Package evaluation of Biofilm on Julia 1.13.0-DEV.820 (69a2a571e8*) started at 2025-07-08T04:52:48.397 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 9.51s ################################################################################ # Installation # Installing Biofilm... Resolving package versions... Installed Libuuid_jll ───────────────────────── v2.41.0+0 Installed Bzip2_jll ─────────────────────────── v1.0.9+0 Installed libaom_jll ────────────────────────── v3.11.0+0 Installed libass_jll ────────────────────────── v0.15.2+0 Installed Qt6Base_jll ───────────────────────── v6.8.2+1 Installed CommonWorldInvalidations ──────────── v1.0.0 Installed MKL_jll ───────────────────────────── v2025.0.1+1 Installed HarfBuzz_jll ──────────────────────── v8.5.1+0 Installed Libtiff_jll ───────────────────────── v4.7.1+0 Installed FastPower ─────────────────────────── v1.1.3 Installed Cairo_jll ─────────────────────────── v1.18.5+0 Installed PlotThemes ────────────────────────── v3.3.0 Installed SIMDTypes ─────────────────────────── v0.1.0 Installed OrderedCollections ────────────────── v1.8.1 Installed Sundials ──────────────────────────── v4.28.0 Installed Functors ──────────────────────────── v0.4.12 Installed Xorg_libXinerama_jll ──────────────── v1.1.6+0 Installed OrdinaryDiffEqRosenbrock ──────────── v1.11.0 Installed Graphite2_jll ─────────────────────── v1.3.15+0 Installed OrdinaryDiffEqExponentialRK ───────── v1.4.0 Installed NonlinearSolveSpectralMethods ─────── v1.2.0 Installed libinput_jll ──────────────────────── v1.28.1+0 Installed EnzymeCore ────────────────────────── v0.8.12 Installed PreallocationTools ────────────────── v0.4.27 Installed OrdinaryDiffEqFIRK ────────────────── v1.12.0 Installed CpuId ─────────────────────────────── v0.3.1 Installed Fontconfig_jll ────────────────────── v2.16.0+0 Installed fzf_jll ───────────────────────────── v0.61.1+0 Installed Distances ─────────────────────────── v0.10.12 Installed NaNMath ───────────────────────────── v1.1.3 Installed OpenSpecFun_jll ───────────────────── v0.5.6+0 Installed StaticArrayInterface ──────────────── v1.8.0 Installed DiffEqCallbacks ───────────────────── v2.37.0 Installed LinearSolve ───────────────────────── v3.18.2 Installed OrdinaryDiffEqQPRK ────────────────── v1.1.0 Installed NonlinearSolveBase ────────────────── v1.12.0 Installed Ogg_jll ───────────────────────────── v1.3.6+0 Installed FastBroadcast ─────────────────────── v0.3.5 Installed Xorg_libxcb_jll ───────────────────── v1.17.1+0 Installed Opus_jll ──────────────────────────── v1.5.2+0 Installed Tables ────────────────────────────── v1.12.1 Installed EnumX ─────────────────────────────── v1.0.5 Installed NLSolversBase ─────────────────────── v7.10.0 Installed OrdinaryDiffEqLowOrderRK ──────────── v1.2.0 Installed Unzip ─────────────────────────────── v0.2.0 Installed BracketingNonlinearSolve ──────────── v1.3.0 Installed InverseFunctions ──────────────────── v0.1.17 Installed DiffEqBase ────────────────────────── v6.177.1 Installed LZO_jll ───────────────────────────── v2.10.3+0 Installed Reexport ──────────────────────────── v1.2.2 Installed Jieko ─────────────────────────────── v0.2.1 Installed Xorg_xcb_util_wm_jll ──────────────── v0.4.2+0 Installed FFMPEG ────────────────────────────── v0.4.2 Installed NonlinearSolve ────────────────────── v4.9.0 Installed Preferences ───────────────────────── v1.4.3 Installed Static ────────────────────────────── v1.2.0 Installed Missings ──────────────────────────── v1.2.0 Installed LERC_jll ──────────────────────────── v4.0.1+0 Installed RegistryInstances ─────────────────── v0.1.0 Installed LLVMOpenMP_jll ────────────────────── v18.1.8+0 Installed LaTeXStrings ──────────────────────── v1.4.0 Installed MaybeInplace ──────────────────────── v0.1.4 Installed TableTraits ───────────────────────── v1.0.1 Installed OrdinaryDiffEqNordsieck ───────────── v1.1.0 Installed SortingAlgorithms ─────────────────── v1.2.1 Installed OrdinaryDiffEqAdamsBashforthMoulton ─ v1.2.0 Installed Crayons ───────────────────────────── v4.1.1 Installed Grisu ─────────────────────────────── v1.0.2 Installed Xorg_libICE_jll ───────────────────── v1.1.2+0 Installed eudev_jll ─────────────────────────── v3.2.14+0 Installed RecursiveArrayTools ───────────────── v3.34.1 Installed EpollShim_jll ─────────────────────── v0.0.20230411+1 Installed Format ────────────────────────────── v1.3.7 Installed UnPack ────────────────────────────── v1.0.2 Installed OrdinaryDiffEqLinear ──────────────── v1.3.0 Installed MacroTools ────────────────────────── v0.5.16 Installed ADTypes ───────────────────────────── v1.15.0 Installed GenericSchur ──────────────────────── v0.5.5 Installed DataStructures ────────────────────── v0.18.22 Installed OpenSSH_jll ───────────────────────── v10.0.1+0 Installed DiffResults ───────────────────────── v1.1.0 Installed URIs ──────────────────────────────── v1.6.1 Installed UnitfulLatexify ───────────────────── v1.7.0 Installed ManualMemory ──────────────────────── v0.1.8 Installed FillArrays ────────────────────────── v1.13.0 Installed oneTBB_jll ────────────────────────── v2022.0.0+0 Installed AbstractTrees ─────────────────────── v0.4.5 Installed DelimitedFiles ────────────────────── v1.9.1 Installed Xorg_xcb_util_jll ─────────────────── v0.4.1+0 Installed UnicodeFun ────────────────────────── v0.4.1 Installed CodecZlib ─────────────────────────── v0.7.8 Installed SparseMatrixColorings ─────────────── v0.4.21 Installed StatsBase ─────────────────────────── v0.34.5 Installed Xorg_libXau_jll ───────────────────── v1.0.13+0 Installed x264_jll ──────────────────────────── v2021.5.5+0 Installed SciMLJacobianOperators ────────────── v0.1.6 Installed mtdev_jll ─────────────────────────── v1.1.7+0 Installed Xorg_libXfixes_jll ────────────────── v6.0.1+0 Installed ExprTools ─────────────────────────── v0.1.10 Installed Qt6ShaderTools_jll ────────────────── v6.8.2+1 Installed ArrayInterface ────────────────────── v7.19.0 Installed DataValueInterfaces ───────────────── v1.0.0 Installed IntelOpenMP_jll ───────────────────── v2025.0.4+0 Installed CEnum ─────────────────────────────── v0.5.0 Installed ConcreteStructs ───────────────────── v0.2.3 Installed Libffi_jll ────────────────────────── v3.4.7+0 Installed LoggingExtras ─────────────────────── v1.1.0 Installed CommonSubexpressions ──────────────── v0.3.1 Installed LayoutPointers ────────────────────── v0.1.17 Installed Pixman_jll ────────────────────────── v0.44.2+0 Installed Expat_jll ─────────────────────────── v2.6.5+0 Installed GPUArraysCore ─────────────────────── v0.2.0 Installed libdecor_jll ──────────────────────── v0.2.2+0 Installed IrrationalConstants ───────────────── v0.2.4 Installed TruncatedStacktraces ──────────────── v1.4.0 Installed TerminalLoggers ───────────────────── v0.1.7 Installed Contour ───────────────────────────── v0.6.3 Installed Xorg_libXcursor_jll ───────────────── v1.2.4+0 Installed libpng_jll ────────────────────────── v1.6.50+0 Installed Xorg_xcb_util_keysyms_jll ─────────── v0.4.1+0 Installed StableRNGs ────────────────────────── v1.0.3 Installed ColorVectorSpace ──────────────────── v0.11.0 Installed ArrayLayouts ──────────────────────── v1.11.1 Installed BitFlags ──────────────────────────── v0.1.9 Installed HTTP ──────────────────────────────── v1.10.17 Installed LeftChildRightSiblingTrees ────────── v0.2.0 Installed libfdk_aac_jll ────────────────────── v2.0.4+0 Installed IOCapture ─────────────────────────── v0.2.5 Installed OrdinaryDiffEqRKN ─────────────────── v1.1.0 Installed OrdinaryDiffEqExtrapolation ───────── v1.5.0 Installed OrdinaryDiffEqStabilizedIRK ───────── v1.3.0 Installed Scratch ───────────────────────────── v1.3.0 Installed FFMPEG_jll ────────────────────────── v4.4.4+1 Installed SimpleBufferStream ────────────────── v1.2.0 Installed Setfield ──────────────────────────── v1.1.2 Installed OrdinaryDiffEqPRK ─────────────────── v1.1.0 Installed Qt6Declarative_jll ────────────────── v6.8.2+1 Installed NonlinearSolveQuasiNewton ─────────── v1.6.0 Installed OrdinaryDiffEqHighOrderRK ─────────── v1.1.0 Installed DocStringExtensions ───────────────── v0.9.5 Installed Moshi ─────────────────────────────── v0.3.7 Installed CompositionsBase ──────────────────── v0.1.2 Installed Plots ─────────────────────────────── v1.40.16 Installed CommonSolve ───────────────────────── v0.2.4 Installed ForwardDiff ───────────────────────── v0.10.38 Installed DifferentiationInterface ──────────── v0.7.1 Installed OrdinaryDiffEq ────────────────────── v6.98.0 Installed OrdinaryDiffEqStabilizedRK ────────── v1.1.0 Installed RelocatableFolders ────────────────── v1.0.1 Installed Sundials_jll ──────────────────────── v5.2.3+0 Installed SimpleUnPack ──────────────────────── v1.1.0 Installed AliasTables ───────────────────────── v1.1.3 Installed JLFzf ─────────────────────────────── v0.1.11 Installed BitTwiddlingConvenienceFunctions ──── v0.1.6 Installed ConcurrentUtilities ───────────────── v2.5.0 Installed IteratorInterfaceExtensions ───────── v1.0.0 Installed LineSearch ────────────────────────── v0.1.4 Installed Krylov ────────────────────────────── v0.10.1 Installed FunctionWrappersWrappers ──────────── v0.1.3 Installed Biofilm ───────────────────────────── v1.2.2 Installed RecipesBase ───────────────────────── v1.3.4 Installed Xorg_libXi_jll ────────────────────── v1.8.3+0 Installed DataAPI ───────────────────────────── v1.16.0 Installed libevdev_jll ──────────────────────── v1.13.4+0 Installed OrdinaryDiffEqBDF ─────────────────── v1.6.0 Installed SciMLOperators ────────────────────── v1.3.1 Installed OrdinaryDiffEqSymplecticRK ────────── v1.3.0 Installed Wayland_jll ───────────────────────── v1.23.1+2 Installed ColorSchemes ──────────────────────── v3.30.0 Installed Documenter ────────────────────────── v1.13.0 Installed Colors ────────────────────────────── v0.13.1 Installed SciMLStructures ───────────────────── v1.7.0 Installed Measures ──────────────────────────── v0.3.2 Installed StaticArraysCore ──────────────────── v1.4.3 Installed StaticArrays ──────────────────────── v1.9.13 Installed FastGaussQuadrature ───────────────── v1.0.2 Installed Xorg_libxkbfile_jll ───────────────── v1.1.3+0 Installed OrdinaryDiffEqLowStorageRK ────────── v1.3.0 Installed Libglvnd_jll ──────────────────────── v1.7.1+1 Installed Latexify ──────────────────────────── v0.16.8 Installed ColorTypes ────────────────────────── v0.12.1 Installed Xorg_xkbcomp_jll ──────────────────── v1.4.7+0 Installed Requires ──────────────────────────── v1.3.1 Installed Glib_jll ──────────────────────────── v2.84.3+0 Installed OrdinaryDiffEqDifferentiation ─────── v1.10.0 Installed StringManipulation ────────────────── v0.4.1 Installed FunctionWrappers ──────────────────── v1.1.3 Installed OrdinaryDiffEqNonlinearSolve ──────── v1.10.0 Installed Vulkan_Loader_jll ─────────────────── v1.3.243+0 Installed DiffRules ─────────────────────────── v1.15.1 Installed LogExpFunctions ───────────────────── v0.3.29 Installed OrdinaryDiffEqCore ────────────────── v1.26.2 Installed Xorg_xcb_util_cursor_jll ──────────── v0.1.5+0 Installed PrettyTables ──────────────────────── v2.4.0 Installed JSON ──────────────────────────────── v0.21.4 Installed SciMLBase ─────────────────────────── v2.102.1 Installed OrdinaryDiffEqExplicitRK ──────────── v1.1.0 Installed NonlinearSolveFirstOrder ──────────── v1.5.0 Installed Git_jll ───────────────────────────── v2.50.0+0 Installed Parsers ───────────────────────────── v2.8.3 Installed FastClosures ──────────────────────── v0.3.2 Installed Xorg_xcb_util_renderutil_jll ──────── v0.3.10+0 Installed CloseOpenIntervals ────────────────── v0.1.13 Installed FiniteDiff ────────────────────────── v2.27.0 Installed OrdinaryDiffEqIMEXMultistep ───────── v1.3.0 Installed Xorg_libXdmcp_jll ─────────────────── v1.1.6+0 Installed Xorg_libSM_jll ────────────────────── v1.2.6+0 Installed OrdinaryDiffEqFeagin ──────────────── v1.1.0 Installed Polyester ─────────────────────────── v0.7.18 Installed Xorg_xkeyboard_config_jll ─────────── v2.44.0+0 Installed JLLWrappers ───────────────────────── v1.7.0 Installed Unitful ───────────────────────────── v1.23.1 Installed x265_jll ──────────────────────────── v3.5.0+0 Installed XZ_jll ────────────────────────────── v5.8.1+0 Installed OrdinaryDiffEqPDIRK ───────────────── v1.3.1 Installed Pango_jll ─────────────────────────── v1.56.3+0 Installed OrdinaryDiffEqSSPRK ───────────────── v1.3.0 Installed RecipesPipeline ───────────────────── v0.6.12 Installed ThreadingUtilities ────────────────── v0.5.5 Installed OrdinaryDiffEqSDIRK ───────────────── v1.3.0 Installed Accessors ─────────────────────────── v0.1.42 Installed Xorg_xtrans_jll ───────────────────── v1.6.0+0 Installed GR_jll ────────────────────────────── v0.73.17+0 Installed OrdinaryDiffEqDefault ─────────────── v1.5.0 Installed JpegTurbo_jll ─────────────────────── v3.1.1+0 Installed Dbus_jll ──────────────────────────── v1.16.2+0 Installed OrdinaryDiffEqVerner ──────────────── v1.2.0 Installed ExponentialUtilities ──────────────── v1.27.0 Installed Adapt ─────────────────────────────── v4.3.0 Installed Libmount_jll ──────────────────────── v2.41.0+0 Installed RuntimeGeneratedFunctions ─────────── v0.5.15 Installed ConstructionBase ──────────────────── v1.6.0 Installed ExceptionUnwrapping ───────────────── v0.1.11 Installed Compat ────────────────────────────── v4.17.0 Installed SymbolicIndexingInterface ─────────── v0.3.41 Installed TranscodingStreams ────────────────── v0.11.3 Installed Xorg_libX11_jll ───────────────────── v1.8.12+0 Installed ProgressLogging ───────────────────── v0.1.5 Installed StrideArraysCore ──────────────────── v0.5.7 Installed PlotUtils ─────────────────────────── v1.4.3 Installed TensorCore ────────────────────────── v0.1.1 Installed Statistics ────────────────────────── v1.11.1 Installed PrecompileTools ───────────────────── v1.3.2 Installed LazyArrays ────────────────────────── v2.6.1 Installed ExproniconLite ────────────────────── v0.10.14 Installed StatsAPI ──────────────────────────── v1.7.1 Installed TimerOutputs ──────────────────────── v0.5.29 Installed ProgressMeter ─────────────────────── v1.10.4 Installed Xorg_xcb_util_image_jll ───────────── v0.4.1+0 Installed MbedTLS ───────────────────────────── v1.1.9 Installed OpenSSL ───────────────────────────── v1.5.0 Installed MarkdownAST ───────────────────────── v0.1.2 Installed ChainRulesCore ────────────────────── v1.25.2 Installed xkbcommon_jll ─────────────────────── v1.9.2+0 Installed LazilyInitializedFields ───────────── v1.3.0 Installed GettextRuntime_jll ────────────────── v0.22.4+0 Installed CPUSummary ────────────────────────── v0.2.6 Installed FriBidi_jll ───────────────────────── v1.0.17+0 Installed NLsolve ───────────────────────────── v4.5.1 Installed GLFW_jll ──────────────────────────── v3.4.0+2 Installed LAME_jll ──────────────────────────── v3.100.3+0 Installed Xorg_libXrender_jll ───────────────── v0.9.12+0 Installed IfElse ────────────────────────────── v0.1.1 Installed libvorbis_jll ─────────────────────── v1.3.8+0 Installed PtrArrays ─────────────────────────── v1.3.0 Installed Parameters ────────────────────────── v0.12.3 Installed MuladdMacro ───────────────────────── v0.2.4 Installed XML2_jll ──────────────────────────── v2.13.6+1 Installed GR ────────────────────────────────── v0.73.17 Installed FreeType2_jll ─────────────────────── v2.13.4+0 Installed Libiconv_jll ──────────────────────── v1.18.0+0 Installed Git ───────────────────────────────── v1.4.0 Installed Showoff ───────────────────────────── v1.0.3 Installed FixedPointNumbers ─────────────────── v0.8.5 Installed SimpleNonlinearSolve ──────────────── v2.5.0 Installed SpecialFunctions ──────────────────── v2.5.1 Installed MbedTLS_jll ───────────────────────── v2.28.6+2 Installed Xorg_libXrandr_jll ────────────────── v1.5.5+0 Installed Xorg_libXext_jll ──────────────────── v1.3.7+0 Installed Qt6Wayland_jll ────────────────────── v6.8.2+1 Installed OrdinaryDiffEqFunctionMap ─────────── v1.1.1 Installed OrdinaryDiffEqTsit5 ───────────────── v1.1.0 Installed PolyesterWeave ────────────────────── v0.2.2 Installed LineSearches ──────────────────────── v7.4.0 Installed ANSIColoredPrinters ───────────────── v0.0.1 Installing 80 artifacts Installed artifact mtdev 79.6 KiB Installed artifact Vulkan_Loader 177.3 KiB Installed artifact Xorg_libXrandr 354.5 KiB Installed artifact Fontconfig 522.5 KiB Installed artifact Xorg_libXext 699.9 KiB Installed artifact LZO 208.9 KiB Installed artifact XZ 1.5 MiB Installed artifact Xorg_libXfixes 195.9 KiB Installed artifact x265 1.1 MiB Installed artifact Xorg_libXi 1.6 MiB Installed artifact libpng 328.4 KiB Installed artifact Xorg_libXau 36.6 KiB Installed artifact Qt6Wayland 2.2 MiB Installed artifact Pixman 372.2 KiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact Sundials 2.1 MiB Installed artifact Dbus 489.8 KiB Installed artifact Xorg_xkeyboard_config 537.5 KiB Installed artifact GettextRuntime 543.0 KiB Installed artifact Graphite2 120.2 KiB Installed artifact xkbcommon 263.7 KiB Installed artifact Libuuid 3.5 MiB Installed artifact XML2 2.5 MiB Installed artifact Xorg_libxcb 2.1 MiB Installed artifact libinput 1.0 MiB Installed artifact Cairo 2.2 MiB Installed artifact Xorg_xcb_util 39.5 KiB Installed artifact Pango 1.1 MiB Installed artifact Libtiff 3.2 MiB Installed artifact Xorg_xcb_util_renderutil 32.1 KiB Installed artifact Xorg_libXinerama 50.1 KiB Installed artifact libfdk_aac 2.8 MiB Installed artifact Glib 7.7 MiB Installed artifact LERC 272.9 KiB Installed artifact LAME 292.5 KiB Installed artifact Xorg_libXcursor 227.1 KiB Installed artifact Libiconv 1.9 MiB Installed artifact libass 372.4 KiB Installed artifact fzf 3.3 MiB Installed artifact Libffi 44.2 KiB Installed artifact Xorg_xtrans 48.2 KiB Installed artifact OpenSSH 4.2 MiB Installed artifact Xorg_libXdmcp 67.7 KiB Installed artifact Xorg_libICE 384.9 KiB Installed artifact Libglvnd 833.5 KiB Installed artifact libvorbis 271.0 KiB Installed artifact x264 2.0 MiB Installed artifact Xorg_libxkbfile 486.7 KiB Installed artifact Wayland 382.0 KiB Installed artifact eudev 3.9 MiB Installed artifact Xorg_xcb_util_keysyms 17.8 KiB Installed artifact Xorg_xcb_util_wm 147.9 KiB Installed artifact Ogg 250.3 KiB Installed artifact Xorg_libX11 13.9 MiB Installed artifact Xorg_libXrender 435.9 KiB Installed artifact libevdev 117.1 KiB Installed artifact HarfBuzz 1.7 MiB Installed artifact FFMPEG 10.6 MiB Installed artifact Opus 925.5 KiB Installed artifact GLFW 180.1 KiB Installed artifact Expat 271.4 KiB Installed artifact oneTBB 435.6 KiB Installed artifact Xorg_libSM 164.1 KiB Installed artifact FriBidi 78.9 KiB Installed artifact JpegTurbo 1.6 MiB Installed artifact Libmount 6.4 MiB Installed artifact GR 16.2 MiB Installed artifact Qt6ShaderTools 2.1 MiB Installed artifact libdecor 44.1 KiB Installed artifact Xorg_xcb_util_cursor 56.8 KiB Installed artifact Xorg_xcb_util_image 54.3 KiB Installed artifact Bzip2 503.5 KiB Installed artifact LLVMOpenMP 661.6 KiB Installed artifact Xorg_xkbcomp 274.8 KiB Installed artifact FreeType2 1.5 MiB Installed artifact Qt6Base 20.6 MiB Installed artifact libaom 6.4 MiB Installed artifact MbedTLS 2.1 MiB Installed artifact Qt6Declarative 21.6 MiB Installed artifact Git 48.8 MiB Updating `~/.julia/environments/v1.13/Project.toml` [210d8ceb] + Biofilm v1.2.2 Updating `~/.julia/environments/v1.13/Manifest.toml` [47edcb42] + ADTypes v1.15.0 [a4c015fc] + ANSIColoredPrinters v0.0.1 [1520ce14] + AbstractTrees v0.4.5 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.3.0 [66dad0bd] + AliasTables v1.1.3 [4fba245c] + ArrayInterface v7.19.0 [4c555306] + ArrayLayouts v1.11.1 [210d8ceb] + Biofilm v1.2.2 [d1d4a3ce] + BitFlags v0.1.9 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [70df07ce] + BracketingNonlinearSolve v1.3.0 [fa961155] + CEnum v0.5.0 [2a0fbf3d] + CPUSummary v0.2.6 [d360d2e6] + ChainRulesCore v1.25.2 [fb6a15b2] + CloseOpenIntervals v0.1.13 [944b1d66] + CodecZlib v0.7.8 [35d6a980] + ColorSchemes v3.30.0 [3da002f7] + ColorTypes v0.12.1 [c3611d14] + ColorVectorSpace v0.11.0 [5ae59095] + Colors v0.13.1 [38540f10] + CommonSolve v0.2.4 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.17.0 [a33af91c] + CompositionsBase v0.1.2 [2569d6c7] + ConcreteStructs v0.2.3 [f0e56b4a] + ConcurrentUtilities v2.5.0 [187b0558] + ConstructionBase v1.6.0 [d38c429a] + Contour v0.6.3 [adafc99b] + CpuId v0.3.1 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [2b5f629d] + DiffEqBase v6.177.1 ⌅ [459566f4] + DiffEqCallbacks v2.37.0 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [a0c0ee7d] + DifferentiationInterface v0.7.1 [b4f34e82] + Distances v0.10.12 [ffbed154] + DocStringExtensions v0.9.5 [e30172f5] + Documenter v1.13.0 [4e289a0a] + EnumX v1.0.5 [f151be2c] + EnzymeCore v0.8.12 [460bff9d] + ExceptionUnwrapping v0.1.11 [d4d017d3] + ExponentialUtilities v1.27.0 [e2ba6199] + ExprTools v0.1.10 [55351af7] + ExproniconLite v0.10.14 [c87230d0] + FFMPEG v0.4.2 [7034ab61] + FastBroadcast v0.3.5 [9aa1b823] + FastClosures v0.3.2 [442a2c76] + FastGaussQuadrature v1.0.2 [a4df4552] + FastPower v1.1.3 [1a297f60] + FillArrays v1.13.0 [6a86dc24] + FiniteDiff v2.27.0 [53c48c17] + FixedPointNumbers v0.8.5 [1fa38f19] + Format v1.3.7 ⌅ [f6369f11] + ForwardDiff v0.10.38 [069b7b12] + FunctionWrappers v1.1.3 [77dc65aa] + FunctionWrappersWrappers v0.1.3 ⌅ [d9f16b24] + Functors v0.4.12 [46192b85] + GPUArraysCore v0.2.0 [28b8d3ca] + GR v0.73.17 [c145ed77] + GenericSchur v0.5.5 [d7ba0133] + Git v1.4.0 [42e2da0e] + Grisu v1.0.2 [cd3eb016] + HTTP v1.10.17 [b5f81e59] + IOCapture v0.2.5 [615f187c] + IfElse v0.1.1 [3587e190] + InverseFunctions v0.1.17 [92d709cd] + IrrationalConstants v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [1019f520] + JLFzf v0.1.11 [692b3bcd] + JLLWrappers v1.7.0 [682c06a0] + JSON v0.21.4 [ae98c720] + Jieko v0.2.1 [ba0b0d4f] + Krylov v0.10.1 [b964fa9f] + LaTeXStrings v1.4.0 [23fbe1c1] + Latexify v0.16.8 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v1.6.0+0 [35ca27e7] + eudev_jll v3.2.14+0 [214eeab7] + fzf_jll v0.61.1+0 [a4ae2306] + libaom_jll v3.11.0+0 ⌅ [0ac62f75] + libass_jll v0.15.2+0 [1183f4f0] + libdecor_jll v0.2.2+0 [2db6ffa8] + libevdev_jll v1.13.4+0 [f638f0a6] + libfdk_aac_jll v2.0.4+0 [36db933b] + libinput_jll v1.28.1+0 [b53b4c65] + libpng_jll v1.6.50+0 [f27f6e37] + libvorbis_jll v1.3.8+0 [009596ad] + mtdev_jll v1.1.7+0 [1317d2d5] + oneTBB_jll v2022.0.0+0 ⌅ [1270edf5] + x264_jll v2021.5.5+0 ⌅ [dfaa095f] + x265_jll v3.5.0+0 [d8fb68d0] + xkbcommon_jll v1.9.2+0 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [f43a241f] + Downloads v1.7.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.12.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.13.0 [de0858da] + Printf v1.11.0 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.12.0 [f489334b] + StyledStrings v1.11.0 [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.14.1+1 [e37daf67] + LibGit2_jll v1.9.1+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.5.20 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.5+0 [458c3c95] + OpenSSL_jll v3.5.1+0 [efcefdf7] + PCRE2_jll v10.45.0+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 v1.65.0+0 [3f19e933] + p7zip_jll v17.5.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 40.76s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 4904.4 ms ✓ TestEnv 1 dependency successfully precompiled in 5 seconds. 26 already precompiled. Precompiling package dependencies... Precompilation completed after 2241.75s ################################################################################ # Testing # Testing Biofilm Status `/tmp/jl_QXCJ3y/Project.toml` [7d9f7c33] Accessors v0.1.42 [210d8ceb] Biofilm v1.2.2 ⌅ [459566f4] DiffEqCallbacks v2.37.0 [e30172f5] Documenter v1.13.0 [b964fa9f] LaTeXStrings v1.4.0 [442fdcdd] Measures v0.3.2 [1dea7af3] OrdinaryDiffEq v6.98.0 [d96e819e] Parameters v0.12.3 [91a5bcdd] Plots v1.40.16 [aea7be01] PrecompileTools v1.3.2 [92933f4c] ProgressMeter v1.10.4 [10745b16] Statistics v1.11.1 [c3572dad] Sundials v4.28.0 [5d786b92] TerminalLoggers v0.1.7 [3a884ed6] UnPack v1.0.2 [56ddb016] Logging v1.11.0 [de0858da] Printf v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_QXCJ3y/Manifest.toml` [47edcb42] ADTypes v1.15.0 [a4c015fc] ANSIColoredPrinters v0.0.1 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.3.0 [66dad0bd] AliasTables v1.1.3 [4fba245c] ArrayInterface v7.19.0 [4c555306] ArrayLayouts v1.11.1 [210d8ceb] Biofilm v1.2.2 [d1d4a3ce] BitFlags v0.1.9 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [70df07ce] BracketingNonlinearSolve v1.3.0 [fa961155] CEnum v0.5.0 [2a0fbf3d] CPUSummary v0.2.6 [d360d2e6] ChainRulesCore v1.25.2 [fb6a15b2] CloseOpenIntervals v0.1.13 [944b1d66] CodecZlib v0.7.8 [35d6a980] ColorSchemes v3.30.0 [3da002f7] ColorTypes v0.12.1 [c3611d14] ColorVectorSpace v0.11.0 [5ae59095] Colors v0.13.1 [38540f10] CommonSolve v0.2.4 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.17.0 [a33af91c] CompositionsBase v0.1.2 [2569d6c7] ConcreteStructs v0.2.3 [f0e56b4a] ConcurrentUtilities v2.5.0 [187b0558] ConstructionBase v1.6.0 [d38c429a] Contour v0.6.3 [adafc99b] CpuId v0.3.1 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [2b5f629d] DiffEqBase v6.177.1 ⌅ [459566f4] DiffEqCallbacks v2.37.0 [163ba53b] 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Testing Running tests... Running test_zeroLL ============== Starting Solver ... Time | Bug | Oxygen | min,max( Bug) | min,max( Oxygen) | Lf [μm] 0.000 | 10 | 10 | 0.08, 0.08 | 0, 0 | 10 0.100 | 23.3 | 59.5 | 0.08, 0.08 | 59.2, 59.5 | 63.4 0.200 | 60 | 64.6 | 0.08, 0.08 | 58.4, 64.5 | 305 0.300 | 159 | 34.6 | 0.08, 0.08 | 4.72, 34.1 | 672 0.400 | 254 | 2.99 | 0.08, 0.08 | 0.246, 2.91 | 459 0.500 | 257 | 2.93 | 0.08, 0.08 | 0.543, 2.87 | 355 0.600 | 257 | 2.92 | 0.08, 0.08 | 0.683, 2.87 | 324 0.700 | 257 | 2.93 | 0.08, 0.08 | 0.736, 2.87 | 314 0.800 | 257 | 2.93 | 0.08, 0.08 | 0.757, 2.87 | 310 0.900 | 257 | 2.93 | 0.08, 0.08 | 0.76, 2.88 | 310 Time | Bug | Oxygen | min,max( Bug) | min,max( Oxygen) | Lf [μm] 1.000 | 257 | 2.93 | 0.08, 0.08 | 0.762, 2.88 | 309 Checking result Running test_S_top ============== Starting Solver ... Time | Bug | Oxygen | min,max( Bug) | min,max( Oxygen) | Lf [μm] 0.000 | 10 | 10 | 0.08, 0.08 | 0, 0 | 10 0.100 | 23.3 | 59.4 | 0.08, 0.08 | 57.9, 58.1 | 62 0.200 | 59.9 | 63.4 | 0.08, 0.08 | 53.8, 55.5 | 302 0.300 | 158 | 33.7 | 0.08, 0.08 | 3.27, 26.3 | 653 0.400 | 253 | 3.02 | 0.08, 0.08 | 0.184, 1.88 | 426 0.500 | 256 | 2.96 | 0.08, 0.08 | 0.43, 1.89 | 315 0.600 | 257 | 2.95 | 0.08, 0.08 | 0.562, 1.9 | 281 0.700 | 257 | 2.95 | 0.08, 0.08 | 0.618, 1.91 | 268 0.800 | 257 | 2.95 | 0.08, 0.08 | 0.646, 1.92 | 262 0.900 | 257 | 2.95 | 0.08, 0.08 | 0.659, 1.92 | 260 Time | Bug | Oxygen | min,max( Bug) | min,max( Oxygen) | Lf [μm] 1.000 | 257 | 2.95 | 0.08, 0.08 | 0.667, 1.92 | 258 Checking result Running test_Diffusion ============== Starting Solver ... Time | Bug | Oxygen | min,max( Bug) | min,max( Oxygen) | Lf [μm] 0.000 | 10 | 25 | 0.08, 0.08 | 0, 0 | 50 1.000 | 43.9 | 12.2 | 0.08, 0.08 | 1.53, 10.6 | 173 Starting Solver ... Time | Bug | Oxygen | min,max( Bug) | min,max( Oxygen) | Lf [μm] 0.000 | 10 | 25 | 0.08, 0.08 | 0, 0 | 50 1.000 | 43.9 | 12.2 | 0.08, 0.08 | 1.51, 11.5 | 174 Starting Solver ... Time | Bug | Oxygen | min,max( Bug) | min,max( Oxygen) | Lf [μm] 0.000 | 10 | 25 | 0.08, 0.08 | 0, 0 | 50 1.000 | 43.9 | 12.2 | 0.08, 0.08 | 1.5, 11.9 | 174 Starting Solver ... Time | Bug | Oxygen | min,max( Bug) | min,max( Oxygen) | Lf [μm] 0.000 | 10 | 25 | 0.08, 0.08 | 0, 0 | 50 1.000 | 43.9 | 12.2 | 0.08, 0.08 | 1.5, 12 | 174 Starting Solver ... Time | Bug | Oxygen | min,max( Bug) | min,max( Oxygen) | Lf [μm] 0.000 | 10 | 25 | 0.08, 0.08 | 0, 0 | 50 1.000 | 43.9 | 12.2 | 0.08, 0.08 | 1.5, 12.1 | 174 Nz = 10, Error = 9.621e-02 Nz = 25, Error = 1.756e-02 Nz = 50, Error = 4.571e-03 Nz = 75, Error = 2.058e-03 Nz = 100, Error = 1.165e-03 Order = 1.918 Checking result Running test_SteadyState ============== Starting Solver ... Time | Bug | Oxygen | min,max( Bug) | min,max( Oxygen) | Lf [μm] 0.000 | 10 | 25 | 0.08, 0.08 | 0, 0 | 5 1.000 | 46.1 | 6.49 | 0.08, 0.08 | 6.49, 6.49 | 2.75e+03 2.000 | 46.8 | 6.47 | 0.08, 0.08 | 6.47, 6.47 | 2.72e+03 3.000 | 46.8 | 6.47 | 0.08, 0.08 | 6.47, 6.47 | 2.72e+03 4.000 | 46.8 | 6.47 | 0.08, 0.08 | 6.47, 6.47 | 2.72e+03 5.000 | 46.8 | 6.47 | 0.08, 0.08 | 6.47, 6.47 | 2.72e+03 6.000 | 46.8 | 6.47 | 0.08, 0.08 | 6.47, 6.47 | 2.72e+03 7.000 | 46.8 | 6.47 | 0.08, 0.08 | 6.47, 6.47 | 2.72e+03 8.000 | 46.8 | 6.47 | 0.08, 0.08 | 6.47, 6.47 | 2.72e+03 9.000 | 46.8 | 6.47 | 0.08, 0.08 | 6.47, 6.47 | 2.72e+03 Time | Bug | Oxygen | min,max( Bug) | min,max( Oxygen) | Lf [μm] 10.000 | 46.8 | 6.47 | 0.08, 0.08 | 6.47, 6.47 | 2.72e+03 % difference = 0.004475120995842444 Checking result Running test_TimeIntegration ============== Starting Solver ... Time | Bug | Oxygen | min,max( Bug) | min,max( Oxygen) | Lf [μm] 0.000 | 10 | 25 | 0.08, 0.08 | 0, 0 | 50 1.000 | 0.0228 | 100 | 0.08, 0.08 | 1.46e-85, 0.0717 | 25 Maximum relative error = 1.8393728836940682e-7 Checking result Running test_commandLineArgs ============== Unit Tests: Error During Test at /home/pkgeval/.julia/packages/Biofilm/uK5mS/test/runtests.jl:11 Got exception outside of a @test LoadError: Parameter file should contain a NamedTuple with name `p` Stacktrace: [1] error(s::String) @ Base ./error.jl:44 [2] process_command_line_args(ARGS::Vector{String}) @ Biofilm ~/.julia/packages/Biofilm/uK5mS/src/parameters.jl:272 [3] julia_main() @ Biofilm ~/.julia/packages/Biofilm/uK5mS/src/Biofilm.jl:19 [4] top-level scope @ ~/.julia/packages/Biofilm/uK5mS/test/test_commandLineArgs.jl:4 [5] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [6] top-level scope @ ~/.julia/packages/Biofilm/uK5mS/test/runtests.jl:16 [7] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1855 [inlined] [8] macro expansion @ ~/.julia/packages/Biofilm/uK5mS/test/runtests.jl:42 [inlined] [9] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [10] top-level scope @ none:6 [11] eval(m::Module, e::Any) @ Core ./boot.jl:489 [12] exec_options(opts::Base.JLOptions) @ Base ./client.jl:290 [13] _start() @ Base ./client.jl:557 in expression starting at /home/pkgeval/.julia/packages/Biofilm/uK5mS/test/test_commandLineArgs.jl:4 Test Summary: | Pass Error Total Time Unit Tests | 5 1 6 2m05.7s RNG of the outermost testset: Random.Xoshiro(0x7cef86978bb92a75, 0xa9d5626260d9805a, 0xbfe673a6bd554aff, 0x20499e6ad996aee1, 0x1bf344ec540eeaa5) ERROR: LoadError: Some tests did not pass: 5 passed, 0 failed, 1 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/Biofilm/uK5mS/test/runtests.jl:11 Testing failed after 217.33s ERROR: LoadError: Package Biofilm 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:2446 [3] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2301 [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:500 [5] 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:164 [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:152 [7] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:152 [inlined] [8] #test#81 @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:151 [inlined] [9] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [10] include(mod::Module, _path::String) @ Base ./Base.jl:309 [11] exec_options(opts::Base.JLOptions) @ Base ./client.jl:324 [12] _start() @ Base ./client.jl:557 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 2579.19s: package tests unexpectedly errored