Package evaluation to test BiochemicalVisualization on Julia 1.14.0-DEV.1299 (6d6224db99*) started at 2025-11-27T21:39:50.872


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# Set-up
#

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 6.87s


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# Installation
#

Installing BiochemicalVisualization...
   Resolving package versions...
   Installed ChunkCodecLibZstd ─────────── v1.0.0
   Installed Libuuid_jll ───────────────── v2.41.2+0
   Installed Bzip2_jll ─────────────────── v1.0.9+0
   Installed HarfBuzz_jll ──────────────── v8.5.1+0
   Installed Calculus ──────────────────── v0.5.2
   Installed InlineStrings ─────────────── v1.4.5
   Installed Extents ───────────────────── v0.1.6
   Installed RDKitMinimalLib ───────────── v1.2.0
   Installed Cairo_jll ─────────────────── v1.18.5+0
   Installed Graphite2_jll ─────────────── v1.3.15+0
   Installed PreallocationTools ────────── v0.4.34
   Installed OrderedCollections ────────── v1.8.1
   Installed SentinelArrays ────────────── v1.4.8
   Installed UnitfulAtomic ─────────────── v1.0.0
   Installed RDKit_jll ─────────────────── v2022.9.5+0
   Installed FileIO ────────────────────── v1.17.1
   Installed Fontconfig_jll ────────────── v2.17.1+0
   Installed NaNMath ───────────────────── v1.1.3
   Installed Graphics ──────────────────── v1.1.3
   Installed ScopedValues ──────────────── v1.5.0
   Installed PhysicalConstants ─────────── v0.2.4
   Installed MsgPack ───────────────────── v1.2.1
   Installed libinchi_jll ──────────────── v1.6.0+0
   Installed Xorg_libxcb_jll ───────────── v1.17.1+0
   Installed Tables ────────────────────── v1.12.1
   Installed EnumX ─────────────────────── v1.0.5
   Installed LZO_jll ───────────────────── v2.10.3+0
   Installed Reexport ──────────────────── v1.2.2
   Installed InverseFunctions ──────────── v0.1.17
   Installed Jieko ─────────────────────── v0.2.1
   Installed Mendeleev ─────────────────── v1.0.2
   Installed LLVMOpenMP_jll ────────────── v18.1.8+0
   Installed Hyperscript ───────────────── v0.0.5
   Installed Missings ──────────────────── v1.2.0
   Installed Preferences ───────────────── v1.5.0
   Installed TableTraits ───────────────── v1.0.1
   Installed boost_jll ─────────────────── v1.76.0+1
   Installed LaTeXStrings ──────────────── v1.4.0
   Installed SortingAlgorithms ─────────── v1.2.2
   Installed Crayons ───────────────────── v4.1.1
   Installed UnPack ────────────────────── v1.0.2
   Installed Format ────────────────────── v1.3.7
   Installed ADTypes ───────────────────── v1.19.0
   Installed Inflate ───────────────────── v0.1.5
   Installed MacroTools ────────────────── v0.5.16
   Installed RecursiveArrayTools ───────── v3.39.0
   Installed DataStructures ────────────── v0.19.3
   Installed AbstractTrees ─────────────── v0.4.5
   Installed URIs ──────────────────────── v1.6.1
   Installed FillArrays ────────────────── v1.15.0
   Installed ArnoldiMethod ─────────────── v0.4.0
   Installed DelimitedFiles ────────────── v1.9.1
   Installed MakieCore ─────────────────── v0.9.5
   Installed Quaternions ───────────────── v0.7.7
   Installed SparseMatrixColorings ─────── v0.4.23
   Installed CodecZlib ─────────────────── v0.7.8
   Installed Observables ───────────────── v0.5.5
   Installed DataValueInterfaces ───────── v1.0.0
   Installed Xorg_libXau_jll ───────────── v1.0.13+0
   Installed ConsoleProgressMonitor ────── v0.1.2
   Installed ExprTools ─────────────────── v0.1.10
   Installed Cairo ─────────────────────── v1.1.1
   Installed ArrayInterface ────────────── v7.22.0
   Installed LoggingExtras ─────────────── v1.2.0
   Installed GPUArraysCore ─────────────── v0.2.0
   Installed Libffi_jll ────────────────── v3.4.7+0
   Installed Pixman_jll ────────────────── v0.44.2+0
   Installed Expat_jll ─────────────────── v2.7.3+0
   Installed RealDot ───────────────────── v0.1.0
   Installed coordgenlibs_jll ──────────── v3.0.2+0
   Installed SparseConnectivityTracer ──── v1.1.3
   Installed TerminalLoggers ───────────── v0.1.7
   Installed libpng_jll ────────────────── v1.6.51+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 ──────────────────────── v1.10.19
   Installed Scratch ───────────────────── v1.3.0
   Installed SimpleBufferStream ────────── v1.2.0
   Installed OptimizationBase ──────────── v2.14.0
   Installed MetaGraphs ────────────────── v0.8.1
   Installed PooledArrays ──────────────── v1.4.3
   Installed Setfield ──────────────────── v1.1.2
   Installed WorkerUtilities ───────────── v1.6.1
   Installed TableOperations ───────────── v1.2.0
   Installed PDMats ────────────────────── v0.11.36
   Installed LBFGSB ────────────────────── v0.4.1
   Installed DocStringExtensions ───────── v0.9.5
   Installed Moshi ─────────────────────── v0.3.7
   Installed CompositionsBase ──────────── v0.1.2
   Installed CommonSolve ───────────────── v0.2.4
   Installed BiochemicalVisualization ──── v0.3.2
   Installed RelocatableFolders ────────── v1.0.1
   Installed DifferentiationInterface ──── v0.7.12
   Installed ConcurrentUtilities ───────── v2.5.0
   Installed HashArrayMappedTries ──────── v0.2.0
   Installed RecipesBase ───────────────── v1.3.4
   Installed IteratorInterfaceExtensions ─ v1.0.0
   Installed FunctionWrappersWrappers ──── v0.1.3
   Installed DataAPI ───────────────────── v1.16.0
   Installed InvertedIndices ───────────── v1.3.1
   Installed SciMLOperators ────────────── v1.13.0
   Installed SciMLStructures ───────────── v1.7.0
   Installed Colors ────────────────────── v0.13.1
   Installed StaticArraysCore ──────────── v1.4.4
   Installed WidgetsBase ───────────────── v0.1.4
   Installed MolecularGraph ────────────── v0.19.1
   Installed StaticArrays ──────────────── v1.9.15
   Installed ThreadPools ───────────────── v2.1.1
   Installed ColorTypes ────────────────── v0.12.1
   Installed BiochemicalAlgorithms ─────── v0.5.5
   Installed SciMLPublic ───────────────── v1.0.0
   Installed Glib_jll ──────────────────── v2.86.0+0
   Installed StringManipulation ────────── v0.4.2
   Installed Requires ──────────────────── v1.3.1
   Installed FunctionWrappers ──────────── v1.1.3
   Installed AutoHashEquals ────────────── v2.2.0
   Installed FastClosures ──────────────── v0.3.2
   Installed Parsers ───────────────────── v2.8.3
   Installed JSON ──────────────────────── v0.21.4
   Installed SciMLBase ─────────────────── v2.127.0
   Installed PrettyTables ──────────────── v2.4.0
   Installed BioGenerics ───────────────── v0.1.5
   Installed Xorg_libXdmcp_jll ─────────── v1.1.6+0
   Installed Unitful ───────────────────── v1.25.1
   Installed Bonito ────────────────────── v4.1.11
   Installed WeakRefStrings ────────────── v1.4.2
   Installed CSV ───────────────────────── v0.10.15
   Installed TestItems ─────────────────── v1.0.0
   Installed JLLWrappers ───────────────── v1.7.1
   Installed Deno_jll ──────────────────── v1.33.4+0
   Installed DataFrames ────────────────── v1.8.1
   Installed ChunkCodecCore ────────────── v1.0.0
   Installed GeometryBasics ────────────── v0.5.10
   Installed StructTypes ───────────────── v1.11.0
   Installed Pango_jll ─────────────────── v1.57.0+0
   Installed IterTools ─────────────────── v1.10.0
   Installed Accessors ─────────────────── v0.1.42
   Installed Xorg_xtrans_jll ───────────── v1.6.0+0
   Installed Measurements ──────────────── v2.14.1
   Installed FilePathsBase ─────────────── v0.9.24
   Installed JLD2 ──────────────────────── v0.6.3
   Installed Adapt ─────────────────────── v4.4.0
   Installed RuntimeGeneratedFunctions ─── v0.5.16
   Installed ConstructionBase ──────────── v1.6.0
   Installed BioStructures ─────────────── v4.7.0
   Installed Libmount_jll ──────────────── v2.41.2+0
   Installed Graphs ────────────────────── v1.13.1
   Installed ChunkSplitters ────────────── v3.1.2
   Installed SymbolicIndexingInterface ─── v0.3.44
   Installed ExceptionUnwrapping ───────── v0.1.11
   Installed CellListMap ───────────────── v0.9.14
   Installed TranscodingStreams ────────── v0.11.3
   Installed Compat ────────────────────── v4.18.1
   Installed Xorg_libX11_jll ───────────── v1.8.12+0
   Installed ProgressLogging ───────────── v0.1.6
   Installed EarCut_jll ────────────────── v2.2.4+0
   Installed Statistics ────────────────── v1.11.1
   Installed StringEncodings ───────────── v0.3.7
   Installed ExproniconLite ────────────── v0.10.14
   Installed MbedTLS ───────────────────── v1.1.9
   Installed ProgressMeter ─────────────── v1.11.0
   Installed PrecompileTools ───────────── v1.3.3
   Installed OpenSSL ───────────────────── v1.6.0
   Installed Optimization ──────────────── v4.8.0
   Installed GettextRuntime_jll ────────── v0.22.4+0
   Installed BioSymbols ────────────────── v5.2.0
   Installed FriBidi_jll ───────────────── v1.0.17+0
   Installed JSON3 ─────────────────────── v1.14.3
   Installed YAML ──────────────────────── v0.4.16
   Installed ChunkCodecLibZlib ─────────── v1.0.0
   Installed Xorg_libXrender_jll ───────── v0.9.12+0
   Installed Parameters ────────────────── v0.12.3
   Installed IntervalSets ──────────────── v0.7.13
   Installed FreeType2_jll ─────────────── v2.13.4+0
   Installed SciMLLogging ──────────────── v1.5.0
   Installed FixedPointNumbers ─────────── v0.8.5
   Installed Libiconv_jll ──────────────── v1.18.0+0
   Installed MbedTLS_jll ───────────────── v2.28.1010+0
   Installed Rotations ─────────────────── v1.7.1
   Installed Xorg_libXext_jll ──────────── v1.3.7+0
  Installing 34 artifacts
   Installed artifact Xorg_libXau     36.6 KiB
   Installed artifact Xorg_xtrans     48.2 KiB
   Installed artifact Libffi          44.2 KiB
   Installed artifact Xorg_libXext    699.9 KiB
   Installed artifact libinchi        933.4 KiB
   Installed artifact libpng          328.9 KiB
   Installed artifact Cairo           2.2 MiB
   Installed artifact Xorg_libxcb     2.1 MiB
   Installed artifact Libiconv        1.9 MiB
   Installed artifact Expat           283.3 KiB
   Installed artifact MbedTLS         2.2 MiB
   Installed artifact Fontconfig      984.8 KiB
   Installed artifact Pixman          372.2 KiB
   Installed artifact Libuuid         3.7 MiB
   Installed artifact FriBidi         78.9 KiB
   Installed artifact coordgenlibs    303.6 KiB
   Installed artifact LLVMOpenMP      661.6 KiB
   Installed artifact Libmount        6.5 MiB
   Installed artifact GettextRuntime  543.0 KiB
   Installed artifact HarfBuzz        1.7 MiB
   Installed artifact L_BFGS_B        45.2 KiB
   Installed artifact Pango           2.0 MiB
   Installed artifact Xorg_libXdmcp   67.7 KiB
   Installed artifact LZO             208.9 KiB
   Installed artifact EarCut          80.5 KiB
   Installed artifact FreeType2       1.5 MiB
   Installed artifact Glib            7.7 MiB
   Installed artifact Graphite2       120.2 KiB
   Installed artifact Bzip2           503.5 KiB
   Installed artifact Xorg_libXrender 435.9 KiB
   Installed artifact Xorg_libX11     13.9 MiB
   Installed artifact boost           22.1 MiB
   Installed artifact Deno            38.5 MiB
   Installed artifact RDKit           56.2 MiB
    Updating `~/.julia/environments/v1.14/Project.toml`
  [00dfb448] + BiochemicalVisualization v0.3.2
    Updating `~/.julia/environments/v1.14/Manifest.toml`
  [47edcb42] + ADTypes v1.19.0
  [1520ce14] + AbstractTrees v0.4.5
  [7d9f7c33] + Accessors v0.1.42
  [79e6a3ab] + Adapt v4.4.0
  [ec485272] + ArnoldiMethod v0.4.0
  [4fba245c] + ArrayInterface v7.22.0
  [15f4f7f2] + AutoHashEquals v2.2.0
  [47718e42] + BioGenerics v0.1.5
  [de9282ab] + BioStructures v4.7.0
  [3c28c6f8] + BioSymbols v5.2.0
  [9d651bdf] + BiochemicalAlgorithms v0.5.5
  [00dfb448] + BiochemicalVisualization v0.3.2
  [d1d4a3ce] + BitFlags v0.1.9
  [824d6782] + Bonito v4.1.11
  [336ed68f] + CSV v0.10.15
  [159f3aea] + Cairo v1.1.1
  [49dc2e85] + Calculus v0.5.2
  [69e1c6dd] + CellListMap v0.9.14
  [0b6fb165] + ChunkCodecCore v1.0.0
  [4c0bbee4] + ChunkCodecLibZlib v1.0.0
  [55437552] + ChunkCodecLibZstd v1.0.0
  [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 v4.18.1
  [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 v1.8.1
  [864edb3b] + DataStructures v0.19.3
  [e2d170a0] + DataValueInterfaces v1.0.0
  [8bb1440f] + DelimitedFiles v1.9.1
  [a0c0ee7d] + DifferentiationInterface v0.7.12
  [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 v1.17.1
  [48062228] + FilePathsBase v0.9.24
  [1a297f60] + FillArrays v1.15.0
  [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 v1.10.19
  [076d061b] + HashArrayMappedTries v0.2.0
  [47d2ed2b] + Hyperscript v0.0.5
  [d25df0c9] + Inflate v0.1.5
  [842dd82b] + InlineStrings v1.4.5
  [8197267c] + IntervalSets v0.7.13
  [3587e190] + InverseFunctions v0.1.17
  [41ab1584] + InvertedIndices v1.3.1
  [c8e1da08] + IterTools v1.10.0
  [82899510] + IteratorInterfaceExtensions v1.0.0
  [033835bb] + JLD2 v0.6.3
  [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 v1.2.0
  [1914dd2f] + MacroTools v0.5.16
⌅ [20f20a25] + MakieCore v0.9.5
  [739be429] + MbedTLS v1.1.9
  [eff96d63] + Measurements v2.14.1
  [c116f080] + Mendeleev v1.0.2
  [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 v1.6.0
⌅ [7f7a1694] + Optimization v4.8.0
⌅ [bca83a33] + OptimizationBase v2.14.0
  [bac558e1] + OrderedCollections v1.8.1
  [90014a1f] + PDMats v0.11.36
  [d96e819e] + Parameters v0.12.3
  [69de0a69] + Parsers v2.8.3
  [5ad8b20f] + PhysicalConstants v0.2.4
  [2dfb63ee] + PooledArrays v1.4.3
  [d236fae5] + PreallocationTools v0.4.34
  [aea7be01] + PrecompileTools v1.3.3
  [21216c6a] + Preferences v1.5.0
⌅ [08abe8d2] + PrettyTables v2.4.0
  [33c8b6b6] + ProgressLogging v0.1.6
  [92933f4c] + ProgressMeter v1.11.0
  [94ee1d12] + Quaternions v0.7.7
  [44044271] + RDKitMinimalLib v1.2.0
  [c1ae055f] + RealDot v0.1.0
  [3cdcf5f2] + RecipesBase v1.3.4
  [731186ca] + RecursiveArrayTools v3.39.0
  [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 v0.5.16
  [0bca4576] + SciMLBase v2.127.0
  [a6db7da4] + SciMLLogging v1.5.0
  [c0aeaf25] + SciMLOperators v1.13.0
  [431bcebd] + SciMLPublic v1.0.0
  [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 v1.1.3
  [0a514795] + SparseMatrixColorings v0.4.23
  [90137ffa] + StaticArrays v1.9.15
  [1e83bf80] + StaticArraysCore v1.4.4
  [10745b16] + Statistics v1.11.1
  [69024149] + StringEncodings v0.3.7
  [892a3eda] + StringManipulation v0.4.2
  [856f2bd8] + StructTypes v1.11.0
⌃ [2efcf032] + SymbolicIndexingInterface v0.3.44
  [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 v1.25.1
  [a7773ee8] + UnitfulAtomic v1.0.0
  [ea10d353] + WeakRefStrings v1.4.2
  [eead4739] + WidgetsBase v0.1.4
  [76eceee3] + WorkerUtilities v1.6.1
  [ddb6d928] + YAML v0.4.16
  [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 v2.7.3+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 v2.86.0+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 v2.41.2+0
  [38a345b3] + Libuuid_jll v2.41.2+0
  [c8ffd9c3] + MbedTLS_jll v2.28.1010+0
  [36c8627f] + Pango_jll v1.57.0+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 v1.6.51+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 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
  [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
  [deac9b47] + LibCURL_jll v8.17.0+0
  [e37daf67] + LibGit2_jll v1.9.1+0
  [29816b5a] + LibSSH2_jll v1.11.3+1
  [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. To see why use `status --outdated -m`

Installation completed after 28.15s


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

Precompiling PkgEval dependencies...
Precompiling packages...
WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv.
   4602.0 ms  ✓ TestEnv
  1 dependency successfully precompiled in 5 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...
   3620.3 ms  ✓ MacroTools
   1363.5 ms  ✓ InlineStrings
    708.6 ms  ✓ Reexport
    887.7 ms  ✓ ConstructionBase
    595.2 ms  ✓ DataValueInterfaces
   1620.0 ms  ✓ Format
    731.3 ms  ✓ Observables
    932.6 ms  ✓ Calculus
    877.5 ms  ✓ IterTools
    837.2 ms  ✓ IntervalSets
    973.5 ms  ✓ Inflate
    722.2 ms  ✓ CommonSolve
   1299.1 ms  ✓ TranscodingStreams
    806.7 ms  ✓ LaTeXStrings
    931.0 ms  ✓ ChunkCodecCore
    726.0 ms  ✓ TestItems
   1104.7 ms  ✓ Statistics
    944.3 ms  ✓ StaticArraysCore
    923.2 ms  ✓ ChunkSplitters
    940.9 ms  ✓ AutoHashEquals
    762.9 ms  ✓ SimpleBufferStream
    837.9 ms  ✓ DataAPI
    912.5 ms  ✓ SciMLPublic
   2996.5 ms  ✓ ExproniconLite
    607.7 ms  ✓ RealDot
    926.8 ms  ✓ URIs
    675.0 ms  ✓ InvertedIndices
    701.2 ms  ✓ InverseFunctions
    603.8 ms  ✓ CompositionsBase
    633.9 ms  ✓ BitFlags
    847.4 ms  ✓ AbstractTrees
    643.0 ms  ✓ EnumX
    766.6 ms  ✓ WorkerUtilities
   1636.5 ms  ✓ FillArrays
    834.4 ms  ✓ ExprTools
    753.3 ms  ✓ UnPack
    956.9 ms  ✓ Extents
   1212.1 ms  ✓ OrderedCollections
   1506.4 ms  ✓ FunctionWrappers
    909.1 ms  ✓ HashArrayMappedTries
   1305.4 ms  ✓ ADTypes
   1015.5 ms  ✓ ProgressLogging
    975.6 ms  ✓ DocStringExtensions
    708.9 ms  ✓ FastClosures
    708.5 ms  ✓ IteratorInterfaceExtensions
   1881.2 ms  ✓ Crayons
    938.7 ms  ✓ DelimitedFiles
    974.6 ms  ✓ NaNMath
   1108.6 ms  ✓ Requires
   1701.6 ms  ✓ ConcurrentUtilities
   1163.0 ms  ✓ SuiteSparse
   1244.3 ms  ✓ MsgPack
    723.8 ms  ✓ Scratch
  30561.7 ms  ✓ Unitful
   2641.5 ms  ✓ SentinelArrays
   1489.0 ms  ✓ StructTypes
   1051.1 ms  ✓ LoggingExtras
   1705.0 ms  ✓ ProgressMeter
   1072.9 ms  ✓ Compat
   1067.5 ms  ✓ Preferences
    961.7 ms  ✓ Hyperscript
   1288.1 ms  ✓ ExceptionUnwrapping
   3102.7 ms  ✓ SimpleTraits
    700.6 ms  ✓ ConstructionBase → ConstructionBaseLinearAlgebraExt
    750.0 ms  ✓ WidgetsBase
   1029.6 ms  ✓ Measurements
    726.4 ms  ✓ IntervalSets → IntervalSetsRandomExt
    729.3 ms  ✓ ConstructionBase → ConstructionBaseIntervalSetsExt
    820.4 ms  ✓ BioGenerics
    700.1 ms  ✓ CodecZlib
    753.4 ms  ✓ ChunkCodecLibZlib
    847.3 ms  ✓ ChunkCodecLibZstd
    941.9 ms  ✓ Statistics → SparseArraysExt
   2875.5 ms  ✓ FixedPointNumbers
    568.4 ms  ✓ IntervalSets → IntervalSetsStatisticsExt
    802.2 ms  ✓ Missings
    766.0 ms  ✓ PooledArrays
   2392.7 ms  ✓ Jieko
    832.1 ms  ✓ Quaternions
    646.9 ms  ✓ InverseFunctions → InverseFunctionsDatesExt
   1142.1 ms  ✓ InverseFunctions → InverseFunctionsTestExt
    596.1 ms  ✓ CompositionsBase → CompositionsBaseInverseFunctionsExt
   2944.9 ms  ✓ OpenSSL
    770.5 ms  ✓ LeftChildRightSiblingTrees
   1089.9 ms  ✓ FillArrays → FillArraysSparseArraysExt
    707.3 ms  ✓ FillArrays → FillArraysStatisticsExt
    669.1 ms  ✓ RuntimeGeneratedFunctions
    844.6 ms  ✓ Parameters
   3240.0 ms  ✓ DataStructures
    747.7 ms  ✓ FunctionWrappersWrappers
    965.1 ms  ✓ ScopedValues
    769.7 ms  ✓ ADTypes → ADTypesConstructionBaseExt
   1898.1 ms  ✓ DifferentiationInterface
    759.6 ms  ✓ TableTraits
    909.4 ms  ✓ Adapt
   7714.5 ms  ✓ FileIO
   1355.5 ms  ✓ PDMats
    798.4 ms  ✓ RelocatableFolders
   1493.3 ms  ✓ Unitful → ConstructionBaseUnitfulExt
   1393.7 ms  ✓ Unitful → PrintfExt
   1361.9 ms  ✓ Unitful → InverseFunctionsUnitfulExt
    684.8 ms  ✓ ConsoleProgressMonitor
    654.3 ms  ✓ Compat → CompatLinearAlgebraExt
    700.6 ms  ✓ PrecompileTools
    873.9 ms  ✓ JLLWrappers
    953.4 ms  ✓ SciMLLogging
   2182.2 ms  ✓ Setfield
   1400.1 ms  ✓ Measurements → MeasurementsUnitfulExt
   2031.5 ms  ✓ ColorTypes
  15064.2 ms  ✓ Moshi
   4994.2 ms  ✓ Accessors
   1917.1 ms  ✓ TerminalLoggers
   7300.8 ms  ✓ SparseConnectivityTracer
    811.5 ms  ✓ SortingAlgorithms
   1024.7 ms  ✓ DifferentiationInterface → DifferentiationInterfaceSparseArraysExt
   1375.0 ms  ✓ Tables
    911.2 ms  ✓ ArrayInterface
    965.1 ms  ✓ Adapt → AdaptSparseArraysExt
    914.0 ms  ✓ GPUArraysCore
   1194.5 ms  ✓ FillArrays → FillArraysPDMatsExt
   8258.8 ms  ✓ UnitfulAtomic
   1970.1 ms  ✓ FilePathsBase
   2537.5 ms  ✓ BioSymbols
   2901.3 ms  ✓ StringManipulation
  12596.5 ms  ✓ StaticArrays
   2457.0 ms  ✓ RecipesBase
  13589.9 ms  ✓ Parsers
   9924.9 ms  ✓ SparseMatrixColorings
  45216.3 ms  ✓ JLD2
   1550.1 ms  ✓ Libffi_jll
   1392.0 ms  ✓ LZO_jll
   1337.7 ms  ✓ EarCut_jll
   1363.3 ms  ✓ Bzip2_jll
   1329.9 ms  ✓ libinchi_jll
   1156.0 ms  ✓ Xorg_xtrans_jll
   1453.5 ms  ✓ boost_jll
   1392.0 ms  ✓ libpng_jll
   1340.7 ms  ✓ coordgenlibs_jll
   1430.0 ms  ✓ L_BFGS_B_jll
   1303.7 ms  ✓ Libmount_jll
   1411.6 ms  ✓ Libuuid_jll
   1332.6 ms  ✓ Deno_jll
   1422.6 ms  ✓ FriBidi_jll
   1330.9 ms  ✓ Xorg_libXau_jll
   1442.1 ms  ✓ Graphite2_jll
   1431.4 ms  ✓ LLVMOpenMP_jll
   1421.5 ms  ✓ Libiconv_jll
   1490.6 ms  ✓ MbedTLS_jll
   1308.5 ms  ✓ Xorg_libXdmcp_jll
   1396.2 ms  ✓ Expat_jll
   1204.9 ms  ✓ ColorTypes → StyledStringsExt
   7499.8 ms  ✓ Colors
   1793.1 ms  ✓ Accessors → TestExt
   2453.5 ms  ✓ Accessors → IntervalSetsExt
   2441.0 ms  ✓ Accessors → LinearAlgebraExt
   2192.7 ms  ✓ Accessors → UnitfulExt
   3058.2 ms  ✓ SparseConnectivityTracer → SparseConnectivityTracerNaNMathExt
   1838.6 ms  ✓ DifferentiationInterface → DifferentiationInterfaceSparseConnectivityTracerExt
   2263.3 ms  ✓ TableOperations
    739.0 ms  ✓ ArrayInterface → ArrayInterfaceStaticArraysCoreExt
   1224.2 ms  ✓ ArrayInterface → ArrayInterfaceSparseArraysExt
    913.4 ms  ✓ SciMLStructures
   1848.3 ms  ✓ PreallocationTools
    808.2 ms  ✓ DifferentiationInterface → DifferentiationInterfaceGPUArraysCoreExt
    820.9 ms  ✓ ArrayInterface → ArrayInterfaceGPUArraysCoreExt
  21145.8 ms  ✓ Mendeleev
   2642.1 ms  ✓ FilePathsBase → FilePathsBaseTestExt
    975.2 ms  ✓ FilePathsBase → FilePathsBaseMmapExt
  26384.6 ms  ✓ PrettyTables
   3763.1 ms  ✓ ArnoldiMethod
   1426.5 ms  ✓ StaticArrays → StaticArraysStatisticsExt
   1385.0 ms  ✓ ConstructionBase → ConstructionBaseStaticArraysExt
   4954.3 ms  ✓ Rotations
   1441.7 ms  ✓ DifferentiationInterface → DifferentiationInterfaceStaticArraysExt
   1454.0 ms  ✓ Adapt → AdaptStaticArraysExt
   1517.7 ms  ✓ Accessors → StaticArraysExt
   1906.0 ms  ✓ ThreadPools
   1236.4 ms  ✓ IntervalSets → IntervalSetsRecipesBaseExt
   1308.7 ms  ✓ Measurements → MeasurementsRecipesBaseExt
  12690.4 ms  ✓ BioStructures
  13153.9 ms  ✓ JSON3
   3779.5 ms  ✓ JSON
    921.8 ms  ✓ InlineStrings → ParsersExt
   1767.8 ms  ✓ DifferentiationInterface → DifferentiationInterfaceSparseMatrixColoringsExt
   6008.1 ms  ✓ JLD2 → UnPackExt
  22721.7 ms  ✓ GeometryBasics
   1395.2 ms  ✓ FreeType2_jll
    947.9 ms  ✓ LBFGSB
   1395.2 ms  ✓ Pixman_jll
    962.2 ms  ✓ StringEncodings
   1282.1 ms  ✓ GettextRuntime_jll
   2073.3 ms  ✓ MbedTLS
   1461.3 ms  ✓ Xorg_libxcb_jll
   1343.6 ms  ✓ Graphics
   2614.3 ms  ✓ SparseMatrixColorings → SparseMatrixColoringsColorsExt
   6816.1 ms  ✓ Roots
   4775.4 ms  ✓ SciMLOperators
   3284.4 ms  ✓ SymbolicIndexingInterface
   1921.8 ms  ✓ PreallocationTools → PreallocationToolsSparseConnectivityTracerExt
  76563.3 ms  ✓ DataFrames
   9806.3 ms  ✓ Graphs
  24573.5 ms  ✓ CellListMap
   1925.6 ms  ✓ Rotations → RotationsRecipesBaseExt
   2469.2 ms  ✓ WeakRefStrings
  10331.5 ms  ✓ MakieCore
   1412.0 ms  ✓ RDKit_jll
   1443.7 ms  ✓ Fontconfig_jll
   2584.7 ms  ✓ YAML
   1461.5 ms  ✓ Glib_jll
  25545.8 ms  ✓ HTTP
   1685.8 ms  ✓ Xorg_libX11_jll
   2225.3 ms  ✓ Roots → RootsUnitfulExt
    968.8 ms  ✓ SciMLOperators → SciMLOperatorsStaticArraysCoreExt
   1515.8 ms  ✓ SciMLOperators → SciMLOperatorsSparseArraysExt
   1967.2 ms  ✓ SymbolicIndexingInterface → SymbolicIndexingInterfacePrettyTablesExt
   3598.3 ms  ✓ RecursiveArrayTools
   6139.9 ms  ✓ BioStructures → BioStructuresDataFramesExt
   9270.2 ms  ✓ MetaGraphs
  23036.2 ms  ✓ CSV
    945.2 ms  ✓ RDKitMinimalLib
   5718.3 ms  ✓ FileIO → HTTPExt
ERROR: LoadError: ArgumentError: Cannot load (`using/import`) module SHA into module Bonito in package Bonito
because package Bonito 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:
    /home/pkgeval/.julia/environments/v1.14/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 Bonito 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 Bonito
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_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
  [7] _eval_using
    @ ./module.jl:137 [inlined]
  [8] _eval_using(to::Module, path::Expr)
    @ Base ./module.jl:137
  [9] top-level scope
    @ ~/.julia/packages/Bonito/18mTs/src/Bonito.jl:18
 [10] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [11] 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
 [12] top-level scope
    @ stdin:5
 [13] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [14] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:3003
 [15] include_string
    @ ./loading.jl:3013 [inlined]
 [16] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:342
 [17] _start()
    @ Base ./client.jl:577
in expression starting at /home/pkgeval/.julia/packages/Bonito/18mTs/src/Bonito.jl:1
in expression starting at stdin:5

Precompilation completed after 748.61s


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

     Testing BiochemicalVisualization
      Status `/tmp/jl_dRY0El/Project.toml`
  [4c88cf16] Aqua v0.8.14
  [9d651bdf] BiochemicalAlgorithms v0.5.5
  [00dfb448] BiochemicalVisualization v0.3.2
  [824d6782] Bonito v4.1.11
  [5ae59095] Colors v0.13.1
  [5c1252a2] GeometryBasics v0.5.10
  [99f44e22] MsgPack v1.2.1
  [10745b16] Statistics v1.11.1
  [f8b46487] TestItemRunner v1.1.1
  [37e2e46d] LinearAlgebra v1.13.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_dRY0El/Manifest.toml`
  [47edcb42] ADTypes v1.19.0
  [1520ce14] AbstractTrees v0.4.5
  [7d9f7c33] Accessors v0.1.42
  [79e6a3ab] Adapt v4.4.0
  [4c88cf16] Aqua v0.8.14
  [ec485272] ArnoldiMethod v0.4.0
  [4fba245c] ArrayInterface v7.22.0
  [15f4f7f2] AutoHashEquals v2.2.0
  [47718e42] BioGenerics v0.1.5
  [de9282ab] BioStructures v4.7.0
  [3c28c6f8] BioSymbols v5.2.0
  [9d651bdf] BiochemicalAlgorithms v0.5.5
  [00dfb448] BiochemicalVisualization v0.3.2
  [d1d4a3ce] BitFlags v0.1.9
  [824d6782] Bonito v4.1.11
  [336ed68f] CSV v0.10.15
  [159f3aea] Cairo v1.1.1
  [49dc2e85] Calculus v0.5.2
  [69e1c6dd] CellListMap v0.9.14
  [0b6fb165] ChunkCodecCore v1.0.0
  [4c0bbee4] ChunkCodecLibZlib v1.0.0
  [55437552] ChunkCodecLibZstd v1.0.0
  [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 v4.18.1
  [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 v1.8.1
  [864edb3b] DataStructures v0.19.3
  [e2d170a0] DataValueInterfaces v1.0.0
  [8bb1440f] DelimitedFiles v1.9.1
  [a0c0ee7d] DifferentiationInterface v0.7.12
  [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 v1.17.1
  [48062228] FilePathsBase v0.9.24
  [1a297f60] FillArrays v1.15.0
  [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 v1.10.19
  [076d061b] HashArrayMappedTries v0.2.0
  [47d2ed2b] Hyperscript v0.0.5
  [d25df0c9] Inflate v0.1.5
  [842dd82b] InlineStrings v1.4.5
  [8197267c] IntervalSets v0.7.13
  [3587e190] InverseFunctions v0.1.17
  [41ab1584] InvertedIndices v1.3.1
  [c8e1da08] IterTools v1.10.0
  [82899510] IteratorInterfaceExtensions v1.0.0
  [033835bb] JLD2 v0.6.3
  [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 v1.2.0
  [1914dd2f] MacroTools v0.5.16
⌅ [20f20a25] MakieCore v0.9.5
  [739be429] MbedTLS v1.1.9
  [eff96d63] Measurements v2.14.1
  [c116f080] Mendeleev v1.0.2
  [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 v1.6.0
⌅ [7f7a1694] Optimization v4.8.0
⌅ [bca83a33] OptimizationBase v2.14.0
  [bac558e1] OrderedCollections v1.8.1
  [90014a1f] PDMats v0.11.36
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⌃ [2efcf032] SymbolicIndexingInterface v0.3.44
  [ab02a1b2] TableOperations v1.2.0
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        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...
ERROR: LoadError: ArgumentError: Cannot load (`using/import`) module SHA into module Bonito in package Bonito
because package Bonito 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_dRY0El/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 Bonito 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 Bonito
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_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
  [7] _eval_using
    @ ./module.jl:137 [inlined]
  [8] _eval_using(to::Module, path::Expr)
    @ Base ./module.jl:137
  [9] top-level scope
    @ ~/.julia/packages/Bonito/18mTs/src/Bonito.jl:18
 [10] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [11] 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
 [12] top-level scope
    @ stdin:5
 [13] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [14] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:3003
 [15] include_string
    @ ./loading.jl:3013 [inlined]
 [16] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:342
 [17] _start()
    @ Base ./client.jl:577
in expression starting at /home/pkgeval/.julia/packages/Bonito/18mTs/src/Bonito.jl:1
in expression starting at stdin:5
ERROR: LoadError: ArgumentError: Cannot load (`using/import`) module SHA into module Bonito in package Bonito
because package Bonito 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_dRY0El/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 Bonito 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 Bonito
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_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
  [7] _eval_using
    @ ./module.jl:137 [inlined]
  [8] _eval_using(to::Module, path::Expr)
    @ Base ./module.jl:137
  [9] top-level scope
    @ ~/.julia/packages/Bonito/18mTs/src/Bonito.jl:18
 [10] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [11] 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
 [12] top-level scope
    @ stdin:5
 [13] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [14] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:3003
 [15] include_string
    @ ./loading.jl:3013 [inlined]
 [16] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:342
 [17] _start()
    @ Base ./client.jl:577
in expression starting at /home/pkgeval/.julia/packages/Bonito/18mTs/src/Bonito.jl:1
in expression starting at stdin:5

  1 dependency had output during precompilation:
┌ Bonito
│  [Output was shown above]
└  
ERROR: LoadError: The following 1 package failed to precompile:

Bonito 
Failed to precompile Bonito [824d6782-a2ef-11e9-3a09-e5662e0c26f8] to "/home/pkgeval/.julia/compiled/v1.14/Bonito/jl_OPsSYP" (ProcessExited(1)).

in expression starting at /home/pkgeval/.julia/packages/BiochemicalVisualization/dGCps/src/BiochemicalVisualization.jl:1
in expression starting at /home/pkgeval/.julia/packages/BiochemicalVisualization/dGCps/test/runtests.jl:3

Testing failed after 314.68s

ERROR: LoadError: Package BiochemicalVisualization 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 1144.3s: package fails to precompile