Package evaluation of BiochemicalVisualization on Julia 1.13.0-DEV.1055 (100ef9d641*) started at 2025-08-29T00:28:40.049 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 10.53s ################################################################################ # Installation # Installing BiochemicalVisualization... Resolving package versions... Installed HarfBuzz_jll ──────────────── v8.5.1+0 Installed ChunkCodecLibZstd ─────────── v0.2.1 Installed Bzip2_jll ─────────────────── v1.0.9+0 Installed Libuuid_jll ───────────────── v2.41.1+0 Installed Extents ───────────────────── v0.1.6 Installed InlineStrings ─────────────── v1.4.5 Installed RDKitMinimalLib ───────────── v1.2.0 Installed RDKit_jll ─────────────────── v2022.9.5+0 Installed Calculus ──────────────────── v0.5.2 Installed Cairo_jll ─────────────────── v1.18.5+0 Installed OrderedCollections ────────── v1.8.1 Installed Graphite2_jll ─────────────── v1.3.15+0 Installed SentinelArrays ────────────── v1.4.8 Installed PreallocationTools ────────── v0.4.33 Installed Fontconfig_jll ────────────── v2.17.1+0 Installed UnitfulAtomic ─────────────── v1.0.0 Installed NaNMath ───────────────────── v1.1.3 Installed Graphics ──────────────────── v1.1.3 Installed libinchi_jll ──────────────── v1.6.0+0 Installed ScopedValues ──────────────── v1.5.0 Installed PhysicalConstants ─────────── v0.2.4 Installed FileIO ────────────────────── v1.17.0 Installed MsgPack ───────────────────── v1.2.1 Installed Tables ────────────────────── v1.12.1 Installed Xorg_libxcb_jll ───────────── v1.17.1+0 Installed EnumX ─────────────────────── v1.0.5 Installed Jieko ─────────────────────── v0.2.1 Installed InverseFunctions ──────────── v0.1.17 Installed LZO_jll ───────────────────── v2.10.3+0 Installed Reexport ──────────────────── v1.2.2 Installed Mendeleev ─────────────────── v1.0.1 Installed Preferences ───────────────── v1.5.0 Installed Missings ──────────────────── v1.2.0 Installed LLVMOpenMP_jll ────────────── v18.1.8+0 Installed Hyperscript ───────────────── v0.0.5 Installed LaTeXStrings ──────────────── v1.4.0 Installed TableTraits ───────────────── v1.0.1 Installed boost_jll ─────────────────── v1.76.0+1 Installed SortingAlgorithms ─────────── v1.2.2 Installed Crayons ───────────────────── v4.1.1 Installed UnPack ────────────────────── v1.0.2 Installed Format ────────────────────── v1.3.7 Installed Inflate ───────────────────── v0.1.5 Installed ADTypes ───────────────────── v1.17.0 Installed MacroTools ────────────────── v0.5.16 Installed RecursiveArrayTools ───────── v3.37.1 Installed DataStructures ────────────── v0.19.1 Installed URIs ──────────────────────── v1.6.1 Installed AbstractTrees ─────────────── v0.4.5 Installed FillArrays ────────────────── v1.13.0 Installed Quaternions ───────────────── v0.7.6 Installed MakieCore ─────────────────── v0.9.5 Installed SparseMatrixColorings ─────── v0.4.21 Installed DelimitedFiles ────────────── v1.9.1 Installed ArnoldiMethod ─────────────── v0.4.0 Installed CodecZlib ─────────────────── v0.7.8 Installed Cairo ─────────────────────── v1.1.1 Installed Xorg_libXau_jll ───────────── v1.0.13+0 Installed DataValueInterfaces ───────── v1.0.0 Installed ConsoleProgressMonitor ────── v0.1.2 Installed Observables ───────────────── v0.5.5 Installed ExprTools ─────────────────── v0.1.10 Installed ArrayInterface ────────────── v7.19.0 Installed LoggingExtras ─────────────── v1.1.0 Installed GPUArraysCore ─────────────── v0.2.0 Installed Libffi_jll ────────────────── v3.4.7+0 Installed Pixman_jll ────────────────── v0.44.2+0 Installed Expat_jll ─────────────────── v2.7.1+0 Installed coordgenlibs_jll ──────────── v3.0.2+0 Installed RealDot ───────────────────── v0.1.0 Installed TerminalLoggers ───────────── v0.1.7 Installed SparseConnectivityTracer ──── v1.0.1 Installed libpng_jll ────────────────── v1.6.50+0 Installed BitFlags ──────────────────── v0.1.9 Installed SimpleTraits ──────────────── v0.9.5 Installed L_BFGS_B_jll ──────────────── v3.0.1+0 Installed LeftChildRightSiblingTrees ── v0.2.1 Installed Roots ─────────────────────── v2.2.10 Installed HTTP ──────────────────────── v1.10.17 Installed SimpleBufferStream ────────── v1.2.0 Installed Scratch ───────────────────── v1.3.0 Installed MetaGraphs ────────────────── v0.8.1 Installed Setfield ──────────────────── v1.1.2 Installed PooledArrays ──────────────── v1.4.3 Installed OptimizationBase ──────────── v2.10.0 Installed WorkerUtilities ───────────── v1.6.1 Installed PDMats ────────────────────── v0.11.35 Installed DocStringExtensions ───────── v0.9.5 Installed TableOperations ───────────── v1.2.0 Installed LBFGSB ────────────────────── v0.4.1 Installed Moshi ─────────────────────── v0.3.7 Installed BiochemicalVisualization ──── v0.3.2 Installed CompositionsBase ──────────── v0.1.2 Installed CommonSolve ───────────────── v0.2.4 Installed DifferentiationInterface ──── v0.7.7 Installed RelocatableFolders ────────── v1.0.1 Installed ConcurrentUtilities ───────── v2.5.0 Installed HashArrayMappedTries ──────── v0.2.0 Installed IteratorInterfaceExtensions ─ v1.0.0 Installed FunctionWrappersWrappers ──── v0.1.3 Installed BiochemicalAlgorithms ─────── v0.5.5 Installed RecipesBase ───────────────── v1.3.4 Installed DataAPI ───────────────────── v1.16.0 Installed InvertedIndices ───────────── v1.3.1 Installed SciMLStructures ───────────── v1.7.0 Installed SciMLOperators ────────────── v1.6.0 Installed MolecularGraph ────────────── v0.19.1 Installed Colors ────────────────────── v0.13.1 Installed StaticArraysCore ──────────── v1.4.3 Installed StaticArrays ──────────────── v1.9.14 Installed ThreadPools ───────────────── v2.1.1 Installed WidgetsBase ───────────────── v0.1.4 Installed Glib_jll ──────────────────── v2.84.3+0 Installed Requires ──────────────────── v1.3.1 Installed ColorTypes ────────────────── v0.12.1 Installed StringManipulation ────────── v0.4.1 Installed FunctionWrappers ──────────── v1.1.3 Installed FastClosures ──────────────── v0.3.2 Installed AutoHashEquals ────────────── v2.2.0 Installed Parsers ───────────────────── v2.8.3 Installed JSON ──────────────────────── v0.21.4 Installed SciMLBase ─────────────────── v2.113.0 Installed Bonito ────────────────────── v4.1.2 Installed PrettyTables ──────────────── v2.4.0 Installed BioGenerics ───────────────── v0.1.5 Installed Xorg_libXdmcp_jll ─────────── v1.1.6+0 Installed WeakRefStrings ────────────── v1.4.2 Installed TestItems ─────────────────── v1.0.0 Installed Unitful ───────────────────── v1.24.0 Installed JLLWrappers ───────────────── v1.7.1 Installed Deno_jll ──────────────────── v1.33.4+0 Installed DataFrames ────────────────── v1.7.1 Installed StructTypes ───────────────── v1.11.0 Installed ChunkCodecCore ────────────── v0.5.3 Installed Pango_jll ─────────────────── v1.56.3+0 Installed GeometryBasics ────────────── v0.5.10 Installed IterTools ─────────────────── v1.10.0 Installed Graphs ────────────────────── v1.13.1 Installed Measurements ──────────────── v2.14.0 Installed Xorg_xtrans_jll ───────────── v1.6.0+0 Installed Accessors ─────────────────── v0.1.42 Installed FilePathsBase ─────────────── v0.9.24 Installed Adapt ─────────────────────── v4.3.0 Installed CSV ───────────────────────── v0.10.15 Installed JLD2 ──────────────────────── v0.6.0 Installed ConstructionBase ──────────── v1.6.0 Installed RuntimeGeneratedFunctions ─── v0.5.15 Installed Libmount_jll ──────────────── v2.41.1+0 Installed CellListMap ───────────────── v0.9.11 Installed ChunkSplitters ────────────── v3.1.2 Installed BioStructures ─────────────── v4.6.0 Installed ExceptionUnwrapping ───────── v0.1.11 Installed SymbolicIndexingInterface ─── v0.3.43 Installed TranscodingStreams ────────── v0.11.3 Installed Optimization ──────────────── v4.5.0 Installed Xorg_libX11_jll ───────────── v1.8.12+0 Installed Compat ────────────────────── v4.18.0 Installed EarCut_jll ────────────────── v2.2.4+0 Installed ProgressLogging ───────────── v0.1.5 Installed Statistics ────────────────── v1.11.1 Installed StringEncodings ───────────── v0.3.7 Installed ExproniconLite ────────────── v0.10.14 Installed PrecompileTools ───────────── v1.3.2 Installed ProgressMeter ─────────────── v1.11.0 Installed GettextRuntime_jll ────────── v0.22.4+0 Installed OpenSSL ───────────────────── v1.5.0 Installed BioSymbols ────────────────── v5.2.0 Installed MbedTLS ───────────────────── v1.1.9 Installed FriBidi_jll ───────────────── v1.0.17+0 Installed JSON3 ─────────────────────── v1.14.3 Installed YAML ──────────────────────── v0.4.14 Installed ChunkCodecLibZlib ─────────── v0.2.1 Installed Xorg_libXrender_jll ───────── v0.9.12+0 Installed Parameters ────────────────── v0.12.3 Installed FixedPointNumbers ─────────── v0.8.5 Installed IntervalSets ──────────────── v0.7.11 Installed FreeType2_jll ─────────────── v2.13.4+0 Installed Libiconv_jll ──────────────── v1.18.0+0 Installed Rotations ─────────────────── v1.7.1 Installed MbedTLS_jll ───────────────── v2.28.6+2 Installed Xorg_libXext_jll ──────────── v1.3.7+0 Installing 34 artifacts Installed artifact Xorg_xtrans 48.2 KiB Installed artifact Graphite2 120.2 KiB Installed artifact Pixman 372.2 KiB Installed artifact Pango 1.1 MiB Installed artifact Cairo 2.2 MiB Installed artifact MbedTLS 2.1 MiB Installed artifact Libiconv 1.9 MiB Installed artifact HarfBuzz 1.7 MiB Installed artifact FriBidi 78.9 KiB Installed artifact Xorg_libXdmcp 67.7 KiB Installed artifact Xorg_libXrender 435.9 KiB Installed artifact EarCut 80.5 KiB Installed artifact Xorg_libXext 699.9 KiB Installed artifact Xorg_libxcb 2.1 MiB Installed artifact libinchi 933.4 KiB Installed artifact Glib 7.7 MiB Installed artifact Xorg_libXau 36.6 KiB Installed artifact Libffi 44.2 KiB Installed artifact LZO 208.9 KiB Installed artifact FreeType2 1.5 MiB Installed artifact LLVMOpenMP 661.6 KiB Installed artifact L_BFGS_B 45.2 KiB Installed artifact coordgenlibs 303.6 KiB Installed artifact libpng 328.4 KiB Installed artifact GettextRuntime 543.0 KiB Installed artifact Bzip2 503.5 KiB Installed artifact Fontconfig 984.8 KiB Installed artifact Expat 274.7 KiB Installed artifact Libuuid 3.6 MiB Installed artifact Libmount 6.5 MiB Installed artifact Xorg_libX11 13.9 MiB Installed artifact Deno 38.5 MiB Installed artifact boost 22.1 MiB Installed artifact RDKit 56.2 MiB Updating `~/.julia/environments/v1.13/Project.toml` [00dfb448] + BiochemicalVisualization v0.3.2 Updating `~/.julia/environments/v1.13/Manifest.toml` [47edcb42] + ADTypes v1.17.0 [1520ce14] + AbstractTrees v0.4.5 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.3.0 [ec485272] + ArnoldiMethod v0.4.0 [4fba245c] + ArrayInterface v7.19.0 [15f4f7f2] + AutoHashEquals v2.2.0 [47718e42] + BioGenerics v0.1.5 [de9282ab] + BioStructures v4.6.0 [3c28c6f8] + BioSymbols v5.2.0 [9d651bdf] + BiochemicalAlgorithms v0.5.5 [00dfb448] + BiochemicalVisualization v0.3.2 [d1d4a3ce] + BitFlags v0.1.9 [824d6782] + Bonito v4.1.2 [336ed68f] + CSV v0.10.15 [159f3aea] + Cairo v1.1.1 [49dc2e85] + Calculus v0.5.2 [69e1c6dd] + CellListMap v0.9.11 ⌅ [0b6fb165] + ChunkCodecCore v0.5.3 ⌅ [4c0bbee4] + ChunkCodecLibZlib v0.2.1 ⌅ [55437552] + ChunkCodecLibZstd v0.2.1 [ae650224] + ChunkSplitters v3.1.2 [944b1d66] + CodecZlib v0.7.8 [3da002f7] + ColorTypes v0.12.1 [5ae59095] + Colors v0.13.1 [38540f10] + CommonSolve v0.2.4 [34da2185] + Compat v4.18.0 [a33af91c] + CompositionsBase v0.1.2 [f0e56b4a] + ConcurrentUtilities v2.5.0 [88cd18e8] + ConsoleProgressMonitor v0.1.2 [187b0558] + ConstructionBase v1.6.0 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.7.1 [864edb3b] + DataStructures v0.19.1 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [a0c0ee7d] + DifferentiationInterface v0.7.7 [ffbed154] + DocStringExtensions v0.9.5 [4e289a0a] + EnumX v1.0.5 [460bff9d] + ExceptionUnwrapping v0.1.11 [e2ba6199] + ExprTools v0.1.10 [55351af7] + ExproniconLite v0.10.14 [411431e0] + Extents v0.1.6 [9aa1b823] + FastClosures v0.3.2 [5789e2e9] + FileIO v1.17.0 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.13.0 [53c48c17] + FixedPointNumbers v0.8.5 [1fa38f19] + Format v1.3.7 [069b7b12] + FunctionWrappers v1.1.3 [77dc65aa] + FunctionWrappersWrappers v0.1.3 [46192b85] + GPUArraysCore v0.2.0 [5c1252a2] + GeometryBasics v0.5.10 [a2bd30eb] + Graphics v1.1.3 [86223c79] + Graphs v1.13.1 [cd3eb016] + HTTP v1.10.17 [076d061b] + HashArrayMappedTries v0.2.0 [47d2ed2b] + Hyperscript v0.0.5 [d25df0c9] + Inflate v0.1.5 [842dd82b] + InlineStrings v1.4.5 [8197267c] + IntervalSets v0.7.11 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 [c8e1da08] + IterTools v1.10.0 [82899510] + IteratorInterfaceExtensions v1.0.0 [033835bb] + JLD2 v0.6.0 [692b3bcd] + JLLWrappers v1.7.1 [682c06a0] + JSON v0.21.4 [0f8b85d8] + JSON3 v1.14.3 [ae98c720] + Jieko v0.2.1 [5be7bae1] + LBFGSB v0.4.1 [b964fa9f] + LaTeXStrings v1.4.0 [1d6d02ad] + LeftChildRightSiblingTrees v0.2.1 [e6f89c97] + LoggingExtras v1.1.0 [1914dd2f] + MacroTools v0.5.16 ⌅ [20f20a25] + MakieCore v0.9.5 [739be429] + MbedTLS v1.1.9 [eff96d63] + Measurements v2.14.0 [c116f080] + Mendeleev v1.0.1 [626554b9] + MetaGraphs v0.8.1 [e1d29d7a] + Missings v1.2.0 ⌅ [6c89ec66] + MolecularGraph v0.19.1 [2e0e35c7] + Moshi v0.3.7 [99f44e22] + MsgPack v1.2.1 [77ba4419] + NaNMath v1.1.3 [510215fc] + Observables v0.5.5 [4d8831e6] + OpenSSL v1.5.0 [7f7a1694] + Optimization v4.5.0 [bca83a33] + OptimizationBase v2.10.0 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.35 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.8.3 [5ad8b20f] + PhysicalConstants v0.2.4 [2dfb63ee] + PooledArrays v1.4.3 [d236fae5] + PreallocationTools v0.4.33 [aea7be01] + PrecompileTools v1.3.2 [21216c6a] + Preferences v1.5.0 ⌅ [08abe8d2] + PrettyTables v2.4.0 [33c8b6b6] + ProgressLogging v0.1.5 [92933f4c] + ProgressMeter v1.11.0 [94ee1d12] + Quaternions v0.7.6 [44044271] + RDKitMinimalLib v1.2.0 [c1ae055f] + RealDot v0.1.0 [3cdcf5f2] + RecipesBase v1.3.4 [731186ca] + RecursiveArrayTools v3.37.1 [189a3867] + Reexport v1.2.2 [05181044] + RelocatableFolders v1.0.1 [ae029012] + Requires v1.3.1 [f2b01f46] + Roots v2.2.10 [6038ab10] + Rotations v1.7.1 [7e49a35a] + RuntimeGeneratedFunctions v0.5.15 [0bca4576] + SciMLBase v2.113.0 [c0aeaf25] + SciMLOperators v1.6.0 [53ae85a6] + SciMLStructures v1.7.0 [7e506255] + ScopedValues v1.5.0 [6c6a2e73] + Scratch v1.3.0 [91c51154] + SentinelArrays v1.4.8 [efcf1570] + Setfield v1.1.2 [777ac1f9] + SimpleBufferStream v1.2.0 [699a6c99] + SimpleTraits v0.9.5 [a2af1166] + SortingAlgorithms v1.2.2 [9f842d2f] + SparseConnectivityTracer v1.0.1 [0a514795] + SparseMatrixColorings v0.4.21 [90137ffa] + StaticArrays v1.9.14 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [69024149] + StringEncodings v0.3.7 [892a3eda] + StringManipulation v0.4.1 [856f2bd8] + StructTypes v1.11.0 [2efcf032] + SymbolicIndexingInterface v0.3.43 [ab02a1b2] + TableOperations v1.2.0 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [5d786b92] + TerminalLoggers v0.1.7 [1c621080] + TestItems v1.0.0 [b189fb0b] + ThreadPools v2.1.1 [3bb67fe8] + TranscodingStreams v0.11.3 [5c2747f8] + URIs v1.6.1 [3a884ed6] + UnPack v1.0.2 [1986cc42] + Unitful v1.24.0 [a7773ee8] + UnitfulAtomic v1.0.0 [ea10d353] + WeakRefStrings v1.4.2 [eead4739] + WidgetsBase v0.1.4 [76eceee3] + WorkerUtilities v1.6.1 [ddb6d928] + YAML v0.4.14 [6e34b625] + Bzip2_jll v1.0.9+0 [83423d85] + Cairo_jll v1.18.5+0 ⌅ [04572ae6] + Deno_jll v1.33.4+0 [5ae413db] + EarCut_jll v2.2.4+0 [2e619515] + Expat_jll v2.7.1+0 [a3f928ae] + Fontconfig_jll v2.17.1+0 [d7e528f0] + FreeType2_jll v2.13.4+0 [559328eb] + FriBidi_jll v1.0.17+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 [1d63c593] + LLVMOpenMP_jll v18.1.8+0 [dd4b983a] + LZO_jll v2.10.3+0 [81d17ec3] + L_BFGS_B_jll v3.0.1+0 [e9f186c6] + Libffi_jll v3.4.7+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [4b2f31a3] + Libmount_jll v2.41.1+0 [38a345b3] + Libuuid_jll v2.41.1+0 [c8ffd9c3] + MbedTLS_jll v2.28.6+2 [36c8627f] + Pango_jll v1.56.3+0 ⌅ [30392449] + Pixman_jll v0.44.2+0 [03d1d220] + RDKit_jll v2022.9.5+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 ⌅ [28df3c45] + boost_jll v1.76.0+1 [f6050b86] + coordgenlibs_jll v3.0.2+0 [172afb32] + libinchi_jll v1.6.0+0 [b53b4c65] + libpng_jll v1.6.50+0 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [f43a241f] + Downloads v1.7.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [b27032c2] + LibCURL v0.6.4 [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 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.13.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.15.0+1 [e37daf67] + LibGit2_jll v1.9.1+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.8.12 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.2+0 [efcefdf7] + PCRE2_jll v10.46.0+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 v5.13.1+0 [8e850ede] + nghttp2_jll v1.66.0+0 [3f19e933] + p7zip_jll v17.6.0+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 36.35s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 4467.2 ms ✓ TestEnv 1 dependency successfully precompiled in 5 seconds. 27 already precompiled. Precompiling package dependencies... Precompilation completed after 1084.74s ################################################################################ # Testing # Testing BiochemicalVisualization Status `/tmp/jl_7xshhd/Project.toml` [4c88cf16] Aqua v0.8.14 [9d651bdf] BiochemicalAlgorithms v0.5.5 [00dfb448] BiochemicalVisualization v0.3.2 [824d6782] Bonito v4.1.2 [5ae59095] Colors v0.13.1 [5c1252a2] GeometryBasics v0.5.10 [99f44e22] MsgPack v1.2.1 [10745b16] Statistics v1.11.1 [f8b46487] TestItemRunner v1.1.0 [37e2e46d] LinearAlgebra v1.13.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_7xshhd/Manifest.toml` [47edcb42] ADTypes v1.17.0 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.3.0 [4c88cf16] Aqua v0.8.14 [ec485272] ArnoldiMethod v0.4.0 [4fba245c] ArrayInterface v7.19.0 [15f4f7f2] AutoHashEquals v2.2.0 [47718e42] BioGenerics v0.1.5 [de9282ab] BioStructures v4.6.0 [3c28c6f8] BioSymbols v5.2.0 [9d651bdf] BiochemicalAlgorithms v0.5.5 [00dfb448] BiochemicalVisualization v0.3.2 [d1d4a3ce] BitFlags v0.1.9 [824d6782] Bonito v4.1.2 [336ed68f] CSV v0.10.15 [159f3aea] Cairo v1.1.1 [49dc2e85] Calculus v0.5.2 [69e1c6dd] CellListMap v0.9.11 ⌅ [0b6fb165] ChunkCodecCore v0.5.3 ⌅ [4c0bbee4] ChunkCodecLibZlib v0.2.1 ⌅ [55437552] ChunkCodecLibZstd v0.2.1 [ae650224] ChunkSplitters v3.1.2 [944b1d66] CodecZlib v0.7.8 [3da002f7] ColorTypes v0.12.1 [5ae59095] Colors v0.13.1 [38540f10] CommonSolve v0.2.4 [34da2185] Compat v4.18.0 [a33af91c] CompositionsBase v0.1.2 [f0e56b4a] ConcurrentUtilities v2.5.0 [88cd18e8] ConsoleProgressMonitor v0.1.2 [187b0558] ConstructionBase v1.6.0 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.7.1 [864edb3b] DataStructures v0.19.1 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [a0c0ee7d] DifferentiationInterface v0.7.7 [ffbed154] DocStringExtensions v0.9.5 [4e289a0a] EnumX v1.0.5 [460bff9d] ExceptionUnwrapping v0.1.11 [e2ba6199] ExprTools v0.1.10 [55351af7] ExproniconLite v0.10.14 [411431e0] Extents v0.1.6 [9aa1b823] FastClosures v0.3.2 [5789e2e9] FileIO v1.17.0 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.13.0 [53c48c17] FixedPointNumbers v0.8.5 [1fa38f19] Format v1.3.7 [069b7b12] FunctionWrappers v1.1.3 [77dc65aa] FunctionWrappersWrappers v0.1.3 [46192b85] GPUArraysCore v0.2.0 [5c1252a2] GeometryBasics v0.5.10 [a2bd30eb] Graphics v1.1.3 [86223c79] Graphs v1.13.1 [cd3eb016] HTTP v1.10.17 [076d061b] HashArrayMappedTries v0.2.0 [47d2ed2b] Hyperscript v0.0.5 [d25df0c9] Inflate v0.1.5 [842dd82b] InlineStrings v1.4.5 [8197267c] IntervalSets v0.7.11 [3587e190] InverseFunctions v0.1.17 [41ab1584] InvertedIndices v1.3.1 [c8e1da08] IterTools v1.10.0 [82899510] IteratorInterfaceExtensions v1.0.0 [033835bb] JLD2 v0.6.0 [692b3bcd] JLLWrappers v1.7.1 [682c06a0] JSON v0.21.4 [0f8b85d8] JSON3 v1.14.3 [ae98c720] Jieko v0.2.1 [5be7bae1] LBFGSB v0.4.1 [b964fa9f] LaTeXStrings v1.4.0 [1d6d02ad] LeftChildRightSiblingTrees v0.2.1 [e6f89c97] LoggingExtras v1.1.0 [1914dd2f] MacroTools v0.5.16 ⌅ [20f20a25] MakieCore v0.9.5 [739be429] MbedTLS v1.1.9 [eff96d63] Measurements v2.14.0 [c116f080] Mendeleev v1.0.1 [626554b9] MetaGraphs v0.8.1 [e1d29d7a] Missings v1.2.0 ⌅ [6c89ec66] MolecularGraph v0.19.1 [2e0e35c7] Moshi v0.3.7 [99f44e22] MsgPack v1.2.1 [77ba4419] NaNMath v1.1.3 [510215fc] Observables v0.5.5 [4d8831e6] OpenSSL v1.5.0 [7f7a1694] Optimization v4.5.0 [bca83a33] OptimizationBase v2.10.0 [bac558e1] OrderedCollections v1.8.1 [90014a1f] PDMats v0.11.35 [d96e819e] Parameters v0.12.3 [69de0a69] Parsers v2.8.3 [5ad8b20f] PhysicalConstants v0.2.4 [2dfb63ee] PooledArrays v1.4.3 [d236fae5] PreallocationTools v0.4.33 [aea7be01] PrecompileTools v1.3.2 [21216c6a] Preferences v1.5.0 ⌅ [08abe8d2] PrettyTables v2.4.0 [33c8b6b6] ProgressLogging v0.1.5 [92933f4c] ProgressMeter v1.11.0 [94ee1d12] Quaternions v0.7.6 [44044271] RDKitMinimalLib v1.2.0 [c1ae055f] RealDot v0.1.0 [3cdcf5f2] RecipesBase v1.3.4 [731186ca] RecursiveArrayTools v3.37.1 [189a3867] Reexport v1.2.2 [05181044] RelocatableFolders v1.0.1 [ae029012] Requires v1.3.1 [f2b01f46] Roots v2.2.10 [6038ab10] Rotations v1.7.1 [7e49a35a] RuntimeGeneratedFunctions v0.5.15 [0bca4576] SciMLBase v2.113.0 [c0aeaf25] SciMLOperators v1.6.0 [53ae85a6] SciMLStructures v1.7.0 [7e506255] ScopedValues v1.5.0 [6c6a2e73] Scratch v1.3.0 [91c51154] SentinelArrays v1.4.8 [efcf1570] Setfield v1.1.2 [777ac1f9] SimpleBufferStream v1.2.0 [699a6c99] SimpleTraits v0.9.5 [a2af1166] SortingAlgorithms v1.2.2 [9f842d2f] SparseConnectivityTracer v1.0.1 [0a514795] SparseMatrixColorings v0.4.21 [90137ffa] StaticArrays v1.9.14 [1e83bf80] StaticArraysCore v1.4.3 [10745b16] Statistics v1.11.1 [69024149] StringEncodings v0.3.7 [892a3eda] StringManipulation v0.4.1 [856f2bd8] StructTypes v1.11.0 [2efcf032] SymbolicIndexingInterface v0.3.43 [ab02a1b2] TableOperations v1.2.0 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [5d786b92] TerminalLoggers v0.1.7 [f8b46487] TestItemRunner v1.1.0 [1c621080] TestItems v1.0.0 [b189fb0b] ThreadPools v2.1.1 [3bb67fe8] TranscodingStreams v0.11.3 [5c2747f8] URIs v1.6.1 [3a884ed6] UnPack v1.0.2 [1986cc42] Unitful v1.24.0 [a7773ee8] UnitfulAtomic v1.0.0 [ea10d353] WeakRefStrings v1.4.2 [eead4739] WidgetsBase v0.1.4 [76eceee3] WorkerUtilities v1.6.1 [ddb6d928] YAML v0.4.14 [6e34b625] Bzip2_jll v1.0.9+0 [83423d85] Cairo_jll v1.18.5+0 ⌅ [04572ae6] Deno_jll v1.33.4+0 [5ae413db] EarCut_jll v2.2.4+0 [2e619515] Expat_jll v2.7.1+0 [a3f928ae] Fontconfig_jll v2.17.1+0 [d7e528f0] FreeType2_jll v2.13.4+0 [559328eb] FriBidi_jll v1.0.17+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 [1d63c593] LLVMOpenMP_jll v18.1.8+0 [dd4b983a] LZO_jll v2.10.3+0 [81d17ec3] L_BFGS_B_jll v3.0.1+0 [e9f186c6] Libffi_jll v3.4.7+0 [94ce4f54] Libiconv_jll v1.18.0+0 [4b2f31a3] Libmount_jll v2.41.1+0 [38a345b3] Libuuid_jll v2.41.1+0 [c8ffd9c3] MbedTLS_jll v2.28.6+2 [36c8627f] Pango_jll v1.56.3+0 ⌅ [30392449] Pixman_jll v0.44.2+0 [03d1d220] RDKit_jll v2022.9.5+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 ⌅ [28df3c45] boost_jll v1.76.0+1 [f6050b86] coordgenlibs_jll v3.0.2+0 [172afb32] libinchi_jll v1.6.0+0 [b53b4c65] libpng_jll v1.6.50+0 [0dad84c5] ArgTools v1.1.2 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [8ba89e20] Distributed v1.11.0 [f43a241f] Downloads v1.7.0 [7b1f6079] FileWatching v1.11.0 [9fa8497b] Future v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [ac6e5ff7] JuliaSyntaxHighlighting v1.12.0 [b27032c2] LibCURL v0.6.4 [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 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization v1.11.0 [1a1011a3] SharedArrays v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.13.0 [f489334b] StyledStrings v1.11.0 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] LibCURL_jll v8.15.0+1 [e37daf67] LibGit2_jll v1.9.1+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.8.12 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.2+0 [efcefdf7] PCRE2_jll v10.46.0+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 v5.13.1+0 [8e850ede] nghttp2_jll v1.66.0+0 [3f19e933] p7zip_jll v17.6.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... ERROR: LoadError: UndefVarError: `push_testset` not defined in `Test` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] getproperty @ ./Base_compiler.jl:50 [inlined] [2] run_tests(path::String; filter::Nothing, verbose::Bool) @ TestItemRunner ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:197 [3] kwcall(::@NamedTuple{verbose::Bool}, ::typeof(TestItemRunner.run_tests), path::String) @ TestItemRunner ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:133 [4] top-level scope @ ~/.julia/packages/BiochemicalVisualization/dGCps/test/runtests.jl:3 [5] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [6] top-level scope @ none:6 [7] eval(m::Module, e::Any) @ Core ./boot.jl:489 [8] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [9] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/BiochemicalVisualization/dGCps/test/runtests.jl:3 Testing failed after 64.13s ERROR: LoadError: Package BiochemicalVisualization errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.13/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/v1.13/Pkg/src/Operations.jl:2673 [3] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2522 [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/v1.13/Pkg/src/API.jl:538 [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/v1.13/Pkg/src/API.jl:515 [6] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:168 [7] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:157 [8] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156 [9] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156 [inlined] [10] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:155 [11] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [12] include(mod::Module, _path::String) @ Base ./Base.jl:308 [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:330 [14] _start() @ Base ./client.jl:563 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 1223.0s: package tests unexpectedly errored