Package evaluation to test Knockoffs on Julia 1.11.8 (29b3528cce*) started at 2026-01-20T17:23:36.772 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.11` Set-up completed after 8.76s ################################################################################ # Installation # Installing Knockoffs... Resolving package versions... Updating `~/.julia/environments/v1.11/Project.toml` [878bf26d] + Knockoffs v2.0.3 Updating `~/.julia/environments/v1.11/Manifest.toml` [47edcb42] + ADTypes v1.21.0 [1520ce14] + AbstractTrees v0.4.5 [7d9f7c33] + Accessors v0.1.43 [79e6a3ab] + Adapt v4.4.0 [66dad0bd] + AliasTables v1.1.3 [4fba245c] + ArrayInterface v7.22.0 [67c07d97] + Automa v1.1.0 [28d598bf] + BGZFStreams v0.3.2 [6e4b80f9] + BenchmarkTools v1.6.3 [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 v0.10.15 [d360d2e6] + ChainRulesCore v1.26.0 [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 v0.2.6 [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 v1.8.1 ⌅ [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [a0c0ee7d] + DifferentiationInterface v0.7.14 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.123 [ffbed154] + DocStringExtensions v0.9.5 [fdbdab4c] + ElasticArrays v1.2.12 [4e289a0a] + EnumX v1.0.5 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.16.0 [6a86dc24] + FiniteDiff v2.29.0 [26cc04aa] + FiniteDifferences v0.12.33 [f6369f11] + ForwardDiff v1.3.1 [38e38edf] + GLM v1.9.2 ⌃ [8d5ece8b] + GLMNet v0.7.0 [14197337] + GenericLinearAlgebra v0.3.19 [c27321d9] + Glob v1.4.0 [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 v1.7.1 [682c06a0] + JSON v1.4.0 [0f8b85d8] + JSON3 v1.14.3 [4076af6c] + JuMP v1.29.4 [878bf26d] + Knockoffs v2.0.3 [b964fa9f] + LaTeXStrings v1.4.0 [10f19ff3] + LayoutPointers v0.1.17 ⌃ [d3d80556] + LineSearches v7.5.1 [7a12625a] + LinearMaps v3.11.4 [2ab3a3ac] + LogExpFunctions v0.3.29 [bdcacae8] + LoopVectorization v0.12.173 [1914dd2f] + MacroTools v0.5.16 [d125e4d3] + ManualMemory v0.1.8 [b8f27783] + MathOptInterface v1.48.0 [e1d29d7a] + Missings v1.2.0 [d8a4904e] + MutableArithmetics v1.6.7 ⌅ [d41bc354] + NLSolversBase v7.10.0 [77ba4419] + NaNMath v1.1.3 [b8a86587] + NearestNeighbors v0.4.26 [6fe1bfb0] + OffsetArrays v1.17.0 ⌅ [429524aa] + Optim v1.13.3 [bac558e1] + OrderedCollections v1.8.1 ⌃ [90014a1f] + PDMats v0.11.35 [69de0a69] + Parsers v2.8.3 [1d0040c9] + PolyesterWeave v0.2.2 [3a141323] + PolynomialRoots v1.0.0 [2dfb63ee] + PooledArrays v1.4.3 [85a6dd25] + PositiveFactorizations v0.2.4 ⌅ [aea7be01] + PrecompileTools v1.2.1 [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 [3cdcf5f2] + RecipesBase v1.3.4 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [708f8203] + Richardson v1.4.2 [79098fc4] + Rmath v0.9.0 [f2b01f46] + Roots v2.2.10 [fdea26ae] + SIMD v3.7.2 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.43 [431bcebd] + SciMLPublic v1.0.1 [91c51154] + SentinelArrays v1.4.9 [efcf1570] + Setfield v1.1.2 [1277b4bf] + ShiftedArrays v2.0.0 [4e780e97] + SnpArrays v0.3.22 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.6.1 [aedffcd0] + Static v1.3.1 [0d7ed370] + StaticArrayInterface v1.8.0 [90137ffa] + StaticArrays v1.9.16 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.8.0 ⌅ [2913bbd2] + StatsBase v0.33.21 [4c63d2b9] + StatsFuns v1.5.2 [3eaba693] + StatsModels v0.7.8 [892a3eda] + StringManipulation v0.4.2 [856f2bd8] + StructTypes v1.11.0 [ec057cc2] + StructUtils v2.6.2 [9449cd9e] + TSVD v0.4.4 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [8290d209] + ThreadingUtilities v0.5.5 ⌅ [3bb67fe8] + TranscodingStreams v0.9.13 [3a884ed6] + UnPack v1.0.2 [28eba6e3] + VariantCallFormat v0.5.9 [3d5dd08c] + VectorizationBase v0.21.72 [ea10d353] + WeakRefStrings v1.4.2 [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 v5.8.2+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 v1.6.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.11.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.2.0 [44cfe95a] + Pkg v1.11.0 [de0858da] + Printf v1.11.0 [9abbd945] + Profile 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 v1.11.0 [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 v1.1.1+0 [deac9b47] + LibCURL_jll v8.6.0+0 [e37daf67] + LibGit2_jll v1.7.2+0 [29816b5a] + LibSSH2_jll v1.11.0+1 [c8ffd9c3] + MbedTLS_jll v2.28.6+0 [14a3606d] + MozillaCACerts_jll v2023.12.12 [4536629a] + OpenBLAS_jll v0.3.27+1 [05823500] + OpenLibm_jll v0.8.5+0 [bea87d4a] + SuiteSparse_jll v7.7.0+0 [83775a58] + Zlib_jll v1.2.13+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 [8e850ede] + nghttp2_jll v1.59.0+0 [3f19e933] + p7zip_jll v17.4.0+2 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 7.75s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompiling project... 218772.5 ms ✓ JuMP 10556.3 ms ✓ Hypatia 153689.7 ms ✓ SnpArrays 90734.8 ms ✓ Optim → OptimMOIExt 444571.6 ms ✓ Knockoffs 5 dependencies successfully precompiled in 950 seconds. 252 already precompiled. Precompilation completed after 962.94s ################################################################################ # Testing # Testing Knockoffs Status `/tmp/jl_Lklw7p/Project.toml` ⌅ [0a1fb500] BlockDiagonals v0.1.42 [336ed68f] CSV v0.10.15 [aaaa29a8] Clustering v0.15.8 [587fd27a] CovarianceEstimation v0.2.13 [a93c6f00] DataFrames v1.8.1 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.123 [fdbdab4c] ElasticArrays v1.2.12 [38e38edf] GLM v1.9.2 ⌃ [8d5ece8b] GLMNet v0.7.0 ⌅ [b99e6be6] Hypatia v0.7.4 [4076af6c] JuMP v1.29.4 [878bf26d] Knockoffs v2.0.3 [bdcacae8] LoopVectorization v0.12.173 ⌅ [429524aa] Optim v1.13.3 [85a6dd25] PositiveFactorizations v0.2.4 [92933f4c] ProgressMeter v1.11.0 [189a3867] Reexport v1.2.2 [f2b01f46] Roots v2.2.10 [4e780e97] SnpArrays v0.3.22 [10745b16] Statistics v1.11.1 ⌅ [2913bbd2] StatsBase v0.33.21 [c751599d] ToeplitzMatrices v0.8.5 [f43a241f] Downloads v1.6.0 [37e2e46d] LinearAlgebra v1.11.0 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_Lklw7p/Manifest.toml` [47edcb42] ADTypes v1.21.0 [621f4979] AbstractFFTs v1.5.0 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.43 [79e6a3ab] Adapt v4.4.0 [66dad0bd] AliasTables v1.1.3 [4fba245c] ArrayInterface v7.22.0 [67c07d97] Automa v1.1.0 [28d598bf] BGZFStreams v0.3.2 [6e4b80f9] BenchmarkTools v1.6.3 [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 v0.10.15 [d360d2e6] ChainRulesCore v1.26.0 [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 v0.2.6 [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 v0.8.4 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.8.1 ⌅ [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 [a0c0ee7d] DifferentiationInterface v0.7.14 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.123 [ffbed154] DocStringExtensions v0.9.5 [fdbdab4c] ElasticArrays v1.2.12 [4e289a0a] EnumX v1.0.5 [7a1cc6ca] FFTW v1.10.0 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.16.0 [6a86dc24] FiniteDiff v2.29.0 [26cc04aa] FiniteDifferences v0.12.33 [f6369f11] ForwardDiff v1.3.1 [38e38edf] GLM v1.9.2 ⌃ [8d5ece8b] GLMNet v0.7.0 [14197337] GenericLinearAlgebra v0.3.19 [c27321d9] Glob v1.4.0 [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 v1.7.1 [682c06a0] JSON v1.4.0 [0f8b85d8] JSON3 v1.14.3 [4076af6c] JuMP v1.29.4 [878bf26d] Knockoffs v2.0.3 [b964fa9f] LaTeXStrings v1.4.0 [10f19ff3] LayoutPointers v0.1.17 ⌃ [d3d80556] LineSearches v7.5.1 [7a12625a] LinearMaps v3.11.4 [2ab3a3ac] LogExpFunctions v0.3.29 [bdcacae8] LoopVectorization v0.12.173 [1914dd2f] MacroTools v0.5.16 [d125e4d3] ManualMemory v0.1.8 [b8f27783] MathOptInterface v1.48.0 [e1d29d7a] Missings v1.2.0 [d8a4904e] MutableArithmetics v1.6.7 ⌅ [d41bc354] NLSolversBase v7.10.0 [77ba4419] NaNMath v1.1.3 [b8a86587] NearestNeighbors v0.4.26 [6fe1bfb0] OffsetArrays v1.17.0 ⌅ [429524aa] Optim v1.13.3 [bac558e1] OrderedCollections v1.8.1 ⌃ [90014a1f] PDMats v0.11.35 [69de0a69] Parsers v2.8.3 [1d0040c9] PolyesterWeave v0.2.2 [3a141323] PolynomialRoots v1.0.0 [f27b6e38] Polynomials v4.1.0 [2dfb63ee] PooledArrays v1.4.3 [85a6dd25] PositiveFactorizations v0.2.4 ⌅ [aea7be01] PrecompileTools v1.2.1 [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 [3cdcf5f2] RecipesBase v1.3.4 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [708f8203] Richardson v1.4.2 [79098fc4] Rmath v0.9.0 [f2b01f46] Roots v2.2.10 [fdea26ae] SIMD v3.7.2 [94e857df] SIMDTypes v0.1.0 [476501e8] SLEEFPirates v0.6.43 [431bcebd] SciMLPublic v1.0.1 [91c51154] SentinelArrays v1.4.9 [efcf1570] Setfield v1.1.2 [1277b4bf] ShiftedArrays v2.0.0 [4e780e97] SnpArrays v0.3.22 [a2af1166] SortingAlgorithms v1.2.2 [276daf66] SpecialFunctions v2.6.1 [aedffcd0] Static v1.3.1 [0d7ed370] StaticArrayInterface v1.8.0 [90137ffa] StaticArrays v1.9.16 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.8.0 ⌅ [2913bbd2] StatsBase v0.33.21 [4c63d2b9] StatsFuns v1.5.2 [3eaba693] StatsModels v0.7.8 [892a3eda] StringManipulation v0.4.2 [856f2bd8] StructTypes v1.11.0 [ec057cc2] StructUtils v2.6.2 [9449cd9e] TSVD v0.4.4 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [8290d209] ThreadingUtilities v0.5.5 [c751599d] ToeplitzMatrices v0.8.5 ⌅ [3bb67fe8] TranscodingStreams v0.9.13 [3a884ed6] UnPack v1.0.2 [28eba6e3] VariantCallFormat v0.5.9 [3d5dd08c] VectorizationBase v0.21.72 [ea10d353] WeakRefStrings v1.4.2 [efce3f68] WoodburyMatrices v1.1.0 [76eceee3] WorkerUtilities v1.6.1 [6e34b625] Bzip2_jll v1.0.9+0 [f5851436] FFTW_jll v3.3.11+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 v5.8.2+0 [3161d3a3] Zstd_jll v1.5.7+1 [78c6b45d] glmnet_jll v5.0.0+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 v1.6.0 [7b1f6079] FileWatching v1.11.0 [9fa8497b] Future v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [4af54fe1] LazyArtifacts v1.11.0 [b27032c2] LibCURL v0.6.4 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.11.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.2.0 [44cfe95a] Pkg v1.11.0 [de0858da] Printf v1.11.0 [9abbd945] Profile 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 v1.11.0 [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 v1.1.1+0 [deac9b47] LibCURL_jll v8.6.0+0 [e37daf67] LibGit2_jll v1.7.2+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.6+0 [14a3606d] MozillaCACerts_jll v2023.12.12 [4536629a] OpenBLAS_jll v0.3.27+1 [05823500] OpenLibm_jll v0.8.5+0 [bea87d4a] SuiteSparse_jll v7.7.0+0 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.59.0+0 [3f19e933] p7zip_jll v17.4.0+2 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 ToeplitzMatrices... 42404.1 ms ✓ Polynomials 3117.7 ms ✓ Polynomials → PolynomialsFFTWExt 6776.0 ms ✓ DSP 4408.9 ms ✓ ToeplitzMatrices 4 dependencies successfully precompiled in 58 seconds. 60 already precompiled. Precompiling PolynomialsChainRulesCoreExt... 2720.3 ms ✓ Polynomials → PolynomialsChainRulesCoreExt 1 dependency successfully precompiled in 3 seconds. 24 already precompiled. Precompiling PolynomialsMutableArithmeticsExt... 3327.9 ms ✓ Polynomials → PolynomialsMutableArithmeticsExt 1 dependency successfully precompiled in 4 seconds. 26 already precompiled. Precompiling OffsetArraysExt... 3573.8 ms ✓ DSP → OffsetArraysExt 1 dependency successfully precompiled in 4 seconds. 61 already precompiled. Precompiling ToeplitzMatricesStatsBaseExt... 4307.3 ms ✓ ToeplitzMatrices → ToeplitzMatricesStatsBaseExt 1 dependency successfully precompiled in 5 seconds. 73 already precompiled. 160.301728 seconds (70.39 M allocations: 4.129 GiB, 1.44% gc time, 98.93% compilation time) Test Summary: | Pass Total Time fixed knockoffs | 10204 10204 2m40.9s 13.997961 seconds (324.14 k allocations: 184.648 MiB, 1.25% gc time) Test Summary: | Pass Total Time model X Guassian Knockoffs | 4 4 14.0s 10.630504 seconds (309.53 k allocations: 186.464 MiB, 7.55% gc time) Test Summary: | Pass Total Time model X 2nd order Knockoffs | 3 3 10.6s Test Summary: | Pass Total Time utility functions | 247354 247354 28.0s Test Summary: | Pass Total Time MK_statistics | 16 16 4.2s Test Summary: | Pass Total Time Markov chain knockoffs have the right correlation structure | 55 55 29.7s 54.570132 seconds (649.39 k allocations: 589.657 MiB, 1.78% gc time) 0.115731 seconds (103 allocations: 15.384 MiB) 0.139399 seconds (109 allocations: 15.389 MiB) 4.884217 seconds (404.06 k allocations: 69.900 MiB, 51.82% compilation time) 3.232703 seconds (1.24 k allocations: 49.592 MiB) 3.174577 seconds (1.24 k allocations: 49.593 MiB) Test Summary: | Pass Total Time SDP vs MVR vs ME knockoffs | 2 2 1m06.2s 65.204713 seconds (660.67 k allocations: 587.222 MiB, 0.14% gc time) 1.095769 seconds (72 allocations: 10.467 MiB, 18.71% gc time) Test Summary: | Pass Total Time SDP vs SDP fast | 1 1 1m06.3s 0.556530 seconds (72 allocations: 10.467 MiB) 1.439368 seconds (72 allocations: 10.467 MiB) Test Summary: | Pass Total Time keyword arguments | 1 1 2.0s 1.411919 seconds (103 allocations: 42.423 MiB, 61.11% gc time) 5.337987 seconds (1.25 k allocations: 125.279 MiB, 0.55% gc time) 5.253326 seconds (1.58 k allocations: 134.461 MiB, 0.12% gc time) Test Summary: | Pass Total Time debiasing preserves sparsity pattern | 5 5 12.0s ┌ 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... 83%|███████████▋ | ETA: 0:00:01 Approximating covariance by blocks... 100%|██████████████| Time: 0:00:05 17.091630 seconds (4.11 M allocations: 715.414 MiB, 1.00% gc time, 67.99% compilation time) 0.434685 seconds (989 allocations: 43.011 MiB, 2.25% gc time) 1.045500 seconds (1.02 k allocations: 202.098 MiB, 1.91% gc time) Test Summary: | Pass Total Time approximate constructions | 4 4 18.8s norm(ko.betas[i] - b) = 1.7919251278577844 norm(ko.betas[i] - b) = 1.7919251278577844 norm(ko.betas[i] - b) = 1.7919251278577844 norm(ko.betas[i] - b) = 0.7044388571689835 norm(ko.betas[i] - b) = 0.879750303505637 norm(ko.betas[i] - b) = 1.7919251278577844 norm(ko.betas[i] - b) = 1.7919251278577844 norm(ko.betas[i] - b) = 1.7919251278577844 norm(ko.betas[i] - b) = 0.7044387294061174 norm(ko.betas[i] - b) = 0.9607680773846126 norm(ko.betas[i] - b) = 1.7919251278577844 norm(ko.betas[i] - b) = 1.7919251278577844 norm(ko.betas[i] - b) = 1.7919251278577844 norm(ko.betas[i] - b) = 1.0183935821402585 norm(ko.betas[i] - b) = 1.019309911295841 Test Summary: | Pass Total Time fit lasso Gaussian | 3 3 1.9s norm(ls_ko.betas[i] - b) = 1.898369367937291 norm(ls_ko.betas[i] - b) = 1.898369367937291 norm(ls_ko.betas[i] - b) = 1.898369367937291 norm(ls_ko.betas[i] - b) = 0.4880027600182147 norm(ls_ko.betas[i] - b) = 0.6228446256183272 norm(lasso_ko.betas[i] - b) = 1.898369367937291 norm(lasso_ko.betas[i] - b) = 1.898369367937291 norm(lasso_ko.betas[i] - b) = 1.898369367937291 norm(lasso_ko.betas[i] - b) = 1.6046122369956328 norm(lasso_ko.betas[i] - b) = 1.5990540493936085 norm(nodebias_ko.betas[i] - b) = 1.898369367937291 norm(nodebias_ko.betas[i] - b) = 1.898369367937291 norm(nodebias_ko.betas[i] - b) = 1.662231193450143 norm(nodebias_ko.betas[i] - b) = 1.6604119549015366 norm(nodebias_ko.betas[i] - b) = 1.6604633394479436 Test Summary: | Pass Total Time fit lasso logistic | 3 3 1m01.2s Test Summary: | Pass Total Time predict via knockoff-filter | 15 15 1.8s 142.466643 seconds (66.83 M allocations: 3.356 GiB, 0.87% gc time, 99.99% 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 = 0.0 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 = 0.01 Iter 11 (PCA): obj = 0.0005253955252115187, δ = 0.0002733251270502751, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 12 (PCA): obj = 0.0005011821332138296, δ = 0.00017258408984083783, t1 = 0.01, t2 = 0.0, t3 = 0.01 Iter 13 (PCA): obj = 0.0005003029756800681, δ = 0.00012494593920418898, t1 = 0.01, t2 = 0.0, t3 = 0.02 16.579791 seconds (1.98 M allocations: 110.752 MiB, 99.71% 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 = 0.01, 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 0.049495 seconds (4.45 k allocations: 11.231 MiB) 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 0.026174 seconds (2.28 k allocations: 11.077 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 2.859120 seconds (379.16 k allocations: 29.255 MiB, 99.26% 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 0.026924 seconds (1.44 k allocations: 11.159 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 0.029956 seconds (1.69 k allocations: 11.175 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 2.140523 seconds (266.51 k allocations: 24.018 MiB, 98.97% 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 0.055350 seconds (1.41 k allocations: 11.031 MiB, 63.28% gc time) 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 0.019354 seconds (1.66 k allocations: 11.048 MiB) Init obj = 3.1114759811463855, with 10 unique blocks to optimze Iter 1: obj = 1.586279010230391, δ = 0.6261363639719644 Iter 2: obj = 1.4654527019745351, δ = 0.26609380948349565 Iter 3: obj = 1.4484866693695433, δ = 0.10575919205701756 Iter 4: obj = 1.4403112641382463, δ = 0.09540230857271159 Iter 5: obj = 1.4362199367085815, δ = 0.09630944712388764 Iter 6: obj = 1.433184962595409, δ = 0.10355766425528734 Iter 7: obj = 1.4311161601966078, δ = 0.04423371304037471 Iter 8: obj = 1.4290934907385051, δ = 0.04984919650282915 Iter 9: obj = 1.428077648546279, δ = 0.07532102060885454 Iter 10: obj = 1.4273332529175777, δ = 0.061686948218357573 Iter 11: obj = 1.4266932103783636, δ = 0.03784053623623668 Iter 12: obj = 1.4260579917679943, δ = 0.12699032574800329 Iter 13: obj = 1.4252966438081718, δ = 0.2505283612938079 Iter 14: obj = 1.424732486000705, δ = 0.0835230432025501 Iter 15: obj = 1.4240754434767458, δ = 0.07752756720986248 Iter 16: obj = 1.423650013859187, δ = 0.07755834834644296 Iter 17: obj = 1.4231996555050455, δ = 0.09102317573017396 Iter 18: obj = 1.4227922446385943, δ = 0.0638685393783186 Iter 19: obj = 1.4224425342864135, δ = 0.08656895623475419 Iter 20: obj = 1.4221339657119092, δ = 0.024972517665624805 Iter 21: obj = 1.4218591528732785, δ = 0.01799533189449376 Iter 22: obj = 1.4216166344066445, δ = 0.01702281164977415 Iter 23: obj = 1.4214108539860573, δ = 0.019814830197709132 Iter 24: obj = 1.4212304343240147, δ = 0.030440018943561298 Iter 25: obj = 1.421068811492581, δ = 0.012382487525681052 Iter 26: obj = 1.4209251497764115, δ = 0.03369618061896246 Iter 27: obj = 1.4207977926637283, δ = 0.027258802792677006 Iter 28: obj = 1.4207007068919024, δ = 0.025702188711981766 Iter 29: obj = 1.4205952705014748, δ = 0.04344731384654721 Iter 30: obj = 1.4205006634927377, δ = 0.008866332299293511 56.003105 seconds (19.67 M allocations: 1.024 GiB, 0.55% gc time, 88.99% compilation time) Init obj = 4627.631991934988, with 10 unique blocks to optimze Iter 1: obj = 2600.305147785168, δ = 0.482463514077176 Iter 2: obj = 2609.234479783102, δ = 0.1927734787367612 ┌ Warning: cannot step in centering direction └ @ Hypatia.Solvers ~/.julia/packages/Hypatia/Yxeja/src/Solvers/steppers/combined.jl:111 Iter 3: obj = 2633.0486842680634, δ = 0.0839042782814422 ┌ Warning: cannot step in centering direction └ @ Hypatia.Solvers ~/.julia/packages/Hypatia/Yxeja/src/Solvers/steppers/combined.jl:111 Iter 4: obj = 2637.71142063537, δ = 0.020248498230634238 Iter 5: obj = 2642.117423973545, δ = 0.014259107552989286 Iter 6: obj = 2646.4820206854124, δ = 0.011490304763477094 Iter 7: obj = 2650.23461537006, δ = 0.009071147227530135 46.490737 seconds (12.96 M allocations: 1.194 GiB, 0.65% gc time, 44.89% compilation time) Init obj = -315.9613170182778, with 10 unique blocks to optimze Iter 1: obj = -235.36611183691895, δ = 0.18784720979083191 Iter 2: obj = -237.4377947538479, δ = 0.01766972349344198 Iter 3: obj = -237.38248572392845, δ = 0.0008357890874609586 21.581290 seconds (11.57 M allocations: 598.968 MiB, 1.05% gc time, 96.77% compilation time) 0.107725 seconds (35.09 k allocations: 13.282 MiB, 22.50% compilation time) 1.095667 seconds (98.26 k allocations: 47.453 MiB, 1.92% gc time, 2.18% compilation time) Test Summary: | Pass Total Time group knockoff optimization | 3558 3558 4m58.3s 4.317821 seconds (1.15 M allocations: 59.909 MiB, 99.26% compilation time) Test Summary: | Pass Total Time block descent for a single block | 2 2 16.8s Test Summary: | Pass Total Time group knockoff utilities | 7 7 6.9s Test Summary: | Pass Total Time representative group knockoffs | 15 15 1m34.2s 1.125101 seconds (3.42 k allocations: 147.398 MiB) 1.608549 seconds (3.42 k allocations: 271.783 MiB, 6.64% gc time) Test Summary: | Pass Total Time multiple knockoffs | 8 8 6m34.3s Testing Knockoffs tests passed Testing completed after 1662.25s PkgEval succeeded after 2684.27s