [5ae59095] + Colors v0.13.1
  [34da2185] + Compat v4.17.0
  [864edb3b] + DataStructures v0.18.22
  [c87230d0] + FFMPEG v0.4.2
  [5789e2e9] + FileIO v1.17.0
  [53c48c17] + FixedPointNumbers v0.8.5
  [a2bd30eb] + Graphics v1.1.3
  [692b3bcd] + JLLWrappers v1.7.0
  [e5e0dc1b] + Juno v0.8.4
  [b964fa9f] + LaTeXStrings v1.4.0
⌅ [ae8d54c2] + Luxor v3.8.0
  [1914dd2f] + MacroTools v0.5.16
  [e89f7d12] + Media v0.5.0
  [77ba4419] + NaNMath v1.1.3
  [bac558e1] + OrderedCollections v1.8.1
  [eab79ae3] + PlotRNA v0.3.2
  [aea7be01] + PrecompileTools v1.3.2
  [21216c6a] + Preferences v1.4.3
  [189a3867] + Reexport v1.2.2
  [ae029012] + Requires v1.3.1
  [c4c386cf] + Rsvg v1.0.0
  [fdea26ae] + SIMD v3.7.1
  [10745b16] + Statistics v1.11.1
  [62fd8b95] + TensorCore v0.1.1
  [3bb67fe8] + TranscodingStreams v0.11.3
  [1986cc42] + Unitful v1.23.1
  [e17b2a0c] + UnsafePointers v1.0.0
  [05a721ad] + ViennaRNA v0.11.2
  [6e34b625] + Bzip2_jll v1.0.9+0
  [83423d85] + Cairo_jll v1.18.5+0
  [2e619515] + Expat_jll v2.6.5+0
⌅ [b22a6f82] + FFMPEG_jll v4.4.4+1
  [a3f928ae] + Fontconfig_jll v2.16.0+0
  [d7e528f0] + FreeType2_jll v2.13.4+0
  [559328eb] + FriBidi_jll v1.0.17+0
⌅ [1b77fbbe] + GSL_jll v2.7.2+0
  [b0724c58] + GettextRuntime_jll v0.22.4+0
  [7746bdde] + Glib_jll v2.84.3+0
  [3b182d85] + Graphite2_jll v1.3.15+0
  [2e76f6c2] + HarfBuzz_jll v8.5.1+0
  [aacddb02] + JpegTurbo_jll v3.1.1+0
  [c1c5ebd0] + LAME_jll v3.100.3+0
  [88015f11] + LERC_jll v4.0.1+0
  [1d63c593] + LLVMOpenMP_jll v18.1.8+0
  [dd4b983a] + LZO_jll v2.10.3+0
  [e9f186c6] + Libffi_jll v3.4.7+0
  [94ce4f54] + Libiconv_jll v1.18.0+0
  [4b2f31a3] + Libmount_jll v2.41.0+0
  [925c91fb] + Librsvg_jll v2.54.7+0
  [89763e89] + Libtiff_jll v4.7.1+0
  [38a345b3] + Libuuid_jll v2.41.0+0
  [079eb43e] + NLopt_jll v2.10.0+0
  [e7412a2a] + Ogg_jll v1.3.6+0
  [656ef2d0] + OpenBLAS32_jll v0.3.29+0
  [91d4177d] + Opus_jll v1.5.2+0
  [2f80f16e] + PCRE_jll v8.45.0+0
  [36c8627f] + Pango_jll v1.56.3+0
⌅ [30392449] + Pixman_jll v0.44.2+0
  [1e27f72a] + R2R_jll v1.0.6+0
  [b7a990de] + ViennaRNA_jll v2.6.4+0
⌅ [02c8fc9c] + XML2_jll v2.13.6+1
  [ffd25f8a] + XZ_jll v5.8.1+0
  [4f6342f7] + Xorg_libX11_jll v1.8.12+0
  [0c0b7dd1] + Xorg_libXau_jll v1.0.13+0
  [a3789734] + Xorg_libXdmcp_jll v1.1.6+0
  [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
  [3161d3a3] + Zstd_jll v1.5.7+1
  [da03df04] + gdk_pixbuf_jll v2.42.13+0
  [a4ae2306] + libaom_jll v3.11.0+0
⌅ [0ac62f75] + libass_jll v0.15.2+0
  [f638f0a6] + libfdk_aac_jll v2.0.4+0
  [b53b4c65] + libpng_jll v1.6.50+0
  [f27f6e37] + libvorbis_jll v1.3.8+0
⌅ [1270edf5] + x264_jll v2021.5.5+0
⌅ [dfaa095f] + x265_jll v3.5.0+0
  [0dad84c5] + ArgTools v1.1.2
  [56f22d72] + Artifacts v1.11.0
  [2a0f44e3] + Base64 v1.11.0
  [ade2ca70] + Dates v1.11.0
  [f43a241f] + Downloads v1.6.0
  [7b1f6079] + FileWatching 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
  [ca575930] + NetworkOptions v1.3.0
  [44cfe95a] + Pkg v1.13.0
  [de0858da] + Printf v1.11.0
  [9abbd945] + Profile v1.11.0
  [9a3f8284] + Random v1.11.0
  [ea8e919c] + SHA v0.7.0
  [9e88b42a] + Serialization v1.11.0
  [f489334b] + StyledStrings v1.11.0
  [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
  [781609d7] + GMP_jll v6.3.0+2
  [deac9b47] + LibCURL_jll v8.11.1+1
  [e37daf67] + LibGit2_jll v1.9.0+0
  [29816b5a] + LibSSH2_jll v1.11.3+1
  [3a97d323] + MPFR_jll v4.2.2+0
  [14a3606d] + MozillaCACerts_jll v2025.5.20
  [4536629a] + OpenBLAS_jll v0.3.29+0
  [05823500] + OpenLibm_jll v0.8.5+0
  [458c3c95] + OpenSSL_jll v3.5.1+0
  [efcefdf7] + PCRE2_jll v10.44.0+1
  [83775a58] + Zlib_jll v1.3.1+2
  [8e850b90] + libblastrampoline_jll v5.13.1+0
  [8e850ede] + nghttp2_jll v1.64.0+1
  [3f19e933] + p7zip_jll v17.5.0+2
        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 5.31s


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

Precompiling PkgEval dependencies...

┌ Warning: Could not use exact versions of packages in manifest, re-resolving
└ @ TestEnv ~/.julia/packages/TestEnv/iS95e/src/julia-1.11/activate_set.jl:75
Precompiling package dependencies...
ERROR: LoadError: The following 1 direct dependency failed to precompile:

CairoMakie 

Failed to precompile CairoMakie [13f3f980-e62b-5c42-98c6-ff1f3baf88f0] to "/home/pkgeval/.julia/compiled/v1.12/CairoMakie/jl_Q3T2nB".
ERROR: LoadError: FieldError: type Core.TypeName has no field `mt`, available fields: `name`, `module`, `singletonname`, `names`, `atomicfields`, `constfields`, `wrapper`, `Typeofwrapper`, `cache`, `linearcache`, `partial`, `hash`, `max_args`, `n_uninitialized`, `flags`, `cache_entry_count`, `max_methods`, `constprop_heuristic`
Stacktrace:
  [1] getproperty(x::Core.TypeName, f::Symbol)
    @ Base ./Base_compiler.jl:54
  [2] func2string(func::typeof(MakieCore.linesegments))
    @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/recipes.jl:9
  [3] plotkey(::Type{MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}}})
    @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/recipes.jl:21
  [4] plotkey(::MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}})
    @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/recipes.jl:22
  [5] get_attribute(dict::MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}}, key::Symbol, default::Nothing)
    @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/attributes.jl:240
  [6] get_attribute(dict::MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}}, key::Symbol)
    @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/attributes.jl:237
  [7] draw_atomic(scene::Makie.Scene, screen::CairoMakie.Screen{CairoMakie.IMAGE}, primitive::Union{MakieCore.Lines, MakieCore.LineSegments})
    @ CairoMakie ~/.julia/packages/CairoMakie/VqiwS/src/primitives.jl:6
  [8] draw_plot(scene::Makie.Scene, screen::CairoMakie.Screen{CairoMakie.IMAGE}, primitive::MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}})
    @ CairoMakie ~/.julia/packages/CairoMakie/VqiwS/src/infrastructure.jl:131
  [9] cairo_draw(screen::CairoMakie.Screen{CairoMakie.IMAGE}, scene::Makie.Scene)
    @ CairoMakie ~/.julia/packages/CairoMakie/VqiwS/src/infrastructure.jl:51
 [10] colorbuffer(screen::CairoMakie.Screen{CairoMakie.IMAGE})
    @ CairoMakie ~/.julia/packages/CairoMakie/VqiwS/src/screen.jl:307
 [11] colorbuffer(screen::CairoMakie.Screen{CairoMakie.IMAGE}, format::Makie.ImageStorageFormat)
    @ Makie ~/.julia/packages/Makie/RgxaV/src/display.jl:363
 [12] colorbuffer(fig::Makie.FigureAxisPlot, format::Makie.ImageStorageFormat; update::Bool, backend::Module, screen_config::@Kwargs{})
    @ Makie ~/.julia/packages/Makie/RgxaV/src/display.jl:439
 [13] colorbuffer
    @ ~/.julia/packages/Makie/RgxaV/src/display.jl:434 [inlined]
 [14] colorbuffer(fig::Makie.FigureAxisPlot)
    @ Makie ~/.julia/packages/Makie/RgxaV/src/display.jl:434
 [15] top-level scope
    @ ~/.julia/packages/Makie/RgxaV/precompile/shared-precompile.jl:6
 [16] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:306
 [17] top-level scope
    @ ~/.julia/packages/CairoMakie/VqiwS/src/precompiles.jl:11
 [18] macro expansion
    @ ~/.julia/packages/PrecompileTools/Z8SWe/src/workloads.jl:73 [inlined]
 [19] macro expansion
    @ ~/.julia/packages/CairoMakie/VqiwS/src/precompiles.jl:15 [inlined]
 [20] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:306
 [21] top-level scope
    @ ~/.julia/packages/CairoMakie/VqiwS/src/CairoMakie.jl:37
 [22] include(mod::Module, _path::String)
    @ Base ./Base.jl:305
 [23] 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:2991
 [24] top-level scope
    @ stdin:5
 [25] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:2837
 [27] include_string
    @ ./loading.jl:2847 [inlined]
 [28] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:319
 [29] _start()
    @ Base ./client.jl:554
in expression starting at /home/pkgeval/.julia/packages/Makie/RgxaV/precompile/shared-precompile.jl:4
in expression starting at /home/pkgeval/.julia/packages/CairoMakie/VqiwS/src/precompiles.jl:10
in expression starting at /home/pkgeval/.julia/packages/CairoMakie/VqiwS/src/CairoMakie.jl:1
in expression starting at stdin:
in expression starting at /PkgEval.jl/scripts/precompile.jl:37

Precompilation failed after 876.0s



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

     Testing PlotRNA
        Test Could not use exact versions of packages in manifest, re-resolving. Note: if you do not check your manifest file into source control, then you can probably ignore this message. However, if you do check your manifest file into source control, then you probably want to pass the `allow_reresolve = false` kwarg when calling the `Pkg.test` function.
    Updating `/tmp/jl_CxUX1e/Project.toml`
⌅ [4c88cf16] + Aqua v0.6.7
⌅ [13f3f980] + CairoMakie v0.10.12
  [eab79ae3] + PlotRNA v0.3.2
  [b8865327] + UnicodePlots v3.8.1
    Updating `/tmp/jl_CxUX1e/Manifest.toml`
  [47edcb42] + ADTypes v1.15.0
  [621f4979] + AbstractFFTs v1.5.0
  [398f06c4] + AbstractLattices v0.3.1
  [1520ce14] + AbstractTrees v0.4.5
  [79e6a3ab] + Adapt v4.3.0
  [66dad0bd] + AliasTables v1.1.3
  [27a7e980] + Animations v0.4.2
⌅ [4c88cf16] + Aqua v0.6.7
  [4fba245c] + ArrayInterface v7.19.0
  [13072b0f] + AxisAlgorithms v1.1.0
  [39de3d68] + AxisArrays v0.4.7
  [18cc8868] + BaseDirs v1.3.1
  [96374032] + CRlibm v1.0.2
⌅ [13f3f980] + CairoMakie v0.10.12
  [d360d2e6] + ChainRulesCore v1.25.2
  [a2cac450] + ColorBrewer v0.4.1
⌅ [3da002f7] ↓ ColorTypes v0.12.1 ⇒ v0.11.5
⌃ [c3611d14] ↓ ColorVectorSpace v0.11.0 ⇒ v0.10.0
⌅ [5ae59095] ↓ Colors v0.13.1 ⇒ v0.12.11
  [861a8166] + Combinatorics v1.0.3
  [bbf7d656] + CommonSubexpressions v0.3.1
  [187b0558] + ConstructionBase v1.6.0
  [d38c429a] + Contour v0.6.3
  [a8cc5b0e] + Crayons v4.1.1
  [9a962f9c] + DataAPI v1.16.0
  [e2d170a0] + DataValueInterfaces v1.0.0
⌅ [927a84f5] + DelaunayTriangulation v0.8.12
  [163ba53b] + DiffResults v1.1.0
  [b552c78f] + DiffRules v1.15.1
  [a0c0ee7d] + DifferentiationInterface v0.7.2
  [31c24e10] + Distributions v0.25.120
  [ffbed154] + DocStringExtensions v0.9.5
  [4e289a0a] + EnumX v1.0.5
  [429591f6] + ExactPredicates v2.2.8
  [411431e0] + Extents v0.1.6
  [7a1cc6ca] + FFTW v1.9.0
  [1a297f60] + FillArrays v1.13.0
  [6a86dc24] + FiniteDiff v2.27.0
  [59287772] + Formatting v0.4.3
  [f6369f11] + ForwardDiff v1.0.1
  [b38be410] + FreeType v4.1.1
  [663a7486] + FreeTypeAbstraction v0.10.8
  [68eda718] + GeoFormatTypes v0.4.4
⌃ [cf35fbd7] + GeoInterface v1.4.1
⌅ [5c1252a2] + GeometryBasics v0.4.11
⌅ [3955a311] + GridLayoutBase v0.9.2
  [42e2da0e] + Grisu v1.0.2
  [34004b35] + HypergeometricFunctions v0.3.28
  [2803e5a7] + ImageAxes v0.6.12
  [c817782e] + ImageBase v0.1.7
  [a09fc81d] + ImageCore v0.10.5
  [82e4d734] + ImageIO v0.6.9
  [bc367c6b] + ImageMetadata v0.9.10
  [9b13fd28] + IndirectArrays v1.0.0
  [d25df0c9] + Inflate v0.1.5
  [18e54dd8] + IntegerMathUtils v0.1.3
  [a98d9a8b] + Interpolations v0.16.1
  [d1acc4aa] + IntervalArithmetic v0.22.36
  [8197267c] + IntervalSets v0.7.11
  [92d709cd] + IrrationalConstants v0.2.4
  [f1662d9f] + Isoband v0.1.1
  [c8e1da08] + IterTools v1.10.0
  [82899510] + IteratorInterfaceExtensions v1.0.0
  [682c06a0] + JSON v0.21.4
  [b835a17e] + JpegTurbo v0.1.6
  [5ab0869b] + KernelDensity v0.6.10
  [8cdb02fc] + LazyModules v0.3.1
  [9c8b4983] + LightXML v0.9.2
  [d3d80556] + LineSearches v7.4.0
  [9b3f67b0] + LinearAlgebraX v0.2.10
  [2ab3a3ac] + LogExpFunctions v0.3.29
⌅ [ee78f7c6] + Makie v0.19.12
⌅ [20f20a25] + MakieCore v0.6.9
  [dbb5928d] + MappedArrays v0.4.2
  [299715c1] + MarchingCubes v0.1.11
⌅ [0a4f8689] + MathTeXEngine v0.5.7
  [e1d29d7a] + Missings v1.2.0
  [7475f97c] + Mods v2.2.6
  [e94cdb99] + MosaicViews v0.3.4
  [3b2b4ff1] + Multisets v0.4.5
  [d41bc354] + NLSolversBase v7.10.0
  [f09324ee] + Netpbm v1.1.1
  [510215fc] + Observables v0.5.5
  [6fe1bfb0] + OffsetArrays v1.17.0
  [52e1d378] + OpenEXR v0.3.3
  [429524aa] + Optim v1.13.2
  [90014a1f] + PDMats v0.11.35
  [f57f5aa1] + PNGFiles v0.4.4
  [19eb6ba3] + Packing v0.5.1
  [5432bcbf] + PaddedViews v0.5.12
  [d96e819e] + Parameters v0.12.3
  [69de0a69] + Parsers v2.8.3
  [2ae35dd2] + Permutations v0.4.23
  [3bbf5609] + PikaParser v0.6.1
  [eebad327] + PkgVersion v0.3.3
  [eab79ae3] + PlotRNA v0.3.2
  [995b91a9] + PlotUtils v1.4.3
  [647866c9] + PolygonOps v0.1.2
⌃ [f27b6e38] + Polynomials v4.0.21
  [85a6dd25] + PositiveFactorizations v0.2.4
  [27ebfcd6] + Primes v0.5.7
  [92933f4c] + ProgressMeter v1.10.4
  [43287f4e] + PtrArrays v1.3.0
  [4b34888f] + QOI v1.0.1
  [1fd47b50] + QuadGK v2.11.2
  [b3c3ace0] + RangeArrays v0.3.2
  [c84ed2f1] + Ratios v0.4.5
  [3cdcf5f2] + RecipesBase v1.3.4
  [05181044] + RelocatableFolders v1.0.1
  [286e9d63] + RingLists v0.2.9
  [79098fc4] + Rmath v0.8.0
  [5eaf0fd0] + RoundingEmulator v0.2.1
  [6c6a2e73] + Scratch v1.3.0
  [efcf1570] + Setfield v1.1.2
⌅ [65257c39] + ShaderAbstractions v0.4.1
  [992d4aef] + Showoff v1.0.3
  [73760f76] + SignedDistanceFields v0.4.0
  [55797a34] + SimpleGraphs v0.8.6
  [ec83eff0] + SimplePartitions v0.3.3
  [cc47b68c] + SimplePolynomials v0.2.18
  [a6525b86] + SimpleRandom v0.3.2
  [699a6c99] + SimpleTraits v0.9.4
  [45858cf5] + Sixel v0.1.5
  [a2af1166] + SortingAlgorithms v1.2.1
  [276daf66] + SpecialFunctions v2.5.1
⌅ [c5dd0088] + StableHashTraits v1.3.4
  [860ef19b] + StableRNGs v1.0.3
  [cae243ae] + StackViews v0.1.2
  [90137ffa] + StaticArrays v1.9.13
  [1e83bf80] + StaticArraysCore v1.4.3
  [82ae8749] + StatsAPI v1.7.1
  [2913bbd2] + StatsBase v0.34.5
  [4c63d2b9] + StatsFuns v1.5.0
⌅ [09ab397b] + StructArrays v0.6.21
  [856f2bd8] + StructTypes v1.11.0
  [3783bdb8] + TableTraits v1.0.1
  [bd369af6] + Tables v1.12.1
  [731e570b] + TiffImages v0.11.4
  [981d1d27] + TriplotBase v0.1.0
  [9d95972d] + TupleTools v1.6.0
  [3a884ed6] + UnPack v1.0.2
  [1cfade01] + UnicodeFun v0.4.1
  [b8865327] + UnicodePlots v3.8.1
  [ecbed89c] + WeakKeyIdDicts v0.1.0
  [e3aaa7dc] + WebP v0.1.3
  [efce3f68] + WoodburyMatrices v1.0.0
  [4e9b3aee] + CRlibm_jll v1.0.1+0
  [5ae413db] + EarCut_jll v2.2.4+0
  [f5851436] + FFTW_jll v3.3.11+0
  [59f7168a] + Giflib_jll v5.2.3+0
  [905a6f67] + Imath_jll v3.1.11+0
  [1d5cc7b8] + IntelOpenMP_jll v2025.0.4+0
  [7e76a0d4] + Libglvnd_jll v1.7.1+1
  [856f044c] + MKL_jll v2025.0.1+1
  [6cdc7f73] + OpenBLASConsistentFPCSR_jll v0.3.29+0
  [18a262bb] + OpenEXR_jll v3.2.4+0
  [efe28fd5] + OpenSpecFun_jll v0.5.6+0
  [f50d1b31] + Rmath_jll v0.5.1+0
  [9a68df92] + isoband_jll v0.2.3+0
  [075b6546] + libsixel_jll v1.10.5+0
  [c5f90fcd] + libwebp_jll v1.6.0+0
  [1317d2d5] + oneTBB_jll v2022.0.0+0
  [8bf52ea8] + CRC32c v1.11.0
  [8ba89e20] + Distributed v1.11.0
  [9fa8497b] + Future v1.11.0
  [a63ad114] + Mmap v1.11.0
  [3fa0cd96] + REPL v1.11.0
  [1a1011a3] + SharedArrays v1.11.0
  [6462fe0b] + Sockets v1.11.0
  [2f01184e] + SparseArrays v1.12.0
  [4607b0f0] + SuiteSparse
  [bea87d4a] + SuiteSparse_jll v7.8.3+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`
        Test Successfully re-resolved
      Status `/tmp/jl_CxUX1e/Project.toml`
⌅ [4c88cf16] Aqua v0.6.7
  [eeb925a3] BioStockholm v0.2.1
⌅ [13f3f980] CairoMakie v0.10.12
  [35d6a980] ColorSchemes v3.30.0
⌅ [ae8d54c2] Luxor v3.8.0
  [eab79ae3] PlotRNA v0.3.2
  [aea7be01] PrecompileTools v1.3.2
  [ae029012] Requires v1.3.1
  [10745b16] Statistics v1.11.1
  [b8865327] UnicodePlots v3.8.1
  [05a721ad] ViennaRNA v0.11.2
  [1e27f72a] R2R_jll v1.0.6+0
  [4af54fe1] LazyArtifacts v1.11.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_CxUX1e/Manifest.toml`
  [47edcb42] ADTypes v1.15.0
  [621f4979] AbstractFFTs v1.5.0
  [398f06c4] AbstractLattices v0.3.1
  [1520ce14] AbstractTrees v0.4.5
  [79e6a3ab] Adapt v4.3.0
  [66dad0bd] AliasTables v1.1.3
  [27a7e980] Animations v0.4.2
⌅ [4c88cf16] Aqua v0.6.7
  [4fba245c] ArrayInterface v7.19.0
  [67c07d97] Automa v1.1.0
  [13072b0f] AxisAlgorithms v1.1.0
  [39de3d68] AxisArrays v0.4.7
  [18cc8868] BaseDirs v1.3.1
  [eeb925a3] BioStockholm v0.2.1
  [fa961155] CEnum v0.5.0
  [96374032] CRlibm v1.0.2
  [159f3aea] Cairo v1.1.1
⌅ [13f3f980] CairoMakie v0.10.12
  [d360d2e6] ChainRulesCore v1.25.2
  [a2cac450] ColorBrewer v0.4.1
  [35d6a980] ColorSchemes v3.30.0
⌅ [3da002f7] ColorTypes v0.11.5
⌃ [c3611d14] ColorVectorSpace v0.10.0
⌅ [5ae59095] Colors v0.12.11
  [861a8166] Combinatorics v1.0.3
  [bbf7d656] CommonSubexpressions v0.3.1
  [34da2185] Compat v4.17.0
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  [864edb3b] DataStructures v0.18.22
  [e2d170a0] DataValueInterfaces v1.0.0
⌅ [927a84f5] DelaunayTriangulation v0.8.12
  [163ba53b] DiffResults v1.1.0
  [b552c78f] DiffRules v1.15.1
  [a0c0ee7d] DifferentiationInterface v0.7.2
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⌃ [cf35fbd7] GeoInterface v1.4.1
⌅ [5c1252a2] GeometryBasics v0.4.11
  [a2bd30eb] Graphics v1.1.3
⌅ [3955a311] GridLayoutBase v0.9.2
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  [9c8b4983] LightXML v0.9.2
  [d3d80556] LineSearches v7.4.0
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⌅ [ae8d54c2] Luxor v3.8.0
  [1914dd2f] MacroTools v0.5.16
⌅ [ee78f7c6] Makie v0.19.12
⌅ [20f20a25] MakieCore v0.6.9
  [dbb5928d] MappedArrays v0.4.2
  [299715c1] MarchingCubes v0.1.11
⌅ [0a4f8689] MathTeXEngine v0.5.7
  [e89f7d12] Media v0.5.0
  [e1d29d7a] Missings v1.2.0
  [7475f97c] Mods v2.2.6
  [e94cdb99] MosaicViews v0.3.4
  [3b2b4ff1] Multisets v0.4.5
  [d41bc354] NLSolversBase v7.10.0
  [77ba4419] NaNMath v1.1.3
  [f09324ee] Netpbm v1.1.1
  [510215fc] Observables v0.5.5
  [6fe1bfb0] OffsetArrays v1.17.0
  [52e1d378] OpenEXR v0.3.3
  [429524aa] Optim v1.13.2
  [bac558e1] OrderedCollections v1.8.1
  [90014a1f] PDMats v0.11.35
  [f57f5aa1] PNGFiles v0.4.4
  [19eb6ba3] Packing v0.5.1
  [5432bcbf] PaddedViews v0.5.12
  [d96e819e] Parameters v0.12.3
  [69de0a69] Parsers v2.8.3
  [2ae35dd2] Permutations v0.4.23
  [3bbf5609] PikaParser v0.6.1
  [eebad327] PkgVersion v0.3.3
  [eab79ae3] PlotRNA v0.3.2
  [995b91a9] PlotUtils v1.4.3
  [647866c9] PolygonOps v0.1.2
⌃ [f27b6e38] Polynomials v4.0.21
  [85a6dd25] PositiveFactorizations v0.2.4
  [aea7be01] PrecompileTools v1.3.2
  [21216c6a] Preferences v1.4.3
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  [92933f4c] ProgressMeter v1.10.4
  [43287f4e] PtrArrays v1.3.0
  [4b34888f] QOI v1.0.1
  [1fd47b50] QuadGK v2.11.2
  [b3c3ace0] RangeArrays v0.3.2
  [c84ed2f1] Ratios v0.4.5
  [3cdcf5f2] RecipesBase v1.3.4
  [189a3867] Reexport v1.2.2
  [05181044] RelocatableFolders v1.0.1
  [ae029012] Requires v1.3.1
  [286e9d63] RingLists v0.2.9
  [79098fc4] Rmath v0.8.0
  [5eaf0fd0] RoundingEmulator v0.2.1
  [c4c386cf] Rsvg v1.0.0
  [fdea26ae] SIMD v3.7.1
  [6c6a2e73] Scratch v1.3.0
  [efcf1570] Setfield v1.1.2
⌅ [65257c39] ShaderAbstractions v0.4.1
  [992d4aef] Showoff v1.0.3
  [73760f76] SignedDistanceFields v0.4.0
  [55797a34] SimpleGraphs v0.8.6
  [ec83eff0] SimplePartitions v0.3.3
  [cc47b68c] SimplePolynomials v0.2.18
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  [699a6c99] SimpleTraits v0.9.4
  [45858cf5] Sixel v0.1.5
  [a2af1166] SortingAlgorithms v1.2.1
  [276daf66] SpecialFunctions v2.5.1
⌅ [c5dd0088] StableHashTraits v1.3.4
  [860ef19b] StableRNGs v1.0.3
  [cae243ae] StackViews v0.1.2
  [90137ffa] StaticArrays v1.9.13
  [1e83bf80] StaticArraysCore v1.4.3
  [10745b16] Statistics v1.11.1
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  [2913bbd2] StatsBase v0.34.5
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⌅ [09ab397b] StructArrays v0.6.21
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  [3783bdb8] TableTraits v1.0.1
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  [62fd8b95] TensorCore v0.1.1
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  [e17b2a0c] UnsafePointers v1.0.0
  [05a721ad] ViennaRNA v0.11.2
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⌅ [b22a6f82] FFMPEG_jll v4.4.4+1
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⌅ [1b77fbbe] GSL_jll v2.7.2+0
  [b0724c58] GettextRuntime_jll v0.22.4+0
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  [7746bdde] Glib_jll v2.84.3+0
  [3b182d85] Graphite2_jll v1.3.15+0
  [2e76f6c2] HarfBuzz_jll v8.5.1+0
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  [c1c5ebd0] LAME_jll v3.100.3+0
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  [4b2f31a3] Libmount_jll v2.41.0+0
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  [89763e89] Libtiff_jll v4.7.1+0
  [38a345b3] Libuuid_jll v2.41.0+0
  [856f044c] MKL_jll v2025.0.1+1
  [079eb43e] NLopt_jll v2.10.0+0
  [e7412a2a] Ogg_jll v1.3.6+0
  [656ef2d0] OpenBLAS32_jll v0.3.29+0
  [6cdc7f73] OpenBLASConsistentFPCSR_jll v0.3.29+0
  [18a262bb] OpenEXR_jll v3.2.4+0
  [efe28fd5] OpenSpecFun_jll v0.5.6+0
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  [36c8627f] Pango_jll v1.56.3+0
⌅ [30392449] Pixman_jll v0.44.2+0
  [1e27f72a] R2R_jll v1.0.6+0
  [f50d1b31] Rmath_jll v0.5.1+0
  [b7a990de] ViennaRNA_jll v2.6.4+0
⌅ [02c8fc9c] XML2_jll v2.13.6+1
  [ffd25f8a] XZ_jll v5.8.1+0
  [4f6342f7] Xorg_libX11_jll v1.8.12+0
  [0c0b7dd1] Xorg_libXau_jll v1.0.13+0
  [a3789734] Xorg_libXdmcp_jll v1.1.6+0
  [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
  [3161d3a3] Zstd_jll v1.5.7+1
  [da03df04] gdk_pixbuf_jll v2.42.13+0
  [9a68df92] isoband_jll v0.2.3+0
  [a4ae2306] libaom_jll v3.11.0+0
⌅ [0ac62f75] libass_jll v0.15.2+0
  [f638f0a6] libfdk_aac_jll v2.0.4+0
  [b53b4c65] libpng_jll v1.6.50+0
  [075b6546] libsixel_jll v1.10.5+0
  [f27f6e37] libvorbis_jll v1.3.8+0
  [c5f90fcd] libwebp_jll v1.6.0+0
  [1317d2d5] oneTBB_jll v2022.0.0+0
⌅ [1270edf5] x264_jll v2021.5.5+0
⌅ [dfaa095f] x265_jll v3.5.0+0
  [0dad84c5] ArgTools v1.1.2
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  [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
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  [4607b0f0] SuiteSparse
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  [4ec0a83e] Unicode v1.11.0
  [e66e0078] CompilerSupportLibraries_jll v1.3.0+1
  [781609d7] GMP_jll v6.3.0+2
  [deac9b47] LibCURL_jll v8.11.1+1
  [e37daf67] LibGit2_jll v1.9.0+0
  [29816b5a] LibSSH2_jll v1.11.3+1
  [3a97d323] MPFR_jll v4.2.2+0
  [14a3606d] MozillaCACerts_jll v2025.5.20
  [4536629a] OpenBLAS_jll v0.3.29+0
  [05823500] OpenLibm_jll v0.8.5+0
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  [efcefdf7] PCRE2_jll v10.44.0+1
  [bea87d4a] SuiteSparse_jll v7.8.3+2
  [83775a58] Zlib_jll v1.3.1+2
  [8e850b90] libblastrampoline_jll v5.13.1+0
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  [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.
     Testing Running tests...
  testing PlotRNA
    testing Aqua.test_all
┌ Warning: `isbindingresolved(m::Module, var::Symbol)` is deprecated, use `true` instead.
│   caller = walkmodules(f::Aqua.var"#undefined_exports##0#undefined_exports##1"{Vector{Symbol}}, x::Module) at exports.jl:5
└ @ Core ~/.julia/packages/Aqua/zpdNP/src/exports.jl:5
┌ Warning: `isbindingresolved(m::Module, var::Symbol)` is deprecated, use `true` instead.
│   caller = walkmodules(f::Aqua.Piracy.var"#3#4"{Bool, IdSet{Any}, Vector{Method}}, x::Module) at exports.jl:5
└ @ Core ~/.julia/packages/Aqua/zpdNP/src/exports.jl:5
    testing plot_structure
┌ Warning: Can't find java executable, skipping VARNA tests
└ @ Main ~/.julia/packages/PlotRNA/j5Vgx/test/runtests.jl:12
    testing R2R.run_r2r
R2R.run_r2r: Error During Test at /home/pkgeval/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:23
  Test threw exception
  Expression: R2R.run_r2r(msa) isa Tres
  non-zero exit code running r2r to generate out.sto
  Stacktrace:
    [1] error(s::String)
      @ Base ./error.jl:44
    [2] (::PlotRNA.R2R.var"#8#9"{String, Bool, Float64})(output_dir::String)
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:147
    [3] mktempdir(fn::PlotRNA.R2R.var"#8#9"{String, Bool, Float64}, parent::String; prefix::String)
      @ Base.Filesystem ./file.jl:899
    [4] mktempdir (repeats 2 times)
      @ ./file.jl:895 [inlined]
    [5] #6
      @ ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:136 [inlined]
    [6] mktemp(fn::PlotRNA.R2R.var"#6#7"{Bool, Float64, MSA{Char}}, parent::String)
      @ Base.Filesystem ./file.jl:870
    [7] mktemp
      @ ./file.jl:868 [inlined]
    [8] run_r2r(msa::MSA{Char}; GSC_weighted_consensus::Bool, identity_levels::Vector{Float64}, present_levels::Vector{Float64}, max_noncanon::Float64)
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:134
    [9] run_r2r(msa::MSA{Char})
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:113
   [10] macro expansion
      @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:677 [inlined]
   [11] macro expansion
      @ ~/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:23 [inlined]
   [12] macro expansion
      @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined]
   [13] top-level scope
      @ ~/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:20
R2R.run_r2r: Error During Test at /home/pkgeval/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:23
  Test threw exception
  Expression: R2R.run_r2r(msa) isa Tres
  non-zero exit code running r2r to generate out.sto
  Stacktrace:
    [1] error(s::String)
      @ Base ./error.jl:44
    [2] (::PlotRNA.R2R.var"#8#9"{String, Bool, Float64})(output_dir::String)
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:147
    [3] mktempdir(fn::PlotRNA.R2R.var"#8#9"{String, Bool, Float64}, parent::String; prefix::String)
      @ Base.Filesystem ./file.jl:899
    [4] mktempdir (repeats 2 times)
      @ ./file.jl:895 [inlined]
    [5] #6
      @ ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:136 [inlined]
    [6] mktemp(fn::PlotRNA.R2R.var"#6#7"{Bool, Float64, MSA{Char}}, parent::String)
      @ Base.Filesystem ./file.jl:870
    [7] mktemp
      @ ./file.jl:868 [inlined]
    [8] run_r2r(msa::MSA{Char}; GSC_weighted_consensus::Bool, identity_levels::Vector{Float64}, present_levels::Vector{Float64}, max_noncanon::Float64)
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:134
    [9] run_r2r(msa::MSA{Char})
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:113
   [10] macro expansion
      @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:677 [inlined]
   [11] macro expansion
      @ ~/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:23 [inlined]
   [12] macro expansion
      @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined]
   [13] top-level scope
      @ ~/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:20
    testing R2R.plot
R2R.plot: Error During Test at /home/pkgeval/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:31
  Test threw exception
  Expression: R2R.plot(msa) isa Tres
  non-zero exit code running r2r to generate out.sto
  Stacktrace:
    [1] error(s::String)
      @ Base ./error.jl:44
    [2] (::PlotRNA.R2R.var"#8#9"{String, Bool, Float64})(output_dir::String)
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:147
    [3] mktempdir(fn::PlotRNA.R2R.var"#8#9"{String, Bool, Float64}, parent::String; prefix::String)
      @ Base.Filesystem ./file.jl:899
    [4] mktempdir (repeats 2 times)
      @ ./file.jl:895 [inlined]
    [5] #6
      @ ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:136 [inlined]
    [6] mktemp(fn::PlotRNA.R2R.var"#6#7"{Bool, Float64, MSA{Char}}, parent::String)
      @ Base.Filesystem ./file.jl:870
    [7] mktemp
      @ ./file.jl:868 [inlined]
    [8] run_r2r(msa::MSA{Char}; GSC_weighted_consensus::Bool, identity_levels::Vector{Float64}, present_levels::Vector{Float64}, max_noncanon::Float64)
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:134
    [9] run_r2r
      @ ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:113 [inlined]
   [10] plot(msa::MSA{Char}; kwargs::@Kwargs{})
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:109
   [11] plot(msa::MSA{Char})
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:108
   [12] macro expansion
      @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:677 [inlined]
   [13] macro expansion
      @ ~/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:31 [inlined]
   [14] macro expansion
      @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined]
   [15] top-level scope
      @ ~/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:28
R2R.plot: Error During Test at /home/pkgeval/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:31
  Test threw exception
  Expression: R2R.plot(msa) isa Tres
  non-zero exit code running r2r to generate out.sto
  Stacktrace:
    [1] error(s::String)
      @ Base ./error.jl:44
    [2] (::PlotRNA.R2R.var"#8#9"{String, Bool, Float64})(output_dir::String)
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:147
    [3] mktempdir(fn::PlotRNA.R2R.var"#8#9"{String, Bool, Float64}, parent::String; prefix::String)
      @ Base.Filesystem ./file.jl:899
    [4] mktempdir (repeats 2 times)
      @ ./file.jl:895 [inlined]
    [5] #6
      @ ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:136 [inlined]
    [6] mktemp(fn::PlotRNA.R2R.var"#6#7"{Bool, Float64, MSA{Char}}, parent::String)
      @ Base.Filesystem ./file.jl:870
    [7] mktemp
      @ ./file.jl:868 [inlined]
    [8] run_r2r(msa::MSA{Char}; GSC_weighted_consensus::Bool, identity_levels::Vector{Float64}, present_levels::Vector{Float64}, max_noncanon::Float64)
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:134
    [9] run_r2r
      @ ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:113 [inlined]
   [10] plot(msa::MSA{Char}; kwargs::@Kwargs{})
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:109
   [11] plot(msa::MSA{Char})
      @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:108
   [12] macro expansion
      @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:677 [inlined]
   [13] macro expansion
      @ ~/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:31 [inlined]
   [14] macro expansion
      @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined]
   [15] top-level scope
      @ ~/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:28
Precompiling packages...
  13460.6 ms  ✓ UnicodePlots → UnitfulExt
  1 dependency successfully precompiled in 14 seconds. 50 already precompiled.
    testing uniplot
Precompiling packages...
   1224.0 ms  ✓ StructArrays → StructArraysAdaptExt
   1287.8 ms  ✓ Animations
   7073.4 ms  ✓ StableHashTraits
  34729.2 ms  ✓ ImageCore
  39315.2 ms  ✓ Polynomials
  60217.8 ms  ✓ TiffImages
   5562.2 ms  ✓ OpenEXR
   1252.2 ms  ✓ LightXML
  10045.1 ms  ✓ ForwardDiff
  12523.8 ms  ✓ GridLayoutBase
   5515.4 ms  ✓ Distributions → DistributionsTestExt
   5302.2 ms  ✓ SimpleRandom
   4097.1 ms  ✓ ImageBase
   6776.0 ms  ✓ PNGFiles
  10481.3 ms  ✓ JpegTurbo
   9725.4 ms  ✓ Sixel
   8468.3 ms  ✓ WebP
   4889.0 ms  ✓ Polynomials → PolynomialsMakieCoreExt
   3415.3 ms  ✓ Polynomials → PolynomialsChainRulesCoreExt
   3743.4 ms  ✓ Polynomials → PolynomialsFFTWExt
   3848.8 ms  ✓ SimplePolynomials
   4276.4 ms  ✓ ForwardDiff → ForwardDiffStaticArraysExt
   1948.8 ms  ✓ DifferentiationInterface → DifferentiationInterfaceForwardDiffExt
   1933.8 ms  ✓ IntervalArithmetic → IntervalArithmeticForwardDiffExt
   3221.0 ms  ✓ Interpolations → InterpolationsForwardDiffExt
   6311.4 ms  ✓ ImageAxes
   3769.4 ms  ✓ LinearAlgebraX
   4821.5 ms  ✓ NLSolversBase
   3941.5 ms  ✓ ImageMetadata
   7311.3 ms  ✓ LineSearches
   7202.1 ms  ✓ Netpbm
  11774.7 ms  ✓ Optim
   8046.6 ms  ✓ SimpleGraphs
  12045.7 ms  ✓ DelaunayTriangulation
 293153.9 ms  ✓ Makie
Info Given CairoMakie was explicitly requested, output will be shown live 
WARNING: importing deprecated binding Makie.MakieLayout into CairoMakie.
The module `MakieLayout` has been removed and integrated into Makie, so simply replace all usage of `MakieLayout` with `Makie`.
WARNING: importing deprecated binding Makie._alternative_fonts into CairoMakie.
, use ALTERNATIVE_FONTS instead.
WARNING: importing deprecated binding Makie._current_figure into CairoMakie.
, use CURRENT_FIGURE instead.
WARNING: importing deprecated binding Makie._default_font into CairoMakie.
, use DEFAULT_FONT instead.
WARNING: importing deprecated binding Makie.default_palettes into CairoMakie.
, use DEFAULT_PALETTES instead.
WARNING: importing deprecated binding Makie.minimal_default into CairoMakie.
, use MAKIE_DEFAULT_THEME instead.
ERROR: LoadError: FieldError: type Core.TypeName has no field `mt`, available fields: `name`, `module`, `singletonname`, `names`, `atomicfields`, `constfields`, `wrapper`, `Typeofwrapper`, `cache`, `linearcache`, `partial`, `hash`, `max_args`, `n_uninitialized`, `flags`, `cache_entry_count`, `max_methods`, `constprop_heuristic`
Stacktrace:
  [1] getproperty(x::Core.TypeName, f::Symbol)
    @ Base ./Base_compiler.jl:54
  [2] func2string(func::typeof(MakieCore.linesegments))
    @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/recipes.jl:9
  [3] plotkey(::Type{MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}}})
    @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/recipes.jl:21
  [4] plotkey(::MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}})
    @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/recipes.jl:22
  [5] get_attribute(dict::MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}}, key::Symbol, default::Nothing)
    @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/attributes.jl:240
  [6] get_attribute(dict::MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}}, key::Symbol)
    @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/attributes.jl:237
  [7] draw_atomic(scene::Makie.Scene, screen::CairoMakie.Screen{CairoMakie.IMAGE}, primitive::Union{MakieCore.Lines, MakieCore.LineSegments})
    @ CairoMakie ~/.julia/packages/CairoMakie/VqiwS/src/primitives.jl:6
  [8] draw_plot(scene::Makie.Scene, screen::CairoMakie.Screen{CairoMakie.IMAGE}, primitive::MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}})
    @ CairoMakie ~/.julia/packages/CairoMakie/VqiwS/src/infrastructure.jl:131
  [9] cairo_draw(screen::CairoMakie.Screen{CairoMakie.IMAGE}, scene::Makie.Scene)
    @ CairoMakie ~/.julia/packages/CairoMakie/VqiwS/src/infrastructure.jl:51
 [10] colorbuffer(screen::CairoMakie.Screen{CairoMakie.IMAGE})
    @ CairoMakie ~/.julia/packages/CairoMakie/VqiwS/src/screen.jl:307
 [11] colorbuffer(screen::CairoMakie.Screen{CairoMakie.IMAGE}, format::Makie.ImageStorageFormat)
    @ Makie ~/.julia/packages/Makie/RgxaV/src/display.jl:363
 [12] colorbuffer(fig::Makie.FigureAxisPlot, format::Makie.ImageStorageFormat; update::Bool, backend::Module, screen_config::@Kwargs{})
    @ Makie ~/.julia/packages/Makie/RgxaV/src/display.jl:439
 [13] colorbuffer
    @ ~/.julia/packages/Makie/RgxaV/src/display.jl:434 [inlined]
 [14] colorbuffer(fig::Makie.FigureAxisPlot)
    @ Makie ~/.julia/packages/Makie/RgxaV/src/display.jl:434
 [15] top-level scope
    @ ~/.julia/packages/Makie/RgxaV/precompile/shared-precompile.jl:6
 [16] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:306
 [17] top-level scope
    @ ~/.julia/packages/CairoMakie/VqiwS/src/precompiles.jl:11
 [18] macro expansion
    @ ~/.julia/packages/PrecompileTools/Z8SWe/src/workloads.jl:73 [inlined]
 [19] macro expansion
    @ ~/.julia/packages/CairoMakie/VqiwS/src/precompiles.jl:15 [inlined]
 [20] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:306
 [21] top-level scope
    @ ~/.julia/packages/CairoMakie/VqiwS/src/CairoMakie.jl:37
 [22] include(mod::Module, _path::String)
    @ Base ./Base.jl:305
 [23] 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:2991
 [24] top-level scope
    @ stdin:5
 [25] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:2837
 [27] include_string
    @ ./loading.jl:2847 [inlined]
 [28] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:319
 [29] _start()
    @ Base ./client.jl:554
in expression starting at /home/pkgeval/.julia/packages/Makie/RgxaV/precompile/shared-precompile.jl:4
in expression starting at /home/pkgeval/.julia/packages/CairoMakie/VqiwS/src/precompiles.jl:10
in expression starting at /home/pkgeval/.julia/packages/CairoMakie/VqiwS/src/CairoMakie.jl:1
in expression starting at stdin:5
           ✗ CairoMakie
  35 dependencies successfully precompiled in 685 seconds. 280 already precompiled.

PlotRNA: Error During Test at /home/pkgeval/.julia/packages/PlotRNA/j5Vgx/test/runtests.jl:7
  Got exception outside of a @test
  LoadError: The following 1 direct dependency failed to precompile:
  
  CairoMakie 
  
  Failed to precompile CairoMakie [13f3f980-e62b-5c42-98c6-ff1f3baf88f0] to "/home/pkgeval/.julia/compiled/v1.12/CairoMakie/jl_mbcuxu".
  WARNING: importing deprecated binding Makie.MakieLayout into CairoMakie.
  The module `MakieLayout` has been removed and integrated into Makie, so simply replace all usage of `MakieLayout` with `Makie`.
  WARNING: importing deprecated binding Makie._alternative_fonts into CairoMakie.
  , use ALTERNATIVE_FONTS instead.
  WARNING: importing deprecated binding Makie._current_figure into CairoMakie.
  , use CURRENT_FIGURE instead.
  WARNING: importing deprecated binding Makie._default_font into CairoMakie.
  , use DEFAULT_FONT instead.
  WARNING: importing deprecated binding Makie.default_palettes into CairoMakie.
  , use DEFAULT_PALETTES instead.
  WARNING: importing deprecated binding Makie.minimal_default into CairoMakie.
  , use MAKIE_DEFAULT_THEME instead.
  ERROR: LoadError: FieldError: type Core.TypeName has no field `mt`, available fields: `name`, `module`, `singletonname`, `names`, `atomicfields`, `constfields`, `wrapper`, `Typeofwrapper`, `cache`, `linearcache`, `partial`, `hash`, `max_args`, `n_uninitialized`, `flags`, `cache_entry_count`, `max_methods`, `constprop_heuristic`
  Stacktrace:
    [1] getproperty(x::Core.TypeName, f::Symbol)
      @ Base ./Base_compiler.jl:54
    [2] func2string(func::typeof(MakieCore.linesegments))
      @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/recipes.jl:9
    [3] plotkey(::Type{MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}}})
      @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/recipes.jl:21
    [4] plotkey(::MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}})
      @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/recipes.jl:22
    [5] get_attribute(dict::MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}}, key::Symbol, default::Nothing)
      @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/attributes.jl:240
    [6] get_attribute(dict::MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}}, key::Symbol)
      @ MakieCore ~/.julia/packages/MakieCore/tAY2U/src/attributes.jl:237
    [7] draw_atomic(scene::Makie.Scene, screen::CairoMakie.Screen{CairoMakie.IMAGE}, primitive::Union{MakieCore.Lines, MakieCore.LineSegments})
      @ CairoMakie ~/.julia/packages/CairoMakie/VqiwS/src/primitives.jl:6
    [8] draw_plot(scene::Makie.Scene, screen::CairoMakie.Screen{CairoMakie.IMAGE}, primitive::MakieCore.LineSegments{Tuple{Vector{GeometryBasics.Point{2, Float32}}}})
      @ CairoMakie ~/.julia/packages/CairoMakie/VqiwS/src/infrastructure.jl:131
    [9] cairo_draw(screen::CairoMakie.Screen{CairoMakie.IMAGE}, scene::Makie.Scene)
      @ CairoMakie ~/.julia/packages/CairoMakie/VqiwS/src/infrastructure.jl:51
   [10] colorbuffer(screen::CairoMakie.Screen{CairoMakie.IMAGE})
      @ CairoMakie ~/.julia/packages/CairoMakie/VqiwS/src/screen.jl:307
   [11] colorbuffer(screen::CairoMakie.Screen{CairoMakie.IMAGE}, format::Makie.ImageStorageFormat)
      @ Makie ~/.julia/packages/Makie/RgxaV/src/display.jl:363
   [12] colorbuffer(fig::Makie.FigureAxisPlot, format::Makie.ImageStorageFormat; update::Bool, backend::Module, screen_config::@Kwargs{})
      @ Makie ~/.julia/packages/Makie/RgxaV/src/display.jl:439
   [13] colorbuffer
      @ ~/.julia/packages/Makie/RgxaV/src/display.jl:434 [inlined]
   [14] colorbuffer(fig::Makie.FigureAxisPlot)
      @ Makie ~/.julia/packages/Makie/RgxaV/src/display.jl:434
   [15] top-level scope
      @ ~/.julia/packages/Makie/RgxaV/precompile/shared-precompile.jl:6
   [16] include(mapexpr::Function, mod::Module, _path::String)
      @ Base ./Base.jl:306
   [17] top-level scope
      @ ~/.julia/packages/CairoMakie/VqiwS/src/precompiles.jl:11
   [18] macro expansion
      @ ~/.julia/packages/PrecompileTools/Z8SWe/src/workloads.jl:73 [inlined]
   [19] macro expansion
      @ ~/.julia/packages/CairoMakie/VqiwS/src/precompiles.jl:15 [inlined]
   [20] include(mapexpr::Function, mod::Module, _path::String)
      @ Base ./Base.jl:306
   [21] top-level scope
      @ ~/.julia/packages/CairoMakie/VqiwS/src/CairoMakie.jl:37
   [22] include(mod::Module, _path::String)
      @ Base ./Base.jl:305
   [23] 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:2991
   [24] top-level scope
      @ stdin:5
   [25] eval(m::Module, e::Any)
      @ Core ./boot.jl:489
   [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
      @ Base ./loading.jl:2837
   [27] include_string
      @ ./loading.jl:2847 [inlined]
   [28] exec_options(opts::Base.JLOptions)
      @ Base ./client.jl:319
   [29] _start()
      @ Base ./client.jl:554
  in expression starting at /home/pkgeval/.julia/packages/Makie/RgxaV/precompile/shared-precompile.jl:4
  in expression starting at /home/pkgeval/.julia/packages/CairoMakie/VqiwS/src/precompiles.jl:10
  in expression starting at /home/pkgeval/.julia/packages/CairoMakie/VqiwS/src/CairoMakie.jl:1
  in expression starting at stdin:
  in expression starting at /home/pkgeval/.julia/packages/PlotRNA/j5Vgx/test/plot_structure_makie.jl:1
Test Summary:    | Pass  Error  Total      Time
PlotRNA          |   48      5     53  18m26.8s
  Aqua.test_all  |    8             8     50.1s
  plot_structure |   39            39     19.1s
  R2R.run_r2r    |           2      2      4.3s
  R2R.plot       |           2      2      0.1s
  uniplot        |    1             1      4.5s
RNG of the outermost testset: Random.Xoshiro(0x821e28d8da42a815, 0x2440c056c3dbea7d, 0x7a7370952608420d, 0x36dee80d4107e2b0, 0xd339f523ab36e49d)
ERROR: LoadError: Some tests did not pass: 48 passed, 0 failed, 5 errored, 0 broken.
in expression starting at /home/pkgeval/.julia/packages/PlotRNA/j5Vgx/test/runtests.jl:7

Testing failed after 1121.4s

ERROR: LoadError: Package PlotRNA errored during testing
Stacktrace:
  [1] pkgerror(msg::String)
    @ Pkg.Types /opt/julia/share/julia/stdlib/v1.12/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/v1.12/Pkg/src/Operations.jl:2458
  [3] test
    @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2313 [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/v1.12/Pkg/src/API.jl:511
  [5] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:164
  [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:152
  [7] test
    @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:152 [inlined]
  [8] #test#81
    @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:151 [inlined]
  [9] top-level scope
    @ /PkgEval.jl/scripts/evaluate.jl:219
 [10] include(mod::Module, _path::String)
    @ Base ./Base.jl:305
 [11] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:321
 [12] _start()
    @ Base ./client.jl:554
in expression starting at /PkgEval.jl/scripts/evaluate.jl:210

PkgEval failed after 2072.58s: networking-related issues were detected