Package evaluation to test MicrobeAgents on Julia 1.14.0-DEV.1563 (14ca1abc72*) started at 2026-01-16T01:13:11.071 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.14` Set-up completed after 10.72s ################################################################################ # Installation # Installing MicrobeAgents... Resolving package versions... Installed MKL_jll ───────────────────── v2025.2.0+0 Installed InlineStrings ─────────────── v1.4.5 Installed OrderedCollections ────────── v1.8.1 Installed Extents ───────────────────── v0.1.6 Installed SimpleWeightedGraphs ──────── v1.5.1 Installed OpenSpecFun_jll ───────────── v0.5.6+0 Installed Distances ─────────────────── v0.10.12 Installed SpatialIndexing ───────────── v0.1.6 Installed SentinelArrays ────────────── v1.4.9 Installed QuadGK ────────────────────── v2.11.2 Installed FileIO ────────────────────── v1.17.1 Installed NearestNeighbors ──────────── v0.4.26 Installed Tables ────────────────────── v1.12.1 Installed InverseFunctions ──────────── v0.1.17 Installed Reexport ──────────────────── v1.2.2 Installed Missings ──────────────────── v1.2.0 Installed TableTraits ───────────────── v1.0.1 Installed Preferences ───────────────── v1.5.1 Installed SortingAlgorithms ─────────── v1.2.2 Installed LaTeXStrings ──────────────── v1.4.0 Installed RangeArrays ───────────────── v0.3.2 Installed UnPack ────────────────────── v1.0.2 Installed Crayons ───────────────────── v4.1.1 Installed Polynomials ───────────────── v4.1.0 Installed Inflate ───────────────────── v0.1.5 Installed DataStructures ────────────── v0.18.22 Installed Autocorrelations ──────────── v0.1.1 Installed URIs ──────────────────────── v1.6.1 Installed MacroTools ────────────────── v0.5.16 Installed FillArrays ────────────────── v1.15.0 Installed AbstractTrees ─────────────── v0.4.5 Installed ArnoldiMethod ─────────────── v0.4.0 Installed Quaternions ───────────────── v0.7.7 Installed oneTBB_jll ────────────────── v2022.0.0+1 Installed IntelOpenMP_jll ───────────── v2025.2.0+0 Installed CodecZlib ─────────────────── v0.7.8 Installed DataValueInterfaces ───────── v1.0.0 Installed LoggingExtras ─────────────── v1.2.0 Installed LightSumTypes ─────────────── v5.2.2 Installed QuickHeaps ────────────────── v0.1.2 Installed StatsBase ─────────────────── v0.34.10 Installed IrrationalConstants ───────── v0.2.6 Installed RealDot ───────────────────── v0.1.0 Installed BitFlags ──────────────────── v0.1.9 Installed SimpleTraits ──────────────── v0.9.5 Installed MeanSquaredDisplacement ───── v0.3.1 Installed Scratch ───────────────────── v1.3.0 Installed HTTP ──────────────────────── v1.10.19 Installed SimpleBufferStream ────────── v1.2.0 Installed Setfield ──────────────────── v1.1.2 Installed PooledArrays ──────────────── v1.4.3 Installed WorkerUtilities ───────────── v1.6.1 Installed MetaGraphs ────────────────── v0.7.2 Installed PDMats ────────────────────── v0.11.37 Installed AxisArrays ────────────────── v0.4.8 Installed Agents ────────────────────── v6.2.10 Installed Rmath_jll ─────────────────── v0.5.1+0 Installed OnlineStatsBase ───────────── v1.7.1 Installed CompositionsBase ──────────── v0.1.2 Installed CommonSolve ───────────────── v0.2.6 Installed DocStringExtensions ───────── v0.9.5 Installed AliasTables ───────────────── v1.1.3 Installed LightXML ──────────────────── v0.9.3 Installed RecipesBase ───────────────── v1.3.4 Installed ConcurrentUtilities ───────── v2.5.0 Installed IteratorInterfaceExtensions ─ v1.0.0 Installed DataAPI ───────────────────── v1.16.0 Installed InvertedIndices ───────────── v1.3.1 Installed StaticArrays ──────────────── v1.9.16 Installed StaticArraysCore ──────────── v1.4.4 Installed AbstractFFTs ──────────────── v1.5.0 Installed StringManipulation ────────── v0.4.2 Installed Requires ──────────────────── v1.3.1 Installed MicrobeAgents ─────────────── v0.5.3 Installed LogExpFunctions ───────────── v0.3.29 Installed LightOSM ──────────────────── v0.3.1 Installed JSON ──────────────────────── v0.21.4 Installed Parsers ───────────────────── v2.8.3 Installed Rmath ─────────────────────── v0.9.0 Installed PrettyTables ──────────────── v3.1.2 Installed StatsFuns ─────────────────── v1.5.2 Installed Distributions ─────────────── v0.25.123 Installed JLLWrappers ───────────────── v1.7.1 Installed WeakRefStrings ────────────── v1.4.2 Installed GeometryBasics ────────────── v0.5.10 Installed IterTools ─────────────────── v1.10.0 Installed ArrayTools ────────────────── v0.2.7 Installed Accessors ─────────────────── v0.1.43 Installed DataFrames ────────────────── v1.8.1 Installed FilePathsBase ─────────────── v0.9.24 Installed StreamSampling ────────────── v0.6.9 Installed ConstructionBase ──────────── v1.6.0 Installed JLD2 ──────────────────────── v0.4.55 Installed CSV ───────────────────────── v0.10.15 Installed HypergeometricFunctions ───── v0.3.28 Installed Graphs ────────────────────── v1.13.1 Installed TranscodingStreams ────────── v0.11.3 Installed EarCut_jll ────────────────── v2.2.4+0 Installed ExceptionUnwrapping ───────── v0.1.11 Installed Compat ────────────────────── v4.18.1 Installed StatsAPI ──────────────────── v1.8.0 Installed Statistics ────────────────── v1.11.1 Installed OffsetArrays ──────────────── v1.17.0 Installed PrecompileTools ───────────── v1.3.3 Installed XML2_jll ──────────────────── v2.15.1+0 Installed PtrArrays ─────────────────── v1.3.0 Installed ProgressMeter ─────────────── v1.11.0 Installed Parameters ────────────────── v0.12.3 Installed MbedTLS ───────────────────── v1.1.9 Installed OpenSSL ───────────────────── v1.6.1 Installed HybridStructs ─────────────── v0.2.1 Installed StaticGraphs ──────────────── v0.3.1 Installed FFTW_jll ──────────────────── v3.3.11+0 Installed Libiconv_jll ──────────────── v1.18.0+0 Installed IntervalSets ──────────────── v0.7.13 Installed FFTW ──────────────────────── v1.10.0 Installed Rotations ─────────────────── v1.7.1 Installed SpecialFunctions ──────────── v2.6.1 Installed Bessels ───────────────────── v0.2.8 Installed MbedTLS_jll ───────────────── v2.28.1010+0 Installed DSP ───────────────────────── v0.8.4 Installing 7 artifacts Installed artifact Rmath 121.9 KiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact EarCut 80.5 KiB Installed artifact Libiconv 1.9 MiB Installed artifact FFTW 2.2 MiB Installed artifact XML2 2.2 MiB Installed artifact MbedTLS 2.2 MiB Updating `~/.julia/environments/v1.14/Project.toml` [b17a4bac] + MicrobeAgents v0.5.3 Updating `~/.julia/environments/v1.14/Manifest.toml` [621f4979] + AbstractFFTs v1.5.0 [1520ce14] + AbstractTrees v0.4.5 [7d9f7c33] + Accessors v0.1.43 [46ada45e] + Agents v6.2.10 [66dad0bd] + AliasTables v1.1.3 [ec485272] + ArnoldiMethod v0.4.0 ⌅ [1dc0ca97] + ArrayTools v0.2.7 [b9118d5e] + Autocorrelations v0.1.1 [39de3d68] + AxisArrays v0.4.8 [0e736298] + Bessels v0.2.8 [d1d4a3ce] + BitFlags v0.1.9 [336ed68f] + CSV v0.10.15 [944b1d66] + CodecZlib v0.7.8 [38540f10] + CommonSolve v0.2.6 [34da2185] + Compat v4.18.1 [a33af91c] + CompositionsBase v0.1.2 [f0e56b4a] + ConcurrentUtilities v2.5.0 [187b0558] + ConstructionBase v1.6.0 [a8cc5b0e] + Crayons v4.1.1 [717857b8] + DSP v0.8.4 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.8.1 ⌅ [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.123 [ffbed154] + DocStringExtensions v0.9.5 [460bff9d] + ExceptionUnwrapping v0.1.11 [411431e0] + Extents v0.1.6 [7a1cc6ca] + FFTW v1.10.0 [5789e2e9] + FileIO v1.17.1 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.15.0 [5c1252a2] + GeometryBasics v0.5.10 ⌃ [86223c79] + Graphs v1.13.1 [cd3eb016] + HTTP v1.10.19 [49057fa9] + HybridStructs v0.2.1 [34004b35] + HypergeometricFunctions v0.3.28 [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 [92d709cd] + IrrationalConstants v0.2.6 [c8e1da08] + IterTools v1.10.0 [82899510] + IteratorInterfaceExtensions v1.0.0 ⌅ [033835bb] + JLD2 v0.4.55 [692b3bcd] + JLLWrappers v1.7.1 ⌅ [682c06a0] + JSON v0.21.4 [b964fa9f] + LaTeXStrings v1.4.0 [d1922b25] + LightOSM v0.3.1 [f56206fc] + LightSumTypes v5.2.2 [9c8b4983] + LightXML v0.9.3 [2ab3a3ac] + LogExpFunctions v0.3.29 [e6f89c97] + LoggingExtras v1.2.0 [1914dd2f] + MacroTools v0.5.16 [739be429] + MbedTLS v1.1.9 [13c93d70] + MeanSquaredDisplacement v0.3.1 ⌅ [626554b9] + MetaGraphs v0.7.2 [b17a4bac] + MicrobeAgents v0.5.3 [e1d29d7a] + Missings v1.2.0 [b8a86587] + NearestNeighbors v0.4.26 [6fe1bfb0] + OffsetArrays v1.17.0 [925886fa] + OnlineStatsBase v1.7.1 [4d8831e6] + OpenSSL v1.6.1 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.37 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.8.3 [f27b6e38] + Polynomials v4.1.0 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.1 [08abe8d2] + PrettyTables v3.1.2 [92933f4c] + ProgressMeter v1.11.0 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [94ee1d12] + Quaternions v0.7.7 ⌅ [30b38841] + QuickHeaps v0.1.2 [b3c3ace0] + RangeArrays v0.3.2 [c1ae055f] + RealDot v0.1.0 [3cdcf5f2] + RecipesBase v1.3.4 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [79098fc4] + Rmath v0.9.0 [6038ab10] + Rotations v1.7.1 [6c6a2e73] + Scratch v1.3.0 [91c51154] + SentinelArrays v1.4.9 [efcf1570] + Setfield v1.1.2 [777ac1f9] + SimpleBufferStream v1.2.0 [699a6c99] + SimpleTraits v0.9.5 [47aef6b3] + SimpleWeightedGraphs v1.5.1 [a2af1166] + SortingAlgorithms v1.2.2 [d4ead438] + SpatialIndexing v0.1.6 [276daf66] + SpecialFunctions v2.6.1 [90137ffa] + StaticArrays v1.9.16 [1e83bf80] + StaticArraysCore v1.4.4 ⌅ [4c8beaf5] + StaticGraphs v0.3.1 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.8.0 [2913bbd2] + StatsBase v0.34.10 [4c63d2b9] + StatsFuns v1.5.2 ⌅ [ff63dad9] + StreamSampling v0.6.9 [892a3eda] + StringManipulation v0.4.2 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [3bb67fe8] + TranscodingStreams v0.11.3 [5c2747f8] + URIs v1.6.1 [3a884ed6] + UnPack v1.0.2 [ea10d353] + WeakRefStrings v1.4.2 [76eceee3] + WorkerUtilities v1.6.1 [5ae413db] + EarCut_jll v2.2.4+0 [f5851436] + FFTW_jll v3.3.11+0 [1d5cc7b8] + IntelOpenMP_jll v2025.2.0+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [856f044c] + MKL_jll v2025.2.0+0 [c8ffd9c3] + MbedTLS_jll v2.28.1010+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [02c8fc9c] + XML2_jll v2.15.1+0 [1317d2d5] + oneTBB_jll v2022.0.0+1 [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 v1.13.0 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v1.0.0 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.13.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.14.0 [de0858da] + Printf v1.11.0 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v1.0.0 [9e88b42a] + Serialization v1.11.0 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.13.0 [f489334b] + StyledStrings v1.13.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.18.0+0 [e37daf67] + LibGit2_jll v1.9.2+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.12.2 [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 12.99s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 4571.9 ms ✓ TestEnv 1 dependency successfully precompiled in 5 seconds. 27 already precompiled. Precompiling package dependencies... Precompiling packages... 4581.3 ms ✓ MacroTools 1772.9 ms ✓ InlineStrings 860.6 ms ✓ Reexport 1319.9 ms ✓ ConstructionBase 2071.4 ms ✓ IrrationalConstants 789.9 ms ✓ DataValueInterfaces 869.7 ms ✓ StatsAPI 1170.3 ms ✓ IterTools 1089.6 ms ✓ IntervalSets 978.1 ms ✓ Inflate 863.8 ms ✓ CommonSolve 1230.2 ms ✓ TranscodingStreams 883.0 ms ✓ LaTeXStrings 1182.2 ms ✓ Statistics 1022.5 ms ✓ StaticArraysCore 855.7 ms ✓ PtrArrays 826.7 ms ✓ SimpleBufferStream 982.9 ms ✓ DataAPI 906.2 ms ✓ RealDot 1231.7 ms ✓ URIs 886.0 ms ✓ InvertedIndices 1026.1 ms ✓ InverseFunctions 1412.1 ms ✓ ArrayTools 887.6 ms ✓ CompositionsBase 970.1 ms ✓ BitFlags 1148.7 ms ✓ AbstractTrees 1037.5 ms ✓ AbstractFFTs 1082.1 ms ✓ WorkerUtilities 2030.0 ms ✓ FillArrays 831.6 ms ✓ UnPack 1931.6 ms ✓ SpatialIndexing 2507.8 ms ✓ Bessels 1087.8 ms ✓ Extents 944.4 ms ✓ RangeArrays 1355.4 ms ✓ OrderedCollections 1282.4 ms ✓ DocStringExtensions 2094.1 ms ✓ OffsetArrays 953.5 ms ✓ IteratorInterfaceExtensions 1958.9 ms ✓ Crayons 1191.1 ms ✓ Requires 1834.4 ms ✓ ConcurrentUtilities 1881.7 ms ✓ PDMats 1001.9 ms ✓ Scratch 2067.5 ms ✓ SentinelArrays 1331.7 ms ✓ LoggingExtras 2085.1 ms ✓ ProgressMeter 1456.4 ms ✓ Compat 1231.6 ms ✓ Preferences 1853.4 ms ✓ ExceptionUnwrapping 3806.7 ms ✓ SimpleTraits 978.2 ms ✓ ConstructionBase → ConstructionBaseLinearAlgebraExt 1117.4 ms ✓ IntervalSets → IntervalSetsRandomExt 1049.6 ms ✓ ConstructionBase → ConstructionBaseIntervalSetsExt 1389.8 ms ✓ CodecZlib 1658.0 ms ✓ Statistics → SparseArraysExt 1564.6 ms ✓ Distances 804.2 ms ✓ IntervalSets → IntervalSetsStatisticsExt 996.4 ms ✓ AliasTables 983.5 ms ✓ Missings 1032.1 ms ✓ PooledArrays 1106.4 ms ✓ Quaternions 980.3 ms ✓ InverseFunctions → InverseFunctionsDatesExt 1783.7 ms ✓ InverseFunctions → InverseFunctionsTestExt 1000.5 ms ✓ CompositionsBase → CompositionsBaseInverseFunctionsExt 3988.3 ms ✓ OpenSSL 4331.0 ms ✓ AbstractFFTs → AbstractFFTsTestExt 1549.7 ms ✓ FillArrays → FillArraysSparseArraysExt 1058.6 ms ✓ FillArrays → FillArraysStatisticsExt 1011.6 ms ✓ Parameters 1436.0 ms ✓ LogExpFunctions 844.3 ms ✓ TableTraits 9389.4 ms ✓ FileIO 1690.7 ms ✓ FillArrays → FillArraysPDMatsExt 843.6 ms ✓ Compat → CompatLinearAlgebraExt 966.7 ms ✓ PrecompileTools 1113.8 ms ✓ JLLWrappers 2861.5 ms ✓ Setfield 1568.8 ms ✓ AxisArrays 1323.9 ms ✓ Distances → DistancesSparseArraysExt 5129.1 ms ✓ Accessors 841.6 ms ✓ LogExpFunctions → LogExpFunctionsInverseFunctionsExt 1857.0 ms ✓ Tables 2081.9 ms ✓ FilePathsBase 3675.8 ms ✓ DataStructures 3231.4 ms ✓ StringManipulation 13574.3 ms ✓ StaticArrays 2813.2 ms ✓ RecipesBase 15176.2 ms ✓ Parsers 3175.7 ms ✓ LightSumTypes 40497.6 ms ✓ JLD2 1571.7 ms ✓ EarCut_jll 1442.0 ms ✓ Rmath_jll 1424.6 ms ✓ OpenSpecFun_jll 4731.0 ms ✓ IntelOpenMP_jll 4821.0 ms ✓ oneTBB_jll 1933.6 ms ✓ FFTW_jll 1367.9 ms ✓ Libiconv_jll 1536.0 ms ✓ MbedTLS_jll 2003.2 ms ✓ Accessors → TestExt 2459.2 ms ✓ Accessors → IntervalSetsExt 2260.8 ms ✓ Accessors → LinearAlgebraExt 2685.5 ms ✓ FilePathsBase → FilePathsBaseTestExt 1073.8 ms ✓ FilePathsBase → FilePathsBaseMmapExt 1661.2 ms ✓ SortingAlgorithms 2855.7 ms ✓ QuadGK 1891.5 ms ✓ QuickHeaps 36899.0 ms ✓ PrettyTables 4066.9 ms ✓ ArnoldiMethod 1482.0 ms ✓ StaticArrays → StaticArraysStatisticsExt 1526.1 ms ✓ ConstructionBase → ConstructionBaseStaticArraysExt 5357.8 ms ✓ Rotations 1554.4 ms ✓ Accessors → StaticArraysExt 2002.0 ms ✓ IntervalSets → IntervalSetsRecipesBaseExt 38280.1 ms ✓ Polynomials 3814.9 ms ✓ JSON 1050.9 ms ✓ InlineStrings → ParsersExt 21101.5 ms ✓ GeometryBasics 1492.0 ms ✓ Rmath 4889.4 ms ✓ SpecialFunctions  Downloading artifact: IntelOpenMP  Downloading artifact: oneTBB 11088.7 ms ✓ MKL_jll 1839.0 ms ✓ XML2_jll 2269.1 ms ✓ MbedTLS 4695.9 ms ✓ HybridStructs 5006.0 ms ✓ StatsBase 79127.7 ms ✓ DataFrames 8068.9 ms ✓ NearestNeighbors 10058.4 ms ✓ Graphs 1976.5 ms ✓ Rotations → RotationsRecipesBaseExt 2599.7 ms ✓ WeakRefStrings 2263.8 ms ✓ HypergeometricFunctions 6755.9 ms ✓ FFTW 1198.7 ms ✓ LightXML 25467.8 ms ✓ HTTP 2936.7 ms ✓ OnlineStatsBase 1885.4 ms ✓ PDMats → StatsBaseExt 9113.4 ms ✓ StaticGraphs 9141.1 ms ✓ MetaGraphs 3574.8 ms ✓ SimpleWeightedGraphs 25980.0 ms ✓ CSV 2876.7 ms ✓ StatsFuns 3558.5 ms ✓ Polynomials → PolynomialsFFTWExt 6707.3 ms ✓ FileIO → HTTPExt 1113.0 ms ✓ StatsFuns → StatsFunsInverseFunctionsExt 9697.7 ms ✓ Distributions 6870.4 ms ✓ DSP 16393.9 ms ✓ LightOSM 3487.8 ms ✓ Distributions → DistributionsTestExt 9457.9 ms ✓ StreamSampling 3782.7 ms ✓ DSP → OffsetArraysExt 3939.8 ms ✓ Autocorrelations 31331.9 ms ✓ Agents 4257.7 ms ✓ MeanSquaredDisplacement  Update message: Agents v6  This is a new major version of Agents.jl with lots of cool stuff! However, from this version onwards, we will stop posting update messages to the REPL console!  If you want to be updated, follow this discourse post:  https://discourse.julialang.org/t/agents-jl-v6-releases-announcement-post/111678  (and see the CHANGELOG.md file online for a list of changes!) WARNING: Constructor for type "HyperSphere" was extended in `MicrobeAgents` without explicit qualification or import.  NOTE: Assumed "HyperSphere" refers to `GeometryBasics.HyperSphere`. This behavior is deprecated and may differ in future versions.  NOTE: This behavior may have differed in Julia versions prior to 1.12.  Hint: If you intended to create a new generic function of the same name, use `function HyperSphere end`.  Hint: To silence the warning, qualify `HyperSphere` as `GeometryBasics.HyperSphere` in the method signature or explicitly `import GeometryBasics: HyperSphere`. 37912.4 ms ✓ MicrobeAgents 153 dependencies successfully precompiled in 729 seconds. 41 already precompiled. 2 dependencies had output during precompilation: ┌ MKL_jll │ Downloading artifact: IntelOpenMP │ Downloading artifact: oneTBB └ ┌ MicrobeAgents │ Update message: Agents v6 │ │ This is a new major version of Agents.jl with lots of cool stuff! │ However, from this version onwards, we will stop posting update messages │ to the REPL console! │ │ If you want to be updated, follow this discourse post: │ │ https://discourse.julialang.org/t/agents-jl-v6-releases-announcement-post/111678 │ │ (and see the CHANGELOG.md file online for a list of changes!) │ WARNING: Constructor for type "HyperSphere" was extended in `MicrobeAgents` without explicit qualification or import. │ NOTE: Assumed "HyperSphere" refers to `GeometryBasics.HyperSphere`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function HyperSphere end`. │ Hint: To silence the warning, qualify `HyperSphere` as `GeometryBasics.HyperSphere` in the method signature or explicitly `import GeometryBasics: HyperSphere`. └ Precompilation completed after 731.79s ################################################################################ # Testing # Testing MicrobeAgents Status `/tmp/jl_eYDKKP/Project.toml` [46ada45e] Agents v6.2.10 [b9118d5e] Autocorrelations v0.1.1 [a93c6f00] DataFrames v1.8.1 [31c24e10] Distributions v0.25.123 [5c1252a2] GeometryBasics v0.5.10 [f56206fc] LightSumTypes v5.2.2 [13c93d70] MeanSquaredDisplacement v0.3.1 [b17a4bac] MicrobeAgents v0.5.3 [94ee1d12] Quaternions v0.7.7 [90137ffa] StaticArrays v1.9.16 [2913bbd2] StatsBase v0.34.10 [37e2e46d] LinearAlgebra v1.13.0 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_eYDKKP/Manifest.toml` [621f4979] AbstractFFTs v1.5.0 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.43 [46ada45e] Agents v6.2.10 [66dad0bd] AliasTables v1.1.3 [ec485272] ArnoldiMethod v0.4.0 ⌅ [1dc0ca97] ArrayTools v0.2.7 [b9118d5e] Autocorrelations v0.1.1 [39de3d68] AxisArrays v0.4.8 [0e736298] Bessels v0.2.8 [d1d4a3ce] BitFlags v0.1.9 [336ed68f] CSV v0.10.15 [944b1d66] CodecZlib v0.7.8 [38540f10] CommonSolve v0.2.6 [34da2185] Compat v4.18.1 [a33af91c] CompositionsBase v0.1.2 [f0e56b4a] ConcurrentUtilities v2.5.0 [187b0558] ConstructionBase v1.6.0 [a8cc5b0e] Crayons v4.1.1 [717857b8] DSP v0.8.4 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.8.1 ⌅ [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.123 [ffbed154] DocStringExtensions v0.9.5 [460bff9d] ExceptionUnwrapping v0.1.11 [411431e0] Extents v0.1.6 [7a1cc6ca] FFTW v1.10.0 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[276daf66] SpecialFunctions v2.6.1 [90137ffa] StaticArrays v1.9.16 [1e83bf80] StaticArraysCore v1.4.4 ⌅ [4c8beaf5] StaticGraphs v0.3.1 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.8.0 [2913bbd2] StatsBase v0.34.10 [4c63d2b9] StatsFuns v1.5.2 ⌅ [ff63dad9] StreamSampling v0.6.9 [892a3eda] StringManipulation v0.4.2 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [3bb67fe8] TranscodingStreams v0.11.3 [5c2747f8] URIs v1.6.1 [3a884ed6] UnPack v1.0.2 [ea10d353] WeakRefStrings v1.4.2 [76eceee3] WorkerUtilities v1.6.1 [5ae413db] EarCut_jll v2.2.4+0 [f5851436] FFTW_jll v3.3.11+0 [1d5cc7b8] IntelOpenMP_jll v2025.2.0+0 [94ce4f54] Libiconv_jll v1.18.0+0 [856f044c] MKL_jll v2025.2.0+0 [c8ffd9c3] MbedTLS_jll v2.28.1010+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [02c8fc9c] XML2_jll v2.15.1+0 [1317d2d5] oneTBB_jll v2022.0.0+1 [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 v1.13.0 [4af54fe1] LazyArtifacts v1.11.0 [b27032c2] LibCURL v1.0.0 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.13.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.3.0 [44cfe95a] Pkg v1.14.0 [de0858da] Printf v1.11.0 [3fa0cd96] REPL v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v1.0.0 [9e88b42a] Serialization v1.11.0 [1a1011a3] SharedArrays v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.13.0 [f489334b] StyledStrings v1.13.0 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] LibCURL_jll v8.18.0+0 [e37daf67] LibGit2_jll v1.9.2+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.12.2 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.4+0 [efcefdf7] PCRE2_jll v10.47.0+0 [bea87d4a] SuiteSparse_jll v7.10.1+0 [83775a58] Zlib_jll v1.3.1+2 [3161d3a3] Zstd_jll v1.5.7+1 [8e850b90] libblastrampoline_jll v5.15.0+0 [8e850ede] nghttp2_jll v1.68.0+1 [3f19e933] p7zip_jll v17.7.0+0 Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. Testing Running tests... WARNING: Constructor for type "HyperSphere" was extended in `MicrobeAgents` without explicit qualification or import.  NOTE: Assumed "HyperSphere" refers to `GeometryBasics.HyperSphere`. This behavior is deprecated and may differ in future versions.  NOTE: This behavior may have differed in Julia versions prior to 1.12.  Hint: If you intended to create a new generic function of the same name, use `function HyperSphere end`.  Hint: To silence the warning, qualify `HyperSphere` as `GeometryBasics.HyperSphere` in the method signature or explicitly `import GeometryBasics: HyperSphere`. 1 dependency had output during precompilation: ┌ MicrobeAgents │ [Output was shown above] └ ┌ Warning: From version 6.0 it is necessary to pass at least one of agent_step! or model_step! │ as keywords argument when defining the model. The old version is deprecated. │ Passing these functions to methods of the library which required them before │ version 6.0 is also deprecated since they can be retrieved from the model instance. │ In particular this means it is not needed to pass the stepping functions in step!, │ run!, offline_run!, ensemblerun!, abmplot, abmplot!, abmexploration, abmvideo and │ ABMObservable. └ @ Agents ~/.julia/packages/Agents/WuWeG/src/core/model_standard.jl:145 ┌ Warning: Agent type is not concrete. If your agent is parametrically typed, you're probably │ seeing this warning because you gave `Agent` instead of `Agent{Float64}` │ (for example) to this function. You can also create an instance of your agent │ and pass it to this function. If you want to use `Union` types for mixed agent │ models, you can silence this warning. │ If you are using `ContinuousAgent{D}` as agent type in version 6+, update │ to the new two-parameter version `ContinuousAgent{D,Float64}` to obtain │ the same behavior as previous Agents.jl versions. └ @ Agents ~/.julia/packages/Agents/WuWeG/src/core/model_validation.jl:15 Test Summary: | Pass Total Time MicrobeAgents.jl | 385 385 2m24.1s Testing MicrobeAgents tests passed Testing completed after 766.1s PkgEval succeeded after 1600.16s