Package evaluation to test PlotRNA on Julia 1.14.0-DEV.1299 (6d6224db99*) started at 2025-11-27T19:57:00.876 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.66s ################################################################################ # Installation # Installing PlotRNA... Resolving package versions... Installed JpegTurbo_jll ─────── v3.1.3+0 Installed libaom_jll ────────── v3.13.1+0 Installed HarfBuzz_jll ──────── v8.5.1+0 Installed Bzip2_jll ─────────── v1.0.9+0 Installed libass_jll ────────── v0.17.4+0 Installed Libuuid_jll ───────── v2.41.2+0 Installed MacroTools ────────── v0.5.16 Installed DataStructures ────── v0.18.22 Installed Libmount_jll ──────── v2.41.2+0 Installed Libtiff_jll ───────── v4.7.2+0 Installed x264_jll ──────────── v10164.0.1+0 Installed Cairo_jll ─────────── v1.18.5+0 Installed Xorg_libXau_jll ───── v1.0.13+0 Installed OrderedCollections ── v1.8.1 Installed Cairo ─────────────── v1.1.1 Installed TranscodingStreams ── v0.11.3 Installed Xorg_libX11_jll ───── v1.8.12+0 Installed Compat ────────────── v4.18.1 Installed Graphite2_jll ─────── v1.3.15+0 Installed SIMD ──────────────── v3.7.2 Installed TensorCore ────────── v0.1.1 Installed Statistics ────────── v1.11.1 Installed PrecompileTools ───── v1.3.3 Installed UnsafePointers ────── v1.0.0 Installed PCRE_jll ──────────── v8.45.0+0 Installed Libffi_jll ────────── v3.4.7+0 Installed CEnum ─────────────── v0.5.0 Installed ViennaRNA_jll ─────── v2.6.4+0 Installed Pixman_jll ────────── v0.44.2+0 Installed Colors ────────────── v0.13.1 Installed R2R_jll ───────────── v1.0.6+0 Installed FileIO ────────────── v1.17.1 Installed Fontconfig_jll ────── v2.17.1+0 Installed Expat_jll ─────────── v2.7.3+0 Installed ColorTypes ────────── v0.12.1 Installed GettextRuntime_jll ── v0.22.4+0 Installed libpng_jll ────────── v1.6.51+0 Installed FriBidi_jll ───────── v1.0.17+0 Installed NaNMath ───────────── v1.1.3 Installed ColorVectorSpace ──── v0.11.0 Installed Glib_jll ──────────── v2.86.0+0 Installed Graphics ──────────── v1.1.3 Installed Requires ──────────── v1.3.1 Installed OpenBLAS32_jll ────── v0.3.29+0 Installed ViennaRNA ─────────── v0.11.2 Installed Opus_jll ──────────── v1.5.2+0 Installed LAME_jll ──────────── v3.100.3+0 Installed Xorg_libXrender_jll ─ v0.9.12+0 Installed Librsvg_jll ───────── v2.54.7+0 Installed libvorbis_jll ─────── v1.3.8+0 Installed libfdk_aac_jll ────── v2.0.4+0 Installed Ogg_jll ───────────── v1.3.6+0 Installed Xorg_libxcb_jll ───── v1.17.1+0 Installed Rsvg ──────────────── v1.1.0 Installed XML2_jll ──────────── v2.13.9+0 Installed Unitful ───────────── v1.25.1 Installed GSL_jll ───────────── v2.7.2+0 Installed FFMPEG_jll ────────── v8.0.0+0 Installed Xorg_libXdmcp_jll ─── v1.1.6+0 Installed Media ─────────────── v0.5.0 Installed LZO_jll ───────────── v2.10.3+0 Installed Reexport ──────────── v1.2.2 Installed FixedPointNumbers ─── v0.8.5 Installed FFMPEG ────────────── v0.4.5 Installed Preferences ───────── v1.5.0 Installed FreeType2_jll ─────── v2.13.4+0 Installed JLLWrappers ───────── v1.7.1 Installed gdk_pixbuf_jll ────── v2.42.13+0 Installed LERC_jll ──────────── v4.0.1+0 Installed Libiconv_jll ──────── v1.18.0+0 Installed Juno ──────────────── v0.8.4 Installed LLVMOpenMP_jll ────── v18.1.8+0 Installed BioStockholm ──────── v0.2.1 Installed LaTeXStrings ──────── v1.4.0 Installed XZ_jll ────────────── v5.8.1+0 Installed Automa ────────────── v1.1.0 Installed x265_jll ──────────── v4.1.0+0 Installed Pango_jll ─────────── v1.57.0+0 Installed Xorg_libXext_jll ──── v1.3.7+0 Installed NLopt_jll ─────────── v2.10.0+0 Installed Xorg_xtrans_jll ───── v1.6.0+0 Installed PlotRNA ───────────── v0.3.2 Installed ColorSchemes ──────── v3.31.0 Installed Luxor ─────────────── v3.8.0 Installing 49 artifacts Installed artifact Xorg_libXau 36.6 KiB Installed artifact LAME 292.5 KiB Installed artifact Expat 283.3 KiB Installed artifact libpng 328.9 KiB Installed artifact Xorg_libXext 699.9 KiB Installed artifact Pixman 372.2 KiB Installed artifact Xorg_libxcb 2.1 MiB Installed artifact libass 427.8 KiB Installed artifact Libtiff 2.3 MiB Installed artifact Libiconv 1.9 MiB Installed artifact GSL 4.4 MiB Installed artifact XML2 2.5 MiB Installed artifact Pango 2.0 MiB Installed artifact x264 2.1 MiB Installed artifact LLVMOpenMP 661.6 KiB Installed artifact Graphite2 120.2 KiB Installed artifact libfdk_aac 2.8 MiB Installed artifact x265 1.4 MiB Installed artifact Xorg_libXrender 435.9 KiB Installed artifact Bzip2 503.5 KiB Installed artifact PCRE 1.1 MiB Installed artifact Libuuid 3.7 MiB Installed artifact JpegTurbo 1.4 MiB Installed artifact NLopt 322.7 KiB Installed artifact Cairo 2.2 MiB Installed artifact R2R 862.9 KiB Installed artifact Librsvg 9.3 MiB Installed artifact Fontconfig 984.8 KiB Installed artifact FriBidi 78.9 KiB Installed artifact gdk_pixbuf 943.6 KiB Installed artifact OpenBLAS32 10.0 MiB Installed artifact Libmount 6.5 MiB Installed artifact XZ 1.5 MiB Installed artifact libvorbis 271.0 KiB Installed artifact Xorg_libX11 13.9 MiB Installed artifact LERC 272.9 KiB Installed artifact GettextRuntime 543.0 KiB Installed artifact LZO 208.9 KiB Installed artifact HarfBuzz 1.7 MiB Installed artifact FreeType2 1.5 MiB Installed artifact Xorg_xtrans 48.2 KiB Installed artifact Libffi 44.2 KiB Installed artifact Ogg 250.3 KiB Installed artifact Opus 925.5 KiB Installed artifact Xorg_libXdmcp 67.7 KiB Installed artifact Glib 7.7 MiB Installed artifact libaom 6.4 MiB Installed artifact FFMPEG 11.7 MiB Installed artifact ViennaRNA 96.6 MiB Updating `~/.julia/environments/v1.14/Project.toml` [eab79ae3] + PlotRNA v0.3.2 Updating `~/.julia/environments/v1.14/Manifest.toml` [67c07d97] + Automa v1.1.0 [eeb925a3] + BioStockholm v0.2.1 [fa961155] + CEnum v0.5.0 [159f3aea] + Cairo v1.1.1 [35d6a980] + ColorSchemes v3.31.0 [3da002f7] + ColorTypes v0.12.1 [c3611d14] + ColorVectorSpace v0.11.0 [5ae59095] + Colors v0.13.1 [34da2185] + Compat v4.18.1 ⌅ [864edb3b] + DataStructures v0.18.22 [c87230d0] + FFMPEG v0.4.5 [5789e2e9] + FileIO v1.17.1 [53c48c17] + FixedPointNumbers v0.8.5 [a2bd30eb] + Graphics v1.1.3 [692b3bcd] + JLLWrappers v1.7.1 [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 v1.3.3 [21216c6a] + Preferences v1.5.0 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [c4c386cf] + Rsvg v1.1.0 [fdea26ae] + SIMD v3.7.2 [10745b16] + Statistics v1.11.1 [62fd8b95] + TensorCore v0.1.1 [3bb67fe8] + TranscodingStreams v0.11.3 [1986cc42] + Unitful v1.25.1 [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 v2.7.3+0 [b22a6f82] + FFMPEG_jll v8.0.0+0 [a3f928ae] + Fontconfig_jll v2.17.1+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 v2.86.0+0 [3b182d85] + Graphite2_jll v1.3.15+0 [2e76f6c2] + HarfBuzz_jll v8.5.1+0 [aacddb02] + JpegTurbo_jll v3.1.3+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 v2.41.2+0 [925c91fb] + Librsvg_jll v2.54.7+0 [89763e89] + Libtiff_jll v4.7.2+0 [38a345b3] + Libuuid_jll v2.41.2+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 v1.57.0+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 v2.13.9+0 [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 [da03df04] + gdk_pixbuf_jll v2.42.13+0 [a4ae2306] + libaom_jll v3.13.1+0 [0ac62f75] + libass_jll v0.17.4+0 [f638f0a6] + libfdk_aac_jll v2.0.4+0 [b53b4c65] + libpng_jll v1.6.51+0 [f27f6e37] + libvorbis_jll v1.3.8+0 [1270edf5] + x264_jll v10164.0.1+0 [dfaa095f] + x265_jll v4.1.0+0 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [f43a241f] + Downloads v1.7.0 [7b1f6079] + FileWatching v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v1.0.0 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.13.0 [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 v1.0.0 [9e88b42a] + Serialization v1.11.0 [f489334b] + StyledStrings v1.13.0 [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 v8.17.0+0 [e37daf67] + LibGit2_jll v1.9.1+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [3a97d323] + MPFR_jll v4.2.2+0 [14a3606d] + MozillaCACerts_jll v2025.11.4 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.4+0 [efcefdf7] + PCRE2_jll v10.47.0+0 [83775a58] + Zlib_jll v1.3.1+2 [3161d3a3] + Zstd_jll v1.5.7+1 [8e850b90] + libblastrampoline_jll v5.15.0+0 [8e850ede] + nghttp2_jll v1.68.0+1 [3f19e933] + p7zip_jll v17.7.0+0 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 23.17s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv. 3585.6 ms ✓ TestEnv 1 dependency successfully precompiled in 4 seconds. 27 already precompiled. 1 dependency had output during precompilation: ┌ TestEnv │ WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv. └ ┌ Error: Failed to use TestEnv.jl; test dependencies will not be precompiled │ exception = │ UndefVarError: `project_rel_path` not defined in `TestEnv` │ Suggestion: this global was defined as `Pkg.Operations.project_rel_path` but not assigned a value. │ Stacktrace: │ [1] get_test_dir(ctx::Pkg.Types.Context, pkgspec::PackageSpec) │ @ TestEnv ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:75 │ [2] test_dir_has_project_file │ @ ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:52 [inlined] │ [3] maybe_gen_project_override! │ @ ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:83 [inlined] │ [4] activate(pkg::String; allow_reresolve::Bool) │ @ TestEnv ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/activate_set.jl:12 │ [5] activate(pkg::String) │ @ TestEnv ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/activate_set.jl:9 │ [6] top-level scope │ @ /PkgEval.jl/scripts/precompile.jl:24 │ [7] include(mod::Module, _path::String) │ @ Base ./Base.jl:309 │ [8] exec_options(opts::Base.JLOptions) │ @ Base ./client.jl:344 │ [9] _start() │ @ Base ./client.jl:577 └ @ Main /PkgEval.jl/scripts/precompile.jl:26 Precompiling package dependencies... Precompiling packages... 3632.6 ms ✓ MacroTools 741.9 ms ✓ Reexport 1019.6 ms ✓ Statistics 788.6 ms ✓ TensorCore 770.1 ms ✓ UnsafePointers 974.4 ms ✓ Requires 1037.3 ms ✓ OrderedCollections 673.8 ms ✓ CEnum 974.2 ms ✓ TranscodingStreams 679.4 ms ✓ LaTeXStrings 823.3 ms ✓ NaNMath 24338.0 ms ✓ Unitful 855.9 ms ✓ Compat 860.4 ms ✓ Preferences 1352.7 ms ✓ Media 2716.1 ms ✓ FixedPointNumbers 6896.8 ms ✓ FileIO 1673.7 ms ✓ Unitful → PrintfExt 654.5 ms ✓ Compat → CompatLinearAlgebraExt 889.3 ms ✓ JLLWrappers 873.1 ms ✓ PrecompileTools 3729.9 ms ✓ Juno 1903.1 ms ✓ ColorTypes 3014.6 ms ✓ DataStructures 1339.7 ms ✓ Libmount_jll 1392.2 ms ✓ GSL_jll 1198.6 ms ✓ Libffi_jll 1186.7 ms ✓ libfdk_aac_jll 1164.7 ms ✓ Opus_jll 1180.3 ms ✓ LZO_jll 1207.4 ms ✓ Graphite2_jll 1118.0 ms ✓ Libuuid_jll 1273.0 ms ✓ x265_jll 1188.0 ms ✓ x264_jll 1220.2 ms ✓ FriBidi_jll 1406.8 ms ✓ libpng_jll 1181.7 ms ✓ OpenBLAS32_jll 1159.5 ms ✓ Bzip2_jll 1140.0 ms ✓ LERC_jll 1165.7 ms ✓ LLVMOpenMP_jll 1096.4 ms ✓ Libiconv_jll 1072.4 ms ✓ Xorg_libXau_jll 1110.4 ms ✓ libaom_jll 1085.3 ms ✓ Xorg_libXdmcp_jll 1226.9 ms ✓ XZ_jll 1146.0 ms ✓ Ogg_jll 1156.9 ms ✓ NLopt_jll 1121.3 ms ✓ LAME_jll 1105.3 ms ✓ Expat_jll 1194.1 ms ✓ Xorg_xtrans_jll 1114.9 ms ✓ JpegTurbo_jll 1065.2 ms ✓ PCRE_jll 11068.9 ms ✓ SIMD 991.5 ms ✓ ColorTypes → StyledStringsExt 2548.7 ms ✓ ColorVectorSpace 5342.6 ms ✓ Colors 1039.1 ms ✓ FreeType2_jll 1038.7 ms ✓ Pixman_jll 1083.6 ms ✓ XML2_jll 1052.1 ms ✓ GettextRuntime_jll 1138.2 ms ✓ Xorg_libxcb_jll 1007.4 ms ✓ libvorbis_jll 1079.2 ms ✓ R2R_jll 1099.1 ms ✓ Libtiff_jll 1373.4 ms ✓ ViennaRNA_jll 14080.1 ms ✓ Automa 1088.9 ms ✓ Graphics 6437.4 ms ✓ ColorSchemes 1137.4 ms ✓ Fontconfig_jll 1040.0 ms ✓ Glib_jll 1007.6 ms ✓ Xorg_libX11_jll 5978.6 ms ✓ ViennaRNA 10855.7 ms ✓ BioStockholm 962.6 ms ✓ Xorg_libXrender_jll 955.1 ms ✓ Xorg_libXext_jll 988.9 ms ✓ gdk_pixbuf_jll 997.8 ms ✓ Cairo_jll 1003.0 ms ✓ HarfBuzz_jll 1008.7 ms ✓ libass_jll 1018.6 ms ✓ Pango_jll 1075.4 ms ✓ FFMPEG_jll 1011.8 ms ✓ Librsvg_jll 1631.0 ms ✓ Cairo 720.9 ms ✓ FFMPEG 1092.9 ms ✓ Rsvg 11050.3 ms ✓ Luxor 9625.6 ms ✓ PlotRNA 87 dependencies successfully precompiled in 200 seconds. 35 already precompiled. Precompilation completed after 203.32s ################################################################################ # 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. Installed MKL_jll ───────────────────── v2025.2.0+0 Installed MosaicViews ───────────────── v0.3.4 Installed ImageIO ───────────────────── v0.6.9 Installed Formatting ────────────────── v0.4.3 Installed Extents ───────────────────── v0.1.6 Installed PolygonOps ────────────────── v0.1.2 Installed AbstractLattices ──────────── v0.3.1 Installed Optim ─────────────────────── v1.13.3 Installed Giflib_jll ────────────────── v5.2.3+0 Installed OpenSpecFun_jll ───────────── v0.5.6+0 Installed EnumX ─────────────────────── v1.0.5 Installed NLSolversBase ─────────────── v7.10.0 Installed QuadGK ────────────────────── v2.11.2 Installed WoodburyMatrices ──────────── v1.0.0 Installed Tables ────────────────────── v1.12.1 Installed SimplePolynomials ─────────── v0.2.18 Installed Missings ──────────────────── v1.2.0 Installed TableTraits ───────────────── v1.0.1 Installed MappedArrays ──────────────── v0.4.2 Installed Imath_jll ─────────────────── v3.1.11+0 Installed Crayons ───────────────────── v4.1.1 Installed SortingAlgorithms ─────────── v1.2.2 Installed Aqua ──────────────────────── v0.6.7 Installed Grisu ─────────────────────── v1.0.2 Installed Polynomials ───────────────── v4.0.21 Installed RangeArrays ───────────────── v0.3.2 Installed CRlibm ────────────────────── v1.0.2 Installed ADTypes ───────────────────── v1.19.0 Installed Inflate ───────────────────── v0.1.5 Installed ColorBrewer ───────────────── v0.4.2 Installed DiffResults ───────────────── v1.1.0 Installed FillArrays ────────────────── v1.15.0 Installed AbstractTrees ─────────────── v0.4.5 Installed OpenEXR_jll ───────────────── v3.2.4+0 Installed Packing ───────────────────── v0.5.1 Installed oneTBB_jll ────────────────── v2022.0.0+1 Installed LazyModules ───────────────── v0.3.1 Installed MathTeXEngine ─────────────── v0.5.7 Installed StatsBase ─────────────────── v0.34.8 Installed MakieCore ─────────────────── v0.6.9 Installed UnicodeFun ────────────────── v0.4.1 Installed IntelOpenMP_jll ───────────── v2025.2.0+0 Installed Observables ───────────────── v0.5.5 Installed DataValueInterfaces ───────── v1.0.0 Installed ArrayInterface ────────────── v7.22.0 Installed CommonSubexpressions ──────── v0.3.1 Installed isoband_jll ───────────────── v0.2.3+0 Installed IrrationalConstants ───────── v0.2.6 Installed IntegerMathUtils ──────────── v0.1.3 Installed RoundingEmulator ──────────── v0.2.1 Installed StructUtils ───────────────── v2.6.0 Installed Contour ───────────────────── v0.6.3 Installed SimpleTraits ──────────────── v0.9.5 Installed ColorVectorSpace ──────────── v0.10.0 Installed StableRNGs ────────────────── v1.0.4 Installed ImageMetadata ─────────────── v0.9.10 Installed libsixel_jll ──────────────── v1.10.5+0 Installed Interpolations ────────────── v0.16.2 Installed CairoMakie ────────────────── v0.10.12 Installed Scratch ───────────────────── v1.3.0 Installed libwebp_jll ───────────────── v1.6.0+0 Installed Setfield ──────────────────── v1.1.2 Installed CRlibm_jll ────────────────── v1.0.1+0 Installed PikaParser ────────────────── v0.6.1 Installed PDMats ────────────────────── v0.11.36 Installed ImageCore ─────────────────── v0.10.5 Installed ShaderAbstractions ────────── v0.4.1 Installed WeakKeyIdDicts ────────────── v0.1.0 Installed AxisArrays ────────────────── v0.4.8 Installed PNGFiles ──────────────────── v0.4.4 Installed DocStringExtensions ───────── v0.9.5 Installed JpegTurbo ─────────────────── v0.1.6 Installed ForwardDiff ───────────────── v1.3.0 Installed Rmath_jll ─────────────────── v0.5.1+0 Installed OpenBLASConsistentFPCSR_jll ─ v0.3.29+0 Installed FreeType ──────────────────── v4.1.1 Installed Multisets ─────────────────── v0.4.5 Installed DifferentiationInterface ──── v0.7.12 Installed StableHashTraits ──────────── v1.3.4 Installed LightXML ──────────────────── v0.9.3 Installed PkgVersion ────────────────── v0.3.3 Installed StackViews ────────────────── v0.1.2 Installed RelocatableFolders ────────── v1.0.1 Installed KernelDensity ─────────────── v0.6.10 Installed AliasTables ───────────────── v1.1.3 Installed Combinatorics ─────────────── v1.0.3 Installed IteratorInterfaceExtensions ─ v1.0.0 Installed RecipesBase ───────────────── v1.3.4 Installed DataAPI ───────────────────── v1.16.0 Installed Netpbm ────────────────────── v1.1.1 Installed ImageAxes ─────────────────── v0.6.12 Installed Libglvnd_jll ──────────────── v1.7.1+1 Installed StaticArraysCore ──────────── v1.4.4 Installed Mods ──────────────────────── v2.2.6 Installed Colors ────────────────────── v0.12.11 Installed StaticArrays ──────────────── v1.9.15 Installed AbstractFFTs ──────────────── v1.5.0 Installed ColorTypes ────────────────── v0.11.5 Installed AxisAlgorithms ────────────── v1.1.0 Installed QOI ───────────────────────── v1.0.2 Installed DiffRules ─────────────────── v1.15.1 Installed LogExpFunctions ───────────── v0.3.29 Installed BaseDirs ──────────────────── v1.3.2 Installed SimplePartitions ──────────── v0.3.3 Installed JSON ──────────────────────── v1.3.0 Installed FreeTypeAbstraction ───────── v0.10.8 Installed Parsers ───────────────────── v2.8.3 Installed Rmath ─────────────────────── v0.9.0 Installed FiniteDiff ────────────────── v2.29.0 Installed GeoFormatTypes ────────────── v0.4.5 Installed StatsFuns ─────────────────── v1.5.2 Installed Distributions ─────────────── v0.25.122 Installed GridLayoutBase ────────────── v0.9.2 Installed OpenEXR ───────────────────── v0.3.3 Installed SignedDistanceFields ──────── v0.4.0 Installed Primes ────────────────────── v0.5.7 Installed GeometryBasics ────────────── v0.4.11 Installed ExactPredicates ───────────── v2.2.9 Installed StructTypes ───────────────── v1.11.0 Installed IterTools ─────────────────── v1.10.0 Installed PaddedViews ───────────────── v0.5.12 Installed TiffImages ────────────────── v0.11.6 Installed Adapt ─────────────────────── v4.4.0 Installed TriplotBase ───────────────── v0.1.0 Installed HypergeometricFunctions ───── v0.3.28 Installed ConstructionBase ──────────── v1.6.0 Installed MarchingCubes ─────────────── v0.1.11 Installed Sixel ─────────────────────── v0.1.5 Installed EarCut_jll ────────────────── v2.2.4+0 Installed PlotUtils ─────────────────── v1.4.4 Installed LinearAlgebraX ────────────── v0.2.10 Installed RingLists ─────────────────── v0.2.9 Installed PositiveFactorizations ────── v0.2.4 Installed ImageBase ─────────────────── v0.1.7 Installed StatsAPI ──────────────────── v1.7.1 Installed StructArrays ──────────────── v0.6.21 Installed UnicodePlots ──────────────── v3.8.1 Installed ProgressMeter ─────────────── v1.11.0 Installed WebP ──────────────────────── v0.1.3 Installed OffsetArrays ──────────────── v1.17.0 Installed ChainRulesCore ────────────── v1.26.0 Installed DelaunayTriangulation ─────── v0.8.12 Installed Ratios ────────────────────── v0.4.5 Installed TupleTools ────────────────── v1.6.0 Installed Animations ────────────────── v0.4.2 Installed Isoband ───────────────────── v0.1.1 Installed PtrArrays ─────────────────── v1.3.0 Installed Showoff ───────────────────── v1.0.3 Installed IntervalArithmetic ────────── v1.0.2 Installed IntervalSets ──────────────── v0.7.13 Installed SpecialFunctions ──────────── v2.6.1 Installed FFTW_jll ──────────────────── v3.3.11+0 Installed FFTW ──────────────────────── v1.10.0 Installed Permutations ──────────────── v0.4.23 Installed LineSearches ──────────────── v7.5.1 Installed IndirectArrays ────────────── v1.0.0 Installed GeoInterface ──────────────── v1.4.1 Installed SimpleRandom ──────────────── v0.3.2 Installed SimpleGraphs ──────────────── v0.8.7 Installed Makie ─────────────────────── v0.19.12 Installing 13 artifacts Installed artifact isoband 25.7 KiB Installed artifact Rmath 121.9 KiB Installed artifact CRlibm 169.5 KiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact libsixel 177.3 KiB Installed artifact Giflib 154.6 KiB Installed artifact FFTW 2.2 MiB Installed artifact Imath 182.8 KiB Installed artifact libwebp 2.6 MiB Installed artifact OpenEXR 1.9 MiB Installed artifact Libglvnd 833.5 KiB Installed artifact EarCut 80.5 KiB Installed artifact OpenBLASConsistentFPCSR 9.9 MiB Updating `/tmp/jl_RYq7mH/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_RYq7mH/Manifest.toml` [47edcb42] + ADTypes v1.19.0 [621f4979] + AbstractFFTs v1.5.0 [398f06c4] + AbstractLattices v0.3.1 [1520ce14] + AbstractTrees v0.4.5 [79e6a3ab] + Adapt v4.4.0 [66dad0bd] + AliasTables v1.1.3 [27a7e980] + Animations v0.4.2 ⌅ [4c88cf16] + Aqua v0.6.7 [4fba245c] + ArrayInterface v7.22.0 [13072b0f] + AxisAlgorithms v1.1.0 [39de3d68] + AxisArrays v0.4.8 [18cc8868] + BaseDirs v1.3.2 [96374032] + CRlibm v1.0.2 ⌅ [13f3f980] + CairoMakie v0.10.12 [d360d2e6] + ChainRulesCore v1.26.0 [a2cac450] + ColorBrewer v0.4.2 ⌅ [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 v0.7.12 [31c24e10] + Distributions v0.25.122 [ffbed154] + DocStringExtensions v0.9.5 [4e289a0a] + EnumX v1.0.5 [429591f6] + ExactPredicates v2.2.9 [411431e0] + Extents v0.1.6 [7a1cc6ca] + FFTW v1.10.0 [1a297f60] + FillArrays v1.15.0 [6a86dc24] + FiniteDiff v2.29.0 [59287772] + Formatting v0.4.3 [f6369f11] + ForwardDiff v1.3.0 [b38be410] + FreeType v4.1.1 [663a7486] + FreeTypeAbstraction v0.10.8 [68eda718] + GeoFormatTypes v0.4.5 ⌃ [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 v0.16.2 [d1acc4aa] + IntervalArithmetic v1.0.2 [8197267c] + IntervalSets v0.7.13 [92d709cd] + IrrationalConstants v0.2.6 [f1662d9f] + Isoband v0.1.1 [c8e1da08] + IterTools v1.10.0 [82899510] + IteratorInterfaceExtensions v1.0.0 [682c06a0] + JSON v1.3.0 [b835a17e] + JpegTurbo v0.1.6 [5ab0869b] + KernelDensity v0.6.10 [8cdb02fc] + LazyModules v0.3.1 [9c8b4983] + LightXML v0.9.3 [d3d80556] + LineSearches v7.5.1 [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 v1.13.3 [90014a1f] + PDMats v0.11.36 [f57f5aa1] + PNGFiles v0.4.4 [19eb6ba3] + Packing v0.5.1 [5432bcbf] + PaddedViews v0.5.12 [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 v1.4.4 [647866c9] + PolygonOps v0.1.2 ⌃ [f27b6e38] + Polynomials v4.0.21 [85a6dd25] + PositiveFactorizations v0.2.4 [27ebfcd6] + Primes v0.5.7 [92933f4c] + ProgressMeter v1.11.0 [43287f4e] + PtrArrays v1.3.0 [4b34888f] + QOI v1.0.2 [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 v0.9.0 [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 v0.8.7 [ec83eff0] + SimplePartitions v0.3.3 [cc47b68c] + SimplePolynomials v0.2.18 [a6525b86] + SimpleRandom v0.3.2 [699a6c99] + SimpleTraits v0.9.5 [45858cf5] + Sixel v0.1.5 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.6.1 ⌅ [c5dd0088] + StableHashTraits v1.3.4 [860ef19b] + StableRNGs v1.0.4 [cae243ae] + StackViews v0.1.2 [90137ffa] + StaticArrays v1.9.15 [1e83bf80] + StaticArraysCore v1.4.4 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.8 [4c63d2b9] + StatsFuns v1.5.2 ⌅ [09ab397b] + StructArrays v0.6.21 [856f2bd8] + StructTypes v1.11.0 [ec057cc2] + StructUtils v2.6.0 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [731e570b] + TiffImages v0.11.6 [981d1d27] + TriplotBase v0.1.0 [9d95972d] + TupleTools v1.6.0 [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 v2025.2.0+0 [7e76a0d4] + Libglvnd_jll v1.7.1+1 [856f044c] + MKL_jll v2025.2.0+0 [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+1 [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 v1.13.0 [4607b0f0] + SuiteSparse [bea87d4a] + SuiteSparse_jll v7.10.1+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` Test Successfully re-resolved Status `/tmp/jl_RYq7mH/Project.toml` ⌅ [4c88cf16] Aqua v0.6.7 [eeb925a3] BioStockholm v0.2.1 ⌅ [13f3f980] CairoMakie v0.10.12 [35d6a980] ColorSchemes v3.31.0 ⌅ [ae8d54c2] Luxor v3.8.0 [eab79ae3] PlotRNA v0.3.2 [aea7be01] PrecompileTools v1.3.3 [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_RYq7mH/Manifest.toml` [47edcb42] ADTypes v1.19.0 [621f4979] AbstractFFTs v1.5.0 [398f06c4] AbstractLattices v0.3.1 [1520ce14] AbstractTrees v0.4.5 [79e6a3ab] Adapt v4.4.0 [66dad0bd] AliasTables v1.1.3 [27a7e980] Animations v0.4.2 ⌅ [4c88cf16] Aqua v0.6.7 [4fba245c] ArrayInterface v7.22.0 [67c07d97] Automa v1.1.0 [13072b0f] AxisAlgorithms v1.1.0 [39de3d68] AxisArrays v0.4.8 [18cc8868] BaseDirs v1.3.2 [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 v1.26.0 [a2cac450] ColorBrewer v0.4.2 [35d6a980] ColorSchemes v3.31.0 ⌅ [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 v4.18.1 [187b0558] ConstructionBase v1.6.0 [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 ⌅ [927a84f5] DelaunayTriangulation v0.8.12 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 [a0c0ee7d] DifferentiationInterface v0.7.12 [31c24e10] Distributions v0.25.122 [ffbed154] DocStringExtensions v0.9.5 [4e289a0a] EnumX v1.0.5 [429591f6] ExactPredicates v2.2.9 [411431e0] Extents v0.1.6 [c87230d0] FFMPEG v0.4.5 [7a1cc6ca] FFTW v1.10.0 [5789e2e9] FileIO v1.17.1 [1a297f60] FillArrays v1.15.0 [6a86dc24] FiniteDiff v2.29.0 [53c48c17] FixedPointNumbers v0.8.5 [59287772] Formatting v0.4.3 [f6369f11] ForwardDiff v1.3.0 [b38be410] FreeType v4.1.1 [663a7486] FreeTypeAbstraction v0.10.8 [68eda718] GeoFormatTypes v0.4.5 ⌃ [cf35fbd7] GeoInterface v1.4.1 ⌅ [5c1252a2] GeometryBasics v0.4.11 [a2bd30eb] Graphics v1.1.3 ⌅ [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 v0.16.2 [d1acc4aa] IntervalArithmetic v1.0.2 [8197267c] IntervalSets v0.7.13 [92d709cd] IrrationalConstants v0.2.6 [f1662d9f] Isoband v0.1.1 [c8e1da08] IterTools v1.10.0 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.1 [682c06a0] JSON v1.3.0 [b835a17e] JpegTurbo v0.1.6 [e5e0dc1b] Juno v0.8.4 [5ab0869b] KernelDensity v0.6.10 [b964fa9f] LaTeXStrings v1.4.0 [8cdb02fc] LazyModules v0.3.1 [9c8b4983] LightXML v0.9.3 [d3d80556] LineSearches v7.5.1 [9b3f67b0] LinearAlgebraX v0.2.10 [2ab3a3ac] LogExpFunctions v0.3.29 ⌅ [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 v1.13.3 [bac558e1] OrderedCollections v1.8.1 [90014a1f] PDMats v0.11.36 [f57f5aa1] PNGFiles v0.4.4 [19eb6ba3] Packing v0.5.1 [5432bcbf] PaddedViews v0.5.12 [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 v1.4.4 [647866c9] PolygonOps v0.1.2 ⌃ [f27b6e38] Polynomials v4.0.21 [85a6dd25] PositiveFactorizations v0.2.4 [aea7be01] PrecompileTools v1.3.3 [21216c6a] Preferences v1.5.0 [27ebfcd6] Primes v0.5.7 [92933f4c] ProgressMeter v1.11.0 [43287f4e] PtrArrays v1.3.0 [4b34888f] QOI v1.0.2 [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 v0.9.0 [5eaf0fd0] RoundingEmulator v0.2.1 [c4c386cf] Rsvg v1.1.0 [fdea26ae] SIMD v3.7.2 [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 v0.8.7 [ec83eff0] SimplePartitions v0.3.3 [cc47b68c] SimplePolynomials v0.2.18 [a6525b86] SimpleRandom v0.3.2 [699a6c99] SimpleTraits v0.9.5 [45858cf5] Sixel v0.1.5 [a2af1166] SortingAlgorithms v1.2.2 [276daf66] SpecialFunctions v2.6.1 ⌅ [c5dd0088] StableHashTraits v1.3.4 [860ef19b] StableRNGs v1.0.4 [cae243ae] StackViews v0.1.2 [90137ffa] StaticArrays v1.9.15 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.1 [2913bbd2] StatsBase v0.34.8 [4c63d2b9] StatsFuns v1.5.2 ⌅ [09ab397b] StructArrays v0.6.21 [856f2bd8] StructTypes v1.11.0 [ec057cc2] StructUtils v2.6.0 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [62fd8b95] TensorCore v0.1.1 [731e570b] TiffImages v0.11.6 [3bb67fe8] TranscodingStreams v0.11.3 [981d1d27] TriplotBase v0.1.0 [9d95972d] TupleTools v1.6.0 [1cfade01] UnicodeFun v0.4.1 [b8865327] UnicodePlots v3.8.1 [1986cc42] Unitful v1.25.1 [e17b2a0c] UnsafePointers v1.0.0 [05a721ad] ViennaRNA v0.11.2 [ecbed89c] WeakKeyIdDicts v0.1.0 [e3aaa7dc] WebP v0.1.3 [efce3f68] WoodburyMatrices v1.0.0 [6e34b625] Bzip2_jll v1.0.9+0 [4e9b3aee] CRlibm_jll v1.0.1+0 [83423d85] Cairo_jll v1.18.5+0 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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 [91d4177d] Opus_jll v1.5.2+0 [2f80f16e] PCRE_jll v8.45.0+0 [36c8627f] Pango_jll v1.57.0+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 v2.13.9+0 [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 [da03df04] gdk_pixbuf_jll v2.42.13+0 [9a68df92] isoband_jll v0.2.3+0 [a4ae2306] libaom_jll v3.13.1+0 [0ac62f75] libass_jll v0.17.4+0 [f638f0a6] libfdk_aac_jll v2.0.4+0 [b53b4c65] libpng_jll v1.6.51+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+1 [1270edf5] x264_jll v10164.0.1+0 [dfaa095f] x265_jll v4.1.0+0 [0dad84c5] ArgTools v1.1.2 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [8bf52ea8] CRC32c 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 v1.0.0 [76f85450] LibGit2 v1.11.0 [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 [ca575930] NetworkOptions v1.3.0 [44cfe95a] Pkg v1.13.0 [de0858da] Printf v1.11.0 [9abbd945] Profile v1.11.0 [3fa0cd96] REPL v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v1.0.0 [9e88b42a] Serialization v1.11.0 [1a1011a3] SharedArrays v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.13.0 [f489334b] StyledStrings v1.13.0 [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 [781609d7] GMP_jll v6.3.0+2 [deac9b47] LibCURL_jll v8.17.0+0 [e37daf67] LibGit2_jll v1.9.1+0 [29816b5a] LibSSH2_jll v1.11.3+1 [3a97d323] MPFR_jll v4.2.2+0 [14a3606d] MozillaCACerts_jll v2025.11.4 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.4+0 [efcefdf7] PCRE2_jll v10.47.0+0 [bea87d4a] SuiteSparse_jll v7.10.1+0 [83775a58] Zlib_jll v1.3.1+2 [3161d3a3] Zstd_jll v1.5.7+1 [8e850b90] libblastrampoline_jll v5.15.0+0 [8e850ede] nghttp2_jll v1.68.0+1 [3f19e933] p7zip_jll v17.7.0+0 Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. 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:936 ┌ [4] mktempdir │ @ ./file.jl:932 [inlined] ╰──── repeated 2 times [6] #6 @ ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:136 [inlined] [7] mktemp(fn::PlotRNA.R2R.var"#6#7"{Bool, Float64, MSA{Char}}, parent::String) @ Base.Filesystem ./file.jl:907 [8] mktemp @ ./file.jl:905 [inlined] [9] 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 [10] run_r2r(msa::MSA{Char}) @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:113 [11] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:750 [inlined] [12] macro expansion @ ~/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:23 [inlined] [13] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:1961 [inlined] [14] 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:936 ┌ [4] mktempdir │ @ ./file.jl:932 [inlined] ╰──── repeated 2 times [6] #6 @ ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:136 [inlined] [7] mktemp(fn::PlotRNA.R2R.var"#6#7"{Bool, Float64, MSA{Char}}, parent::String) @ Base.Filesystem ./file.jl:907 [8] mktemp @ ./file.jl:905 [inlined] [9] 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 [10] run_r2r(msa::MSA{Char}) @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:113 [11] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:750 [inlined] [12] macro expansion @ ~/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:23 [inlined] [13] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:1961 [inlined] [14] 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:936 ┌ [4] mktempdir │ @ ./file.jl:932 [inlined] ╰──── repeated 2 times [6] #6 @ ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:136 [inlined] [7] mktemp(fn::PlotRNA.R2R.var"#6#7"{Bool, Float64, MSA{Char}}, parent::String) @ Base.Filesystem ./file.jl:907 [8] mktemp @ ./file.jl:905 [inlined] [9] 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 [10] run_r2r @ ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:113 [inlined] [11] plot(msa::MSA{Char}; kwargs::@Kwargs{}) @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:109 [12] plot(msa::MSA{Char}) @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:108 [13] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:750 [inlined] [14] macro expansion @ ~/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:31 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:1961 [inlined] [16] 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:936 ┌ [4] mktempdir │ @ ./file.jl:932 [inlined] ╰──── repeated 2 times [6] #6 @ ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:136 [inlined] [7] mktemp(fn::PlotRNA.R2R.var"#6#7"{Bool, Float64, MSA{Char}}, parent::String) @ Base.Filesystem ./file.jl:907 [8] mktemp @ ./file.jl:905 [inlined] [9] 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 [10] run_r2r @ ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:113 [inlined] [11] plot(msa::MSA{Char}; kwargs::@Kwargs{}) @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:109 [12] plot(msa::MSA{Char}) @ PlotRNA.R2R ~/.julia/packages/PlotRNA/j5Vgx/src/r2r.jl:108 [13] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:750 [inlined] [14] macro expansion @ ~/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:31 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:1961 [inlined] [16] top-level scope @ ~/.julia/packages/PlotRNA/j5Vgx/test/r2r.jl:28 testing uniplot ┌ 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  Downloading artifact: IntelOpenMP  Downloading artifact: oneTBB ERROR: LoadError: ArgumentError: Cannot load (`using/import`) module SHA into module CairoMakie in package CairoMakie because package CairoMakie does not have SHA in its dependencies: - Note that the following manifests in the load path were resolved with a potentially  different DEV version of the current version, which may be the cause of the error.  Try to re-resolve them in the current version, or consider deleting them if that fails:  /tmp/jl_RYq7mH/Manifest.toml - You may have a partially installed environment. Try `Pkg.instantiate()`  to ensure all packages in the environment are installed. - Or, if you have CairoMakie checked out for development and have  added SHA as a dependency but haven't updated your primary  environment's manifest file, try `Pkg.resolve()`. - Otherwise you may need to report an issue with CairoMakie Stacktrace:  [1] macro expansion  @ ./loading.jl:2497 [inlined]  [2] macro expansion  @ ./lock.jl:376 [inlined]  [3] __require(into::Module, mod::Symbol)  @ Base ./loading.jl:2477  [4] require  @ ./loading.jl:2453 [inlined]  [5] eval_import_path  @ ./module.jl:36 [inlined]  [6] _eval_import(imported::Bool, to::Module, from::Nothing, paths::Expr)  @ Base ./module.jl:111  [7] top-level scope  @ ~/.julia/packages/CairoMakie/VqiwS/src/CairoMakie.jl:5  [8] include(mod::Module, _path::String)  @ Base ./Base.jl:309  [9] 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:3157  [10] top-level scope  @ stdin:5  [11] eval(m::Module, e::Any)  @ Core ./boot.jl:489  [12] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:3003  [13] include_string  @ ./loading.jl:3013 [inlined]  [14] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:342  [15] _start()  @ Base ./client.jl:577 in expression starting at /home/pkgeval/.julia/packages/CairoMakie/VqiwS/src/CairoMakie.jl:1 in expression starting at stdin:5 3 dependencies had output during precompilation: ┌ MKL_jll │ Downloading artifact: IntelOpenMP │ Downloading artifact: oneTBB └ ┌ 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 └ ┌ CairoMakie │ [Output was shown above] └ 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 package failed to precompile: CairoMakie Failed to precompile CairoMakie [13f3f980-e62b-5c42-98c6-ff1f3baf88f0] to "/home/pkgeval/.julia/compiled/v1.14/CairoMakie/jl_Bhp1kV" (ProcessExited(1)). 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 24m43.6s Aqua.test_all | 8 8 29.8s plot_structure | 39 39 8.0s R2R.run_r2r | 2 2 4.2s R2R.plot | 2 2 0.1s uniplot | 1 1 4.3s RNG of the outermost testset: Random.Xoshiro(0xbaeccbc03f1179c1, 0xf3c1a5f84cd7b789, 0xbf4dbf6a20791960, 0xb7fe1ab1bbaabd50, 0x5aa93597e9a14c6c) 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 1495.3s ERROR: LoadError: Package PlotRNA errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Types.jl:68 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2946 [3] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2795 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:572 [5] kwcall(::@NamedTuple{julia_args::Cmd, io::IOContext{IO}}, ::typeof(Pkg.API.test), ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:548 [6] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:172 [7] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:161 [8] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [9] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [inlined] [10] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:159 [11] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [12] include(mod::Module, _path::String) @ Base ./Base.jl:309 [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [14] _start() @ Base ./client.jl:577 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 1776.14s: package fails to precompile