Package evaluation to test Knockoffs on Julia 1.12.7-DEV.5 (decd03c4f0*) started at 2026-06-20T06:35:13.147 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.12` Set-up completed after 8.22s ################################################################################ # Installation # Installing Knockoffs... Resolving package versions... Updating `~/.julia/environments/v1.12/Project.toml` [878bf26d] + Knockoffs v3.1.4 Updating `~/.julia/environments/v1.12/Manifest.toml` [47edcb42] + ADTypes v1.22.0 [1520ce14] + AbstractTrees v0.4.5 [7d9f7c33] + Accessors v0.1.44 [79e6a3ab] + Adapt v4.6.1 [66dad0bd] + AliasTables v1.1.3 [4fba245c] + ArrayInterface v7.25.0 [67c07d97] + Automa v1.2.0 [28d598bf] + BGZFStreams v0.3.2 [47718e42] + BioGenerics v0.1.5 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 ⌅ [0a1fb500] + BlockDiagonals v0.1.42 [e1450e63] + BufferedStreams v1.2.2 [2a0fbf3d] + CPUSummary v0.2.7 [336ed68f] + CSV v0.10.16 [d360d2e6] + ChainRulesCore v1.26.1 [fb6a15b2] + CloseOpenIntervals v0.1.13 [aaaa29a8] + Clustering v0.15.8 [523fee87] + CodecBzip2 v0.8.5 [ba30903b] + CodecXz v0.7.4 [944b1d66] + CodecZlib v0.7.8 [6b39b394] + CodecZstd v0.8.7 [861a8166] + Combinatorics v1.1.0 [38540f10] + CommonSolve v0.2.7 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.18.1 [a33af91c] + CompositionsBase v0.1.2 [187b0558] + ConstructionBase v1.6.0 [587fd27a] + CovarianceEstimation v0.2.13 [adafc99b] + CpuId v0.3.1 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.8.2 ⌅ [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [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 [fdbdab4c] + ElasticArrays v1.2.12 [4e289a0a] + EnumX v1.0.7 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.16.0 [6a86dc24] + FiniteDiff v2.31.0 [26cc04aa] + FiniteDifferences v0.12.34 [f6369f11] + ForwardDiff v1.4.1 [38e38edf] + GLM v1.9.5 ⌃ [8d5ece8b] + GLMNet v0.7.0 ⌅ [14197337] + GenericLinearAlgebra v0.3.19 [c27321d9] + Glob v1.5.0 [3e5b6fbb] + HostCPUFeatures v0.1.18 ⌅ [b99e6be6] + Hypatia v0.7.4 [34004b35] + HypergeometricFunctions v0.3.28 [615f187c] + IfElse v0.1.1 [842dd82b] + InlineStrings v1.4.5 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.6 [42fd0dbc] + IterativeSolvers v0.9.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.8.0 [682c06a0] + JSON v1.6.1 [4076af6c] + JuMP v1.30.1 [878bf26d] + Knockoffs v3.1.4 [b964fa9f] + LaTeXStrings v1.4.0 [10f19ff3] + LayoutPointers v0.1.17 ⌃ [d3d80556] + LineSearches v7.5.1 [7a12625a] + LinearMaps v3.11.4 [2ab3a3ac] + LogExpFunctions v1.0.1 [bdcacae8] + LoopVectorization v0.12.174 [1914dd2f] + MacroTools v0.5.16 [d125e4d3] + ManualMemory v0.1.8 [b8f27783] + MathOptInterface v1.51.1 [e1d29d7a] + Missings v1.2.0 [d8a4904e] + MutableArithmetics v1.8.0 ⌅ [d41bc354] + NLSolversBase v7.10.0 [77ba4419] + NaNMath v1.1.4 [b8a86587] + NearestNeighbors v0.4.27 [6fe1bfb0] + OffsetArrays v1.17.0 ⌅ [429524aa] + Optim v1.13.3 ⌅ [bac558e1] + OrderedCollections v1.8.2 ⌃ [90014a1f] + PDMats v0.11.35 [69de0a69] + Parsers v2.8.6 [1d0040c9] + PolyesterWeave v0.2.2 [3a141323] + PolynomialRoots v1.0.0 [2dfb63ee] + PooledArrays v1.4.3 [85a6dd25] + PositiveFactorizations v0.2.4 [aea7be01] + PrecompileTools v1.3.4 [21216c6a] + Preferences v1.5.2 [08abe8d2] + PrettyTables v3.3.2 [92933f4c] + ProgressMeter v1.11.0 [43287f4e] + PtrArrays v1.4.0 [1fd47b50] + QuadGK v2.11.3 [3cdcf5f2] + RecipesBase v1.3.4 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [708f8203] + Richardson v1.4.3 [79098fc4] + Rmath v0.9.0 ⌅ [f2b01f46] + Roots v2.3.0 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.46 [431bcebd] + SciMLPublic v1.0.1 [91c51154] + SentinelArrays v1.4.10 [efcf1570] + Setfield v1.1.2 [1277b4bf] + ShiftedArrays v2.0.0 [4e780e97] + SnpArrays v0.3.23 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.8.0 [aedffcd0] + Static v1.4.0 [0d7ed370] + StaticArrayInterface v1.10.0 [90137ffa] + StaticArrays v1.9.18 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.8.0 ⌅ [2913bbd2] + StatsBase v0.33.10 [4c63d2b9] + StatsFuns v2.2.0 [3eaba693] + StatsModels v0.7.10 [892a3eda] + StringManipulation v0.4.4 [ec057cc2] + StructUtils v2.8.2 [9449cd9e] + TSVD v0.4.4 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [8290d209] + ThreadingUtilities v0.5.6 ⌅ [3bb67fe8] + TranscodingStreams v0.9.13 [3a884ed6] + UnPack v1.0.2 [28eba6e3] + VariantCallFormat v0.5.9 [3d5dd08c] + VectorizationBase v0.21.74 [ea10d353] + WeakRefStrings v1.4.3 [efce3f68] + WoodburyMatrices v1.1.0 [76eceee3] + WorkerUtilities v1.6.1 [6e34b625] + Bzip2_jll v1.0.9+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [ffd25f8a] + XZ_jll v5.8.3+0 [3161d3a3] + Zstd_jll v1.5.7+1 [78c6b45d] + glmnet_jll v5.0.0+0 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [f43a241f] + Downloads v1.7.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.12.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.12.1 [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 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.15.0+0 [e37daf67] + LibGit2_jll v1.9.0+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 [bea87d4a] + SuiteSparse_jll v7.8.3+2 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.15.0+0 [8e850ede] + nghttp2_jll v1.64.0+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 7.55s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompiling packages... 86740.2 ms ✓ MathOptInterface 97358.3 ms ✓ SnpArrays 52788.4 ms ✓ JuMP 108351.1 ms ✓ Hypatia 109717.5 ms ✓ Optim → OptimMOIExt 470012.6 ms ✓ Knockoffs 6 dependencies successfully precompiled in 976 seconds. 249 already precompiled. Precompilation completed after 986.3s ################################################################################ # Testing # Testing Knockoffs Status `/tmp/jl_FnKD8Q/Project.toml` ⌅ [0a1fb500] BlockDiagonals v0.1.42 [336ed68f] CSV v0.10.16 [aaaa29a8] Clustering v0.15.8 [587fd27a] CovarianceEstimation v0.2.13 [a93c6f00] DataFrames v1.8.2 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.127 [fdbdab4c] ElasticArrays v1.2.12 [38e38edf] GLM v1.9.5 ⌃ [8d5ece8b] GLMNet v0.7.0 ⌅ [b99e6be6] Hypatia v0.7.4 [4076af6c] JuMP v1.30.1 [878bf26d] Knockoffs v3.1.4 [bdcacae8] LoopVectorization v0.12.174 ⌅ [429524aa] Optim v1.13.3 [85a6dd25] PositiveFactorizations v0.2.4 [92933f4c] ProgressMeter v1.11.0 [189a3867] Reexport v1.2.2 ⌅ [f2b01f46] Roots v2.3.0 [4e780e97] SnpArrays v0.3.23 [10745b16] Statistics v1.11.1 ⌅ [2913bbd2] StatsBase v0.33.10 [c751599d] ToeplitzMatrices v0.8.5 [f43a241f] Downloads v1.7.0 [37e2e46d] LinearAlgebra v1.12.0 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_FnKD8Q/Manifest.toml` [47edcb42] ADTypes v1.22.0 [621f4979] AbstractFFTs v1.5.0 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.44 [79e6a3ab] Adapt v4.6.1 [66dad0bd] AliasTables v1.1.3 [4fba245c] ArrayInterface v7.25.0 [67c07d97] Automa v1.2.0 [28d598bf] BGZFStreams v0.3.2 [0e736298] Bessels v0.2.8 [47718e42] BioGenerics v0.1.5 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 ⌅ [0a1fb500] BlockDiagonals v0.1.42 [e1450e63] BufferedStreams v1.2.2 [2a0fbf3d] CPUSummary v0.2.7 [336ed68f] CSV v0.10.16 [d360d2e6] ChainRulesCore v1.26.1 [fb6a15b2] CloseOpenIntervals v0.1.13 [aaaa29a8] Clustering v0.15.8 [523fee87] CodecBzip2 v0.8.5 [ba30903b] CodecXz v0.7.4 [944b1d66] CodecZlib v0.7.8 [6b39b394] CodecZstd v0.8.7 [861a8166] Combinatorics v1.1.0 [38540f10] CommonSolve v0.2.7 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.18.1 [a33af91c] CompositionsBase v0.1.2 [187b0558] ConstructionBase v1.6.0 [587fd27a] CovarianceEstimation v0.2.13 [adafc99b] CpuId v0.3.1 [a8cc5b0e] Crayons v4.1.1 [717857b8] DSP v0.8.5 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.8.2 ⌅ [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [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 [fdbdab4c] ElasticArrays v1.2.12 [4e289a0a] EnumX v1.0.7 [7a1cc6ca] FFTW v1.10.0 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.16.0 [6a86dc24] FiniteDiff v2.31.0 [26cc04aa] FiniteDifferences v0.12.34 [f6369f11] ForwardDiff v1.4.1 [38e38edf] GLM v1.9.5 ⌃ [8d5ece8b] GLMNet v0.7.0 ⌅ [14197337] GenericLinearAlgebra v0.3.19 [c27321d9] Glob v1.5.0 [3e5b6fbb] HostCPUFeatures v0.1.18 ⌅ [b99e6be6] Hypatia v0.7.4 [34004b35] HypergeometricFunctions v0.3.28 [615f187c] IfElse v0.1.1 [842dd82b] InlineStrings v1.4.5 [3587e190] InverseFunctions v0.1.17 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.6 [c8e1da08] IterTools v1.10.0 [42fd0dbc] IterativeSolvers v0.9.4 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.8.0 [682c06a0] JSON v1.6.1 [4076af6c] JuMP v1.30.1 [878bf26d] Knockoffs v3.1.4 [b964fa9f] LaTeXStrings v1.4.0 [10f19ff3] LayoutPointers v0.1.17 ⌃ [d3d80556] LineSearches v7.5.1 [7a12625a] LinearMaps v3.11.4 [2ab3a3ac] LogExpFunctions v1.0.1 [bdcacae8] LoopVectorization v0.12.174 [1914dd2f] MacroTools v0.5.16 [d125e4d3] ManualMemory v0.1.8 [b8f27783] MathOptInterface v1.51.1 [e1d29d7a] Missings v1.2.0 [d8a4904e] MutableArithmetics v1.8.0 ⌅ [d41bc354] NLSolversBase v7.10.0 [77ba4419] NaNMath v1.1.4 [b8a86587] NearestNeighbors v0.4.27 [6fe1bfb0] OffsetArrays v1.17.0 ⌅ [429524aa] Optim v1.13.3 ⌅ [bac558e1] OrderedCollections v1.8.2 ⌃ [90014a1f] PDMats v0.11.35 [69de0a69] Parsers v2.8.6 [1d0040c9] PolyesterWeave v0.2.2 [3a141323] PolynomialRoots v1.0.0 [f27b6e38] Polynomials v4.1.1 [2dfb63ee] PooledArrays v1.4.3 [85a6dd25] PositiveFactorizations v0.2.4 [aea7be01] PrecompileTools v1.3.4 [21216c6a] Preferences v1.5.2 [08abe8d2] PrettyTables v3.3.2 [92933f4c] ProgressMeter v1.11.0 [43287f4e] PtrArrays v1.4.0 [1fd47b50] QuadGK v2.11.3 [3cdcf5f2] RecipesBase v1.3.4 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [708f8203] Richardson v1.4.3 [79098fc4] Rmath v0.9.0 ⌅ [f2b01f46] Roots v2.3.0 [94e857df] SIMDTypes v0.1.0 [476501e8] SLEEFPirates v0.6.46 [431bcebd] SciMLPublic v1.0.1 [91c51154] SentinelArrays v1.4.10 [efcf1570] Setfield v1.1.2 [1277b4bf] ShiftedArrays v2.0.0 [4e780e97] SnpArrays v0.3.23 [a2af1166] SortingAlgorithms v1.2.2 [276daf66] SpecialFunctions v2.8.0 [aedffcd0] Static v1.4.0 [0d7ed370] StaticArrayInterface v1.10.0 [90137ffa] StaticArrays v1.9.18 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.8.0 ⌅ [2913bbd2] StatsBase v0.33.10 [4c63d2b9] StatsFuns v2.2.0 [3eaba693] StatsModels v0.7.10 [892a3eda] StringManipulation v0.4.4 [ec057cc2] StructUtils v2.8.2 [9449cd9e] TSVD v0.4.4 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [8290d209] ThreadingUtilities v0.5.6 [c751599d] ToeplitzMatrices v0.8.5 ⌅ [3bb67fe8] TranscodingStreams v0.9.13 [3a884ed6] UnPack v1.0.2 [28eba6e3] VariantCallFormat v0.5.9 [3d5dd08c] VectorizationBase v0.21.74 [ea10d353] WeakRefStrings v1.4.3 [efce3f68] WoodburyMatrices v1.1.0 [76eceee3] WorkerUtilities v1.6.1 [6e34b625] Bzip2_jll v1.0.9+0 [f5851436] FFTW_jll v3.3.12+0 [1d5cc7b8] IntelOpenMP_jll v2025.2.0+0 [856f044c] MKL_jll v2025.2.0+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [ffd25f8a] XZ_jll v5.8.3+0 [3161d3a3] Zstd_jll v1.5.7+1 [78c6b45d] glmnet_jll v5.0.0+0 [1317d2d5] oneTBB_jll v2022.3.0+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 v1.12.1 [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 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] LibCURL_jll v8.15.0+0 [e37daf67] LibGit2_jll v1.9.0+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 [bea87d4a] SuiteSparse_jll v7.8.3+2 [83775a58] Zlib_jll v1.3.1+2 [8e850b90] libblastrampoline_jll v5.15.0+0 [8e850ede] nghttp2_jll v1.64.0+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... Precompiling packages... 5649.6 ms ✓ Setfield 41735.3 ms ✓ Polynomials 3348.6 ms ✓ Polynomials → PolynomialsFFTWExt 7219.3 ms ✓ DSP 7534.6 ms ✓ ToeplitzMatrices 5 dependencies successfully precompiled in 67 seconds. 58 already precompiled. Precompiling packages... 3034.5 ms ✓ Polynomials → PolynomialsChainRulesCoreExt 1 dependency successfully precompiled in 3 seconds. 20 already precompiled. Precompiling packages... 3678.2 ms ✓ Polynomials → PolynomialsRecipesBaseExt 1 dependency successfully precompiled in 4 seconds. 18 already precompiled. Precompiling packages... 4545.8 ms ✓ Polynomials → PolynomialsMutableArithmeticsExt 1 dependency successfully precompiled in 5 seconds. 19 already precompiled. Precompiling packages... 4041.7 ms ✓ DSP → OffsetArraysExt 1 dependency successfully precompiled in 5 seconds. 60 already precompiled. Precompiling packages... 5718.1 ms ✓ ToeplitzMatrices → ToeplitzMatricesStatsBaseExt 1 dependency successfully precompiled in 8 seconds. 72 already precompiled. 242.987799 seconds (106.27 M allocations: 5.581 GiB, 1.83% gc time, 99.37% compilation time) Test Summary: | Pass Total Time fixed knockoffs | 10213 10213 4m13.8s 26.092179 seconds (6.28 M allocations: 497.683 MiB, 0.96% gc time, 45.45% compilation time) Test Summary: | Pass Total Time model X Guassian Knockoffs | 4 4 28.4s 19.469711 seconds (3.61 M allocations: 364.600 MiB, 6.25% gc time, 40.93% compilation time) Test Summary: | Pass Total Time model X 2nd order Knockoffs | 3 3 19.5s Test Summary: | Pass Total Time utility functions | 247948 247948 19.7s Test Summary: | Pass Total Time Symbol and string inputs agree | 15 15 2m29.2s Test Summary: | Pass Total Time MK_statistics | 16 16 3.8s Test Summary: | Pass Total Time multiple knockoff q-values | 7 7 4.9s Test Summary: | Pass Total Time q-value selection matches standard selection on simulated data | 11 11 6.3s Test Summary: | Pass Total Time select_groups returns group labels and member indices | 13 13 18.3s Test Summary: | Pass Total Time Markov chain knockoffs have the right correlation structure | 55 55 25.3s Test Summary: | Pass Total Time MVR identity covariance | 9 9 0.5s 59.256292 seconds (650.01 k allocations: 589.433 MiB, 4.03% gc time) 0.116452 seconds (108 allocations: 15.382 MiB) 0.139749 seconds (114 allocations: 15.387 MiB) 3.666702 seconds (633.02 k allocations: 82.708 MiB, 0.54% gc time, 33.88% compilation time) 3.356360 seconds (1.18 k allocations: 49.561 MiB, 0.51% gc time) 3.205461 seconds (1.18 k allocations: 49.561 MiB, 0.40% gc time) Test Summary: | Pass Total Time SDP vs MVR vs ME knockoffs | 2 2 1m12.8s 68.203142 seconds (661.22 k allocations: 586.995 MiB, 1.79% gc time) 0.885434 seconds (80 allocations: 10.467 MiB) Test Summary: | Pass Total Time SDP vs SDP fast | 1 1 1m09.9s 1.123217 seconds (275.38 k allocations: 25.315 MiB, 48.05% compilation time) 1.453353 seconds (85 allocations: 10.468 MiB) Test Summary: | Pass Total Time keyword arguments | 1 1 2.6s 0.570513 seconds (108 allocations: 42.419 MiB) 5.544069 seconds (1.18 k allocations: 125.228 MiB) 6.816405 seconds (635.10 k allocations: 159.586 MiB, 2.24% gc time, 17.73% compilation time) Test Summary: | Pass Total Time debiasing preserves sparsity pattern | 5 5 26.2s ┌ Warning: `Progress(n::Integer, dt::Real, desc::AbstractString = "Progress: ", barlen = nothing, color::Symbol = :green, output::IO = stderr; offset::Integer = 0)` is deprecated, use `Progress(n; dt = dt, desc = desc, barlen = barlen, color = color, output = output, offset = offset)` instead. │ caller = ip:0x0 └ @ Core :-1 Approximating covariance by blocks... 33%|████▋ | ETA: 0:00:03 Approximating covariance by blocks... 67%|█████████▍ | ETA: 0:00:02 Approximating covariance by blocks... 100%|██████████████| Time: 0:00:04 29.670319 seconds (13.54 M allocations: 1.181 GiB, 5.36% gc time, 81.41% compilation time: 16% of which was recompilation) 0.309596 seconds (2.09 k allocations: 43.049 MiB, 4.52% gc time, 5.41% compilation time) 0.361015 seconds (3.19 k allocations: 54.170 MiB, 4.00% gc time, 5.05% compilation time) Test Summary: | Pass Total Time approximate constructions | 4 4 30.7s norm(β̂ - b) = 1.7919251278577844 norm(β̂ - b) = 1.7919251278577844 norm(β̂ - b) = 1.7919251278577844 norm(β̂ - b) = 0.7044388571689835 norm(β̂ - b) = 0.879750303505637 norm(β̂ - b) = 1.7919251278577844 norm(β̂ - b) = 1.7919251278577844 norm(β̂ - b) = 1.7919251278577844 norm(β̂ - b) = 0.7044387294061174 norm(β̂ - b) = 0.9607680773846126 norm(β̂ - b) = 1.7919251278577844 norm(β̂ - b) = 1.7919251278577844 norm(β̂ - b) = 1.7919251278577844 norm(β̂ - b) = 1.0183935821402585 norm(β̂ - b) = 1.019309911295841 Test Summary: | Total Time fit lasso Gaussian | 0 1.9s norm(β̂ - b) = 1.898369367937291 norm(β̂ - b) = 1.898369367937291 norm(β̂ - b) = 1.898369367937291 norm(β̂ - b) = 0.4880027600182147 norm(β̂ - b) = 0.6228446256183272 norm(β̂ - b) = 1.898369367937291 norm(β̂ - b) = 1.898369367937291 norm(β̂ - b) = 1.898369367937291 norm(β̂ - b) = 1.6046122369956328 norm(β̂ - b) = 1.5990540493936085 norm(β̂ - b) = 1.898369367937291 norm(β̂ - b) = 1.898369367937291 norm(β̂ - b) = 1.662231193450143 norm(β̂ - b) = 1.6604119549015366 norm(β̂ - b) = 1.6604633394479436 Test Summary: | Total Time fit lasso logistic | 0 59.0s Test Summary: | Pass Total Time predict via knockoff-filter | 15 15 2.8s 0.068965 seconds (797 allocations: 9.949 MiB, 46.88% gc time, 33.58% compilation time) SDP initial obj = 2.600000000000002 Iter 1 (PCA): obj = 0.04235355947096328, δ = 0.9874010495584882, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 2 (PCA): obj = 0.0076425694218480575, δ = 0.1049513868593349, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 3 (PCA): obj = 0.0034459041620199357, δ = 0.012891029698779576, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 4 (PCA): obj = 0.002468051757417651, δ = 0.004615087855127155, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 5 (PCA): obj = 0.0017054405081494684, δ = 0.00934076126679786, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 6 (PCA): obj = 0.0012815483847531087, δ = 0.0036136772135410087, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 7 (PCA): obj = 0.0009487836727680071, δ = 0.0020343293010157046, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 8 (PCA): obj = 0.000730738543804908, δ = 0.0014838583134576626, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 9 (PCA): obj = 0.0006182524210547019, δ = 0.0006769799569998174, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 10 (PCA): obj = 0.000558175587766423, δ = 0.0006571834545315721, t1 = 0.0, t2 = 0.0, t3 = 0.02 Iter 11 (PCA): obj = 0.0005253955252115187, δ = 0.0002733251270502751, t1 = 0.01, t2 = 0.0, t3 = 0.02 Iter 12 (PCA): obj = 0.0005011821332138296, δ = 0.00017258408984083783, t1 = 0.01, t2 = 0.0, t3 = 0.02 Iter 13 (PCA): obj = 0.0005003029756800681, δ = 0.00012494593920418898, t1 = 0.01, t2 = 0.01, t3 = 0.02 11.099507 seconds (2.55 M allocations: 141.355 MiB, 99.49% compilation time) SDP initial obj = 2.600000000000002 Iter 1 (PCA): obj = 0.04235355947096328, δ = 0.9874010495584882, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 2 (PCA): obj = 0.007642569421848044, δ = 0.1049513868593349, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 3 (PCA): obj = 0.003445904162019915, δ = 0.012891029698779576, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 4 (PCA): obj = 0.002468051757417631, δ = 0.004615087855127155, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 5 (PCA): obj = 0.0017054405081494545, δ = 0.00934076126679786, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 6 (PCA): obj = 0.0012815483847530853, δ = 0.0036136772135410087, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 7 (PCA): obj = 0.0009487836727679915, δ = 0.0020343293010157046, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 8 (PCA): obj = 0.0007307385438048969, δ = 0.0014838583134576626, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 9 (PCA): obj = 0.0006182524210546915, δ = 0.0006769799569998174, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 10 (PCA): obj = 0.0005581755877664172, δ = 0.0006571834545315721, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 11 (CCD): obj = 2.084040498699191e-15, δ = 0.0012531657723307554, t1 = 0.01, t2 = 0.0, t3 = 0.01 Iter 12 (CCD): obj = 2.084040498699191e-15, δ = 0.0, t1 = 0.01, t2 = 0.0, t3 = 0.01 Iter 13 (PCA): obj = 0.00012393119554853323, δ = 9.45712295155215e-5, t1 = 0.01, t2 = 0.01, t3 = 0.01 Iter 14 (CCD): obj = 2.0637767177437896e-15, δ = 4.6788636386851934e-5, t1 = 0.01, t2 = 0.01, t3 = 0.01 0.127310 seconds (4.70 k allocations: 10.514 MiB, 63.81% gc time) SDP initial obj = 2.600000000000002 Iter 1 (PCA): obj = 0.04235355947096328, δ = 0.9874010495584882, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 2 (CCD): obj = 2.0263912245508265e-15, δ = 0.026246930919087696, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 3 (PCA): obj = 0.00012393119554919874, δ = 9.4571229516383e-5, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 4 (CCD): obj = 1.9964477628324397e-15, δ = 4.678863638751807e-5, t1 = 0.0, t2 = 0.0, t3 = 0.0 0.025134 seconds (2.33 k allocations: 10.349 MiB) MVR initial obj = 3627.758405239078 Iter 1 (PCA): obj = 2134.3338341797335, δ = 0.9825804476712029, t1 = 0.0, t2 = 0.0 Iter 2 (PCA): obj = 2134.232587701349, δ = 0.064365048700893, t1 = 0.0, t2 = 0.0 2.155621 seconds (510.73 k allocations: 36.141 MiB, 99.00% compilation time) MVR initial obj = 3627.758405239078 Iter 1 (PCA): obj = 2134.3338341797335, δ = 0.9825804476712029, t1 = 0.0, t2 = 0.0 Iter 2 (PCA): obj = 2134.232587701349, δ = 0.064365048700893, t1 = 0.0, t2 = 0.0 Iter 3 (CCD): obj = 2134.2325877012863, δ = 2.3275091878961352e-7, t1 = 0.0, t2 = 0.0,t3 = 0.0 0.025230 seconds (1.45 k allocations: 10.430 MiB) MVR initial obj = 3627.758405239078 Iter 1 (PCA): obj = 2134.3338341797335, δ = 0.9825804476712029, t1 = 0.0, t2 = 0.0 Iter 2 (CCD): obj = 2134.3244105744884, δ = 0.0011116260339162362, t1 = 0.0, t2 = 0.0,t3 = 0.0 Iter 3 (PCA): obj = 2134.2327037668074, δ = 0.061319793151697825, t1 = 0.0, t2 = 0.0 Iter 4 (CCD): obj = 2134.232651949957, δ = 0.00012568491784442073, t1 = 0.0, t2 = 0.01,t3 = 0.0 0.025452 seconds (1.73 k allocations: 10.448 MiB) Maxent initial obj = -257.9275190821772 Iter 1 (PCA): obj = -153.27202274240102, δ = 0.9946996466431096, t1 = 0.0, t2 = 0.0 Iter 2 (PCA): obj = -153.24879130720362, δ = 0.06018956607736612, t1 = 0.0, t2 = 0.0 2.008506 seconds (354.87 k allocations: 28.167 MiB, 3.87% gc time, 95.31% compilation time) Maxent initial obj = -257.9275190821772 Iter 1 (PCA): obj = -153.27202274240102, δ = 0.9946996466431096, t1 = 0.0, t2 = 0.0 Iter 2 (PCA): obj = -153.24879130720362, δ = 0.06018956607736612, t1 = 0.0, t2 = 0.0 Iter 3 (CCD): obj = -153.2487895675824, δ = 0.00010284693384665026, t1 = 0.0, t2 = 0.0, t3 = 0.0 0.016653 seconds (1.41 k allocations: 10.302 MiB) Maxent initial obj = -257.9275190821772 Iter 1 (PCA): obj = -153.27202274240102, δ = 0.9946996466431096, t1 = 0.0, t2 = 0.0 Iter 2 (CCD): obj = -153.26564804055067, δ = 0.003144588665808597, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 3 (PCA): obj = -153.24886074953, δ = 0.05119933659455436, t1 = 0.0, t2 = 0.0 Iter 4 (CCD): obj = -153.24880953840918, δ = 0.0006013379878981288, t1 = 0.0, t2 = 0.0, t3 = 0.0 0.018783 seconds (1.68 k allocations: 10.320 MiB) Init obj = 2.600000000000002, with 10 unique blocks to optimze Iter 1: obj = 8.919890248648698e-10, δ = 0.49999999995124533 Iter 2: obj = 1.1205977035189106e-9, δ = 6.37674912873365e-10 24.963238 seconds (11.17 M allocations: 619.878 MiB, 0.72% gc time, 98.47% compilation time) Init obj = 3627.758405239078, with 10 unique blocks to optimze Iter 1: obj = 2142.75974279265, δ = 0.37461340651873676 Iter 2: obj = 2144.2482482254486, δ = 0.016373124329110977 Iter 3: obj = 2144.2045854596145, δ = 0.0007073154070162957 30.112395 seconds (10.70 M allocations: 793.880 MiB, 0.70% gc time, 63.35% compilation time) Init obj = -257.9275110097214, with 10 unique blocks to optimze Iter 1: obj = -225.339281616171, δ = 0.06336395732286204 Iter 2: obj = -225.37376197742003, δ = 0.0004947416200552501 17.550274 seconds (9.10 M allocations: 485.206 MiB, 1.16% gc time, 96.90% compilation time) 0.102494 seconds (35.35 k allocations: 12.507 MiB, 21.65% compilation time) 2.220878 seconds (97.67 k allocations: 46.440 MiB, 53.42% gc time, 1.07% compilation time) Test Summary: | Pass Total Time group knockoff optimization | 3558 3558 1m34.1s 1.870196 seconds (1.78 M allocations: 94.069 MiB, 98.60% compilation time) Test Summary: | Pass Total Time block descent for a single block | 2 2 10.6s Test Summary: | Pass Total Time group knockoff utilities | 7 7 5.1s Test Summary: | Pass Total Time representative group knockoffs | 19 19 13.4s 1.041498 seconds (18.76 k allocations: 106.063 MiB, 4.72% compilation time) 1.084143 seconds (14.14 k allocations: 135.544 MiB) Test Summary: | Pass Total Time multiple knockoffs | 8 8 6m54.2s Testing Knockoffs tests passed Testing completed after 1497.25s PkgEval succeeded after 2525.79s