Package evaluation to test UMAP on Julia 1.12.7-DEV.42 (6f510b6086*) started at 2026-06-19T20:52:16.511 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.12` Set-up completed after 7.99s ################################################################################ # Installation # Installing UMAP... Resolving package versions... Updating `~/.julia/environments/v1.12/Project.toml` [c4f8c510] + UMAP v0.3.0 Updating `~/.julia/environments/v1.12/Manifest.toml` [47edcb42] + ADTypes v1.22.0 [7d9f7c33] + Accessors v0.1.44 [79e6a3ab] + Adapt v4.6.1 [66dad0bd] + AliasTables v1.1.3 [ec485272] + ArnoldiMethod v0.4.0 [7d9fca2a] + Arpack v0.5.4 [4fba245c] + ArrayInterface v7.25.0 [bbf7d656] + CommonSubexpressions v0.3.1 [34da2185] + Compat v4.18.1 [a33af91c] + CompositionsBase v0.1.2 [187b0558] + ConstructionBase v1.6.0 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.19.5 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.16.0 [a0c0ee7d] + DifferentiationInterface v0.7.18 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.127 [ffbed154] + DocStringExtensions v0.9.5 [1a297f60] + FillArrays v1.16.0 [6a86dc24] + FiniteDiff v2.31.0 [f6369f11] + ForwardDiff v1.4.1 [86223c79] + Graphs v1.14.0 [34004b35] + HypergeometricFunctions v0.3.28 [d25df0c9] + Inflate v0.1.5 [3587e190] + InverseFunctions v0.1.17 [92d709cd] + IrrationalConstants v0.2.6 [692b3bcd] + JLLWrappers v1.8.0 [2ab3a3ac] + LogExpFunctions v1.0.1 ⌅ [2fda8390] + LsqFit v0.15.1 [1914dd2f] + MacroTools v0.5.16 [e1d29d7a] + Missings v1.2.0 ⌅ [d41bc354] + NLSolversBase v7.10.0 [77ba4419] + NaNMath v1.1.4 ⌅ [dd2c4c9e] + NearestNeighborDescent v0.3.8 ⌅ [bac558e1] + OrderedCollections v1.8.2 [90014a1f] + PDMats v0.11.37 [aea7be01] + PrecompileTools v1.3.4 [21216c6a] + Preferences v1.5.2 [43287f4e] + PtrArrays v1.4.0 [1fd47b50] + QuadGK v2.11.3 [189a3867] + Reexport v1.2.2 [79098fc4] + Rmath v0.9.0 [efcf1570] + Setfield v1.1.2 [699a6c99] + SimpleTraits v0.9.6 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.8.0 [90137ffa] + StaticArrays v1.9.18 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.8.0 [2913bbd2] + StatsBase v0.34.12 [4c63d2b9] + StatsFuns v2.2.0 [c4f8c510] + UMAP v0.3.0 ⌅ [68821587] + Arpack_jll v3.5.2+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.12.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [de0858da] + Printf 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 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [bea87d4a] + SuiteSparse_jll v7.8.3+2 [8e850b90] + libblastrampoline_jll v5.15.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 6.34s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompiling packages... 4760.7 ms ✓ NearestNeighborDescent 87794.9 ms ✓ UMAP 2 dependencies successfully precompiled in 98 seconds. 143 already precompiled. 9 dependencies precompiled but different versions are currently loaded (Base64, Dates, JuliaSyntaxHighlighting, Logging, Markdown, Printf, StyledStrings, TOML and UUIDs). Restart julia to access the new versions. Otherwise, 66 dependents of these packages may trigger further precompilation to work with the unexpected versions. Precompilation completed after 114.92s ################################################################################ # Testing # Testing UMAP Status `/tmp/jl_adkTwu/Project.toml` [7d9f7c33] Accessors v0.1.44 [a0c0ee7d] DifferentiationInterface v0.7.18 [b4f34e82] Distances v0.10.12 ⌅ [dd2c4c9e] NearestNeighborDescent v0.3.8 [c4f8c510] UMAP v0.3.0 [e88e6eb3] Zygote v0.7.11 [37e2e46d] LinearAlgebra v1.12.0 [9a3f8284] Random v1.11.0 [2f01184e] SparseArrays v1.12.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_adkTwu/Manifest.toml` [47edcb42] ADTypes v1.22.0 [621f4979] AbstractFFTs v1.5.0 [7d9f7c33] Accessors v0.1.44 [79e6a3ab] Adapt v4.6.1 [66dad0bd] AliasTables v1.1.3 [ec485272] ArnoldiMethod v0.4.0 [7d9fca2a] Arpack v0.5.4 [4fba245c] ArrayInterface v7.25.0 [082447d4] ChainRules v1.73.0 [d360d2e6] ChainRulesCore v1.26.1 [bbf7d656] CommonSubexpressions v0.3.1 [34da2185] Compat v4.18.1 [a33af91c] CompositionsBase v0.1.2 [187b0558] ConstructionBase v1.6.0 [9a962f9c] DataAPI v1.16.0 [864edb3b] DataStructures v0.19.5 [e2d170a0] DataValueInterfaces v1.0.0 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.16.0 [a0c0ee7d] DifferentiationInterface v0.7.18 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.127 [ffbed154] DocStringExtensions v0.9.5 [1a297f60] FillArrays v1.16.0 [6a86dc24] FiniteDiff v2.31.0 [f6369f11] ForwardDiff v1.4.1 [46192b85] GPUArraysCore v0.2.0 [86223c79] Graphs v1.14.0 [34004b35] HypergeometricFunctions v0.3.28 [7869d1d1] IRTools v0.4.17 [d25df0c9] Inflate v0.1.5 [3587e190] InverseFunctions v0.1.17 [92d709cd] IrrationalConstants v0.2.6 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.8.0 [2ab3a3ac] LogExpFunctions v1.0.1 ⌅ [2fda8390] LsqFit v0.15.1 [1914dd2f] MacroTools v0.5.16 [e1d29d7a] Missings v1.2.0 ⌅ [d41bc354] NLSolversBase v7.10.0 [77ba4419] NaNMath v1.1.4 ⌅ [dd2c4c9e] NearestNeighborDescent v0.3.8 ⌅ [bac558e1] OrderedCollections v1.8.2 [90014a1f] PDMats v0.11.37 [aea7be01] PrecompileTools v1.3.4 [21216c6a] Preferences v1.5.2 [43287f4e] PtrArrays v1.4.0 [1fd47b50] QuadGK v2.11.3 [c1ae055f] RealDot v0.1.0 [189a3867] Reexport v1.2.2 [79098fc4] Rmath v0.9.0 [efcf1570] Setfield v1.1.2 [699a6c99] SimpleTraits v0.9.6 [a2af1166] SortingAlgorithms v1.2.2 [dc90abb0] SparseInverseSubset v0.1.2 [276daf66] SpecialFunctions v2.8.0 [90137ffa] StaticArrays v1.9.18 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.8.0 [2913bbd2] StatsBase v0.34.12 [4c63d2b9] StatsFuns v2.2.0 [09ab397b] StructArrays v0.7.3 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [c4f8c510] UMAP v0.3.0 [e88e6eb3] Zygote v0.7.11 [700de1a5] ZygoteRules v0.2.7 ⌅ [68821587] Arpack_jll v3.5.2+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [8ba89e20] Distributed v1.11.0 [9fa8497b] Future v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [ac6e5ff7] JuliaSyntaxHighlighting v1.12.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.12.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [de0858da] Printf 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 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.3.0+1 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [bea87d4a] SuiteSparse_jll v7.8.3+2 [8e850b90] libblastrampoline_jll v5.15.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... Precompiling packages... 15927.4 ms ✓ ChainRules 73534.6 ms ✓ Zygote 2 dependencies successfully precompiled in 91 seconds. 64 already precompiled. 42 dependencies precompiled but different versions are currently loaded (Base64, CommonSubexpressions, Compat, Compat → CompatLinearAlgebraExt, CompilerSupportLibraries_jll, ConstructionBase, ConstructionBase → ConstructionBaseLinearAlgebraExt, DataAPI, Dates, DiffResults, DiffRules, Distributed, DocStringExtensions, FillArrays, FillArrays → FillArraysSparseArraysExt, FillArrays → FillArraysStatisticsExt, ForwardDiff, InteractiveUtils, IrrationalConstants, JLLWrappers, JuliaSyntaxHighlighting, LogExpFunctions, MacroTools, Markdown, NaNMath, OpenLibm_jll, OpenSpecFun_jll, OrderedCollections, PrecompileTools, Preferences, Printf, Serialization, SparseArrays, SpecialFunctions, StaticArraysCore, Statistics, Statistics → SparseArraysExt, StyledStrings, SuiteSparse, SuiteSparse_jll, TOML and UUIDs). Restart julia to access the new versions. Otherwise, 16 dependents of these packages may trigger further precompilation to work with the unexpected versions. Precompiling packages... 4205.4 ms ✓ StatsFuns → StatsFunsChainRulesCoreExt 1 dependency successfully precompiled in 5 seconds. 24 already precompiled. 23 dependencies precompiled but different versions are currently loaded (ChainRulesCore, Compat, Compat → CompatLinearAlgebraExt, CompilerSupportLibraries_jll, Dates, DocStringExtensions, HypergeometricFunctions, IrrationalConstants, JLLWrappers, LogExpFunctions, LogExpFunctions → LogExpFunctionsChainRulesCoreExt, OpenLibm_jll, OpenSpecFun_jll, Preferences, Printf, Reexport, Rmath, Rmath_jll, SpecialFunctions, SpecialFunctions → SpecialFunctionsChainRulesCoreExt, StatsFuns, TOML and UUIDs). Restart julia to access the new versions. Otherwise, 1 dependent of these packages may trigger further precompilation to work with the unexpected versions. Precompiling packages... 7320.4 ms ✓ Distributions → DistributionsChainRulesCoreExt 1 dependency successfully precompiled in 9 seconds. 49 already precompiled. 48 dependencies precompiled but different versions are currently loaded (AliasTables, ChainRulesCore, ChainRulesCore → ChainRulesCoreSparseArraysExt, Compat, Compat → CompatLinearAlgebraExt, CompilerSupportLibraries_jll, DataAPI, DataStructures, Dates, Distributions, DocStringExtensions, FillArrays, FillArrays → FillArraysPDMatsExt, FillArrays → FillArraysSparseArraysExt, FillArrays → FillArraysStatisticsExt, HypergeometricFunctions, IrrationalConstants, JLLWrappers, LogExpFunctions, LogExpFunctions → LogExpFunctionsChainRulesCoreExt, Missings, OpenLibm_jll, OpenSpecFun_jll, OrderedCollections, PDMats, PDMats → StatsBaseExt, Preferences, Printf, PtrArrays, QuadGK, Reexport, Rmath, Rmath_jll, Serialization, SortingAlgorithms, SparseArrays, SpecialFunctions, SpecialFunctions → SpecialFunctionsChainRulesCoreExt, Statistics, Statistics → SparseArraysExt, StatsAPI, StatsBase, StatsFuns, StatsFuns → StatsFunsChainRulesCoreExt, SuiteSparse, SuiteSparse_jll, TOML and UUIDs). Restart julia to access the new versions. Otherwise, 1 dependent of these packages may trigger further precompilation to work with the unexpected versions. Precompiling packages... 2048.4 ms ✓ ArrayInterface → ArrayInterfaceChainRulesExt 1 dependency successfully precompiled in 2 seconds. 39 already precompiled. 38 dependencies precompiled but different versions are currently loaded (Adapt, Adapt → AdaptSparseArraysExt, ArrayInterface, ArrayInterface → ArrayInterfaceChainRulesCoreExt, ArrayInterface → ArrayInterfaceGPUArraysCoreExt, ArrayInterface → ArrayInterfaceSparseArraysExt, ChainRules, ChainRulesCore, ChainRulesCore → ChainRulesCoreSparseArraysExt, Compat, Compat → CompatLinearAlgebraExt, ConstructionBase, ConstructionBase → ConstructionBaseLinearAlgebraExt, DataAPI, DataValueInterfaces, Dates, Distributed, GPUArraysCore, IrrationalConstants, IteratorInterfaceExtensions, OrderedCollections, Printf, RealDot, Serialization, SparseArrays, SparseInverseSubset, Statistics, Statistics → SparseArraysExt, StructArrays, StructArrays → StructArraysAdaptExt, StructArrays → StructArraysLinearAlgebraExt, StructArrays → StructArraysSparseArraysExt, SuiteSparse, SuiteSparse_jll, TOML, TableTraits, Tables and UUIDs). Restart julia to access the new versions. Otherwise, 1 dependent of these packages may trigger further precompilation to work with the unexpected versions. Precompiling packages... 10828.9 ms ✓ Zygote → ZygoteDistancesExt 1 dependency successfully precompiled in 12 seconds. 70 already precompiled. 69 dependencies precompiled but different versions are currently loaded (AbstractFFTs, AbstractFFTs → AbstractFFTsChainRulesCoreExt, Adapt, Adapt → AdaptSparseArraysExt, Base64, ChainRules, ChainRulesCore, ChainRulesCore → ChainRulesCoreSparseArraysExt, CommonSubexpressions, Compat, Compat → CompatLinearAlgebraExt, CompilerSupportLibraries_jll, ConstructionBase, ConstructionBase → ConstructionBaseLinearAlgebraExt, DataAPI, DataValueInterfaces, Dates, DiffResults, DiffRules, Distances, Distances → DistancesChainRulesCoreExt, Distances → DistancesSparseArraysExt, Distributed, DocStringExtensions, FillArrays, FillArrays → FillArraysSparseArraysExt, FillArrays → FillArraysStatisticsExt, ForwardDiff, GPUArraysCore, IRTools, InteractiveUtils, IrrationalConstants, IteratorInterfaceExtensions, JLLWrappers, JuliaSyntaxHighlighting, LogExpFunctions, LogExpFunctions → LogExpFunctionsChainRulesCoreExt, MacroTools, Markdown, NaNMath, OpenLibm_jll, OpenSpecFun_jll, OrderedCollections, PrecompileTools, Preferences, Printf, RealDot, Serialization, SparseArrays, SparseInverseSubset, SpecialFunctions, SpecialFunctions → SpecialFunctionsChainRulesCoreExt, StaticArraysCore, Statistics, Statistics → SparseArraysExt, StatsAPI, StructArrays, StructArrays → StructArraysAdaptExt, StructArrays → StructArraysLinearAlgebraExt, StructArrays → StructArraysSparseArraysExt, StyledStrings, SuiteSparse, SuiteSparse_jll, TOML, TableTraits, Tables, UUIDs, Zygote and ZygoteRules). Restart julia to access the new versions. Otherwise, 1 dependent of these packages may trigger further precompilation to work with the unexpected versions. Precompiling packages... 5688.3 ms ✓ DifferentiationInterface → DifferentiationInterfaceZygoteExt 1 dependency successfully precompiled in 6 seconds. 74 already precompiled. 73 dependencies precompiled but different versions are currently loaded (ADTypes, ADTypes → ADTypesChainRulesCoreExt, ADTypes → ADTypesConstructionBaseExt, AbstractFFTs, AbstractFFTs → AbstractFFTsChainRulesCoreExt, Adapt, Adapt → AdaptSparseArraysExt, Base64, ChainRules, ChainRulesCore, ChainRulesCore → ChainRulesCoreSparseArraysExt, CommonSubexpressions, Compat, Compat → CompatLinearAlgebraExt, CompilerSupportLibraries_jll, ConstructionBase, ConstructionBase → ConstructionBaseLinearAlgebraExt, DataAPI, DataValueInterfaces, Dates, DiffResults, DiffRules, DifferentiationInterface, DifferentiationInterface → DifferentiationInterfaceChainRulesCoreExt, DifferentiationInterface → DifferentiationInterfaceForwardDiffExt, DifferentiationInterface → DifferentiationInterfaceGPUArraysCoreExt, DifferentiationInterface → DifferentiationInterfaceSparseArraysExt, Distributed, DocStringExtensions, FillArrays, FillArrays → FillArraysSparseArraysExt, FillArrays → FillArraysStatisticsExt, ForwardDiff, GPUArraysCore, IRTools, InteractiveUtils, IrrationalConstants, IteratorInterfaceExtensions, JLLWrappers, JuliaSyntaxHighlighting, LogExpFunctions, LogExpFunctions → LogExpFunctionsChainRulesCoreExt, MacroTools, Markdown, NaNMath, OpenLibm_jll, OpenSpecFun_jll, OrderedCollections, PrecompileTools, Preferences, Printf, RealDot, Serialization, SparseArrays, SparseInverseSubset, SpecialFunctions, SpecialFunctions → SpecialFunctionsChainRulesCoreExt, StaticArraysCore, Statistics, Statistics → SparseArraysExt, StructArrays, StructArrays → StructArraysAdaptExt, StructArrays → StructArraysLinearAlgebraExt, StructArrays → StructArraysSparseArraysExt, StyledStrings, SuiteSparse, SuiteSparse_jll, TOML, TableTraits, Tables, UUIDs, Zygote and ZygoteRules). Restart julia to access the new versions. Otherwise, 1 dependent of these packages may trigger further precompilation to work with the unexpected versions. Test Summary: | Pass Broken Total Time utils tests | 32 1 33 7.6s ┌ Warning: `top` is deprecated, use `first` instead. │ caller = macro expansion at search.jl:42 [inlined] └ @ Core ~/.julia/packages/NearestNeighborDescent/J15hU/src/search.jl:42 ┌ Warning: `top` is deprecated, use `first` instead. │ caller = macro expansion at search.jl:42 [inlined] └ @ Core ~/.julia/packages/NearestNeighborDescent/J15hU/src/search.jl:42 ┌ Warning: `top` is deprecated, use `first` instead. │ caller = macro expansion at search.jl:42 [inlined] └ @ Core ~/.julia/packages/NearestNeighborDescent/J15hU/src/search.jl:42 ┌ Warning: `top` is deprecated, use `first` instead. │ caller = macro expansion at search.jl:42 [inlined] └ @ Core ~/.julia/packages/NearestNeighborDescent/J15hU/src/search.jl:42 ┌ Warning: `top` is deprecated, use `first` instead. │ caller = macro expansion at search.jl:42 [inlined] └ @ Core ~/.julia/packages/NearestNeighborDescent/J15hU/src/search.jl:42 Test Summary: | Pass Total Time Nearest Neighbors Tests | 185 185 31.1s Test Summary: | Pass Total Time simplicial sets tests | 140 140 55.3s Test Summary: | Pass Total Time membership_fn tests | 52 52 14.1s Test Summary: | Pass Total Time embeddings tests | 12 12 23.9s Test Summary: | Pass Total Time optimize_embedding tests | 18 18 58.3s Test Summary: | Pass Total Time Configuration Tests | 28 28 4.0s Test Summary: | Pass Total Time umap tests | 12 12 7.8s ┌ Warning: `top` is deprecated, use `first` instead. │ caller = macro expansion at search.jl:42 [inlined] └ @ Core ~/.julia/packages/NearestNeighborDescent/J15hU/src/search.jl:42 Test Summary: | Pass Total Time umap transform tests | 5 5 6.6s Testing UMAP tests passed Testing completed after 359.2s PkgEval succeeded after 500.64s