Package evaluation of Knockoffs on Julia 1.12.0-DEV.1799 (64d37f533b*) started at 2025-03-25T00:38:29.801 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.91s ################################################################################ # Installation # Installing Knockoffs... Resolving package versions... Updating `~/.julia/environments/v1.12/Project.toml` [878bf26d] + Knockoffs v2.0.2 Updating `~/.julia/environments/v1.12/Manifest.toml` [47edcb42] + ADTypes v1.14.0 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.3.0 [66dad0bd] + AliasTables v1.1.3 [4fba245c] + ArrayInterface v7.18.0 ⌅ [67c07d97] + Automa v0.8.4 [28d598bf] + BGZFStreams v0.3.2 [6e4b80f9] + BenchmarkTools v1.6.0 [47718e42] + BioGenerics v0.1.5 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 ⌅ [0a1fb500] + BlockDiagonals v0.1.42 [e1450e63] + BufferedStreams v1.2.2 [2a0fbf3d] + CPUSummary v0.2.6 [336ed68f] + CSV v0.10.15 [d360d2e6] + ChainRulesCore v1.25.1 [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 v0.8.6 [861a8166] + Combinatorics v1.0.2 [38540f10] + CommonSolve v0.2.4 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.16.0 [a33af91c] + CompositionsBase v0.1.2 [187b0558] + ConstructionBase v1.5.8 [587fd27a] + CovarianceEstimation v0.2.13 [adafc99b] + CpuId v0.3.1 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.7.0 [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 v0.6.48 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.118 [ffbed154] + DocStringExtensions v0.9.3 [fdbdab4c] + ElasticArrays v1.2.12 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.13.0 [6a86dc24] + FiniteDiff v2.27.0 [26cc04aa] + FiniteDifferences v0.12.32 [f6369f11] + ForwardDiff v0.10.38 [38e38edf] + GLM v1.9.0 ⌃ [8d5ece8b] + GLMNet v0.7.0 [14197337] + GenericLinearAlgebra v0.3.15 [c27321d9] + Glob v1.3.1 [3e5b6fbb] + HostCPUFeatures v0.1.17 ⌅ [b99e6be6] + Hypatia v0.7.4 [34004b35] + HypergeometricFunctions v0.3.28 [615f187c] + IfElse v0.1.1 [842dd82b] + InlineStrings v1.4.3 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.4 [42fd0dbc] + IterativeSolvers v0.9.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.0 [682c06a0] + JSON v0.21.4 [0f8b85d8] + JSON3 v1.14.1 [4076af6c] + JuMP v1.24.0 [878bf26d] + Knockoffs v2.0.2 [b964fa9f] + LaTeXStrings v1.4.0 [10f19ff3] + LayoutPointers v0.1.17 [d3d80556] + LineSearches v7.3.0 [7a12625a] + LinearMaps v3.11.4 [2ab3a3ac] + LogExpFunctions v0.3.29 [bdcacae8] + LoopVectorization v0.12.171 [1914dd2f] + MacroTools v0.5.15 [d125e4d3] + ManualMemory v0.1.8 [b8f27783] + MathOptInterface v1.38.0 [e1d29d7a] + Missings v1.2.0 [d8a4904e] + MutableArithmetics v1.6.4 [d41bc354] + NLSolversBase v7.9.0 [77ba4419] + NaNMath v1.1.2 [b8a86587] + NearestNeighbors v0.4.21 [6fe1bfb0] + OffsetArrays v1.16.0 [429524aa] + Optim v1.11.0 [bac558e1] + OrderedCollections v1.8.0 [90014a1f] + PDMats v0.11.32 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.8.1 [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 v1.4.3 [08abe8d2] + PrettyTables v2.4.0 [92933f4c] + ProgressMeter v1.10.2 [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 v0.8.0 [f2b01f46] + Roots v2.2.6 [94e857df] + SIMDTypes v0.1.0 [476501e8] + SLEEFPirates v0.6.43 [91c51154] + SentinelArrays v1.4.8 [efcf1570] + Setfield v1.1.2 [1277b4bf] + ShiftedArrays v2.0.0 [4e780e97] + SnpArrays v0.3.22 [a2af1166] + SortingAlgorithms v1.2.1 [276daf66] + SpecialFunctions v2.5.0 [aedffcd0] + Static v1.2.0 [0d7ed370] + StaticArrayInterface v1.8.0 [90137ffa] + StaticArrays v1.9.13 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.0 ⌅ [2913bbd2] + StatsBase v0.33.21 [4c63d2b9] + StatsFuns v1.3.2 [3eaba693] + StatsModels v0.7.4 [892a3eda] + StringManipulation v0.4.1 [856f2bd8] + StructTypes v1.11.0 [9449cd9e] + TSVD v0.4.4 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.0 [8290d209] + ThreadingUtilities v0.5.2 ⌅ [3bb67fe8] + TranscodingStreams v0.9.13 [3a884ed6] + UnPack v1.0.2 [28eba6e3] + VariantCallFormat v0.5.6 [3d5dd08c] + VectorizationBase v0.21.71 [ea10d353] + WeakRefStrings v1.4.2 [efce3f68] + WoodburyMatrices v1.0.0 [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 v5.6.4+1 [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 [dc6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [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 v1.12.0 [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 v1.12.0 [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 v1.2.0+0 [deac9b47] + LibCURL_jll v8.6.0+0 [e37daf67] + LibGit2_jll v1.8.0+0 [29816b5a] + LibSSH2_jll v1.11.0+1 [c8ffd9c3] + MbedTLS_jll v2.28.6+1 [14a3606d] + MozillaCACerts_jll v2024.11.26 [4536629a] + OpenBLAS_jll v0.3.28+3 [05823500] + OpenLibm_jll v0.8.1+3 [bea87d4a] + SuiteSparse_jll v7.8.0+1 [83775a58] + Zlib_jll v1.3.1+1 [8e850b90] + libblastrampoline_jll v5.11.2+0 [8e850ede] + nghttp2_jll v1.63.0+1 [3f19e933] + p7zip_jll v17.5.0+1 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 5.47s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 1003.12s ################################################################################ # Testing # Testing Knockoffs Status `/tmp/jl_KLX3YB/Project.toml` ⌅ [0a1fb500] BlockDiagonals v0.1.42 [336ed68f] CSV v0.10.15 [aaaa29a8] Clustering v0.15.8 [587fd27a] CovarianceEstimation v0.2.13 [a93c6f00] DataFrames v1.7.0 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.118 [fdbdab4c] ElasticArrays v1.2.12 [38e38edf] GLM v1.9.0 ⌃ [8d5ece8b] GLMNet v0.7.0 ⌅ [b99e6be6] Hypatia v0.7.4 [4076af6c] JuMP v1.24.0 [878bf26d] Knockoffs v2.0.2 [bdcacae8] LoopVectorization v0.12.171 [429524aa] Optim v1.11.0 [85a6dd25] PositiveFactorizations v0.2.4 [92933f4c] ProgressMeter v1.10.2 [189a3867] Reexport v1.2.2 [f2b01f46] Roots v2.2.6 [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_KLX3YB/Manifest.toml` [47edcb42] ADTypes v1.14.0 [621f4979] AbstractFFTs v1.5.0 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.3.0 [66dad0bd] AliasTables v1.1.3 [4fba245c] ArrayInterface v7.18.0 ⌅ [67c07d97] Automa v0.8.4 [28d598bf] BGZFStreams v0.3.2 [6e4b80f9] BenchmarkTools v1.6.0 [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 v0.2.6 [336ed68f] CSV v0.10.15 [d360d2e6] ChainRulesCore v1.25.1 [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 v0.8.6 [861a8166] Combinatorics v1.0.2 [38540f10] CommonSolve v0.2.4 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.16.0 [a33af91c] CompositionsBase v0.1.2 [187b0558] ConstructionBase v1.5.8 [587fd27a] CovarianceEstimation v0.2.13 [adafc99b] CpuId v0.3.1 [a8cc5b0e] Crayons v4.1.1 [717857b8] DSP v0.8.3 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.7.0 [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 v0.6.48 [b4f34e82] Distances v0.10.12 [31c24e10] Distributions v0.25.118 [ffbed154] DocStringExtensions v0.9.3 [fdbdab4c] ElasticArrays v1.2.12 [7a1cc6ca] FFTW v1.8.1 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.13.0 [6a86dc24] FiniteDiff v2.27.0 [26cc04aa] FiniteDifferences v0.12.32 [f6369f11] ForwardDiff v0.10.38 [38e38edf] GLM v1.9.0 ⌃ [8d5ece8b] GLMNet v0.7.0 [14197337] GenericLinearAlgebra v0.3.15 [c27321d9] Glob v1.3.1 [3e5b6fbb] HostCPUFeatures v0.1.17 ⌅ [b99e6be6] Hypatia v0.7.4 [34004b35] HypergeometricFunctions v0.3.28 [615f187c] IfElse v0.1.1 [842dd82b] InlineStrings v1.4.3 [3587e190] InverseFunctions v0.1.17 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.4 [c8e1da08] IterTools v1.10.0 [42fd0dbc] IterativeSolvers v0.9.4 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.0 [682c06a0] JSON v0.21.4 [0f8b85d8] JSON3 v1.14.1 [4076af6c] JuMP v1.24.0 [878bf26d] Knockoffs v2.0.2 [b964fa9f] LaTeXStrings v1.4.0 [10f19ff3] LayoutPointers v0.1.17 [d3d80556] LineSearches v7.3.0 [7a12625a] LinearMaps v3.11.4 [2ab3a3ac] LogExpFunctions v0.3.29 [bdcacae8] LoopVectorization v0.12.171 [1914dd2f] MacroTools v0.5.15 [d125e4d3] ManualMemory v0.1.8 [b8f27783] MathOptInterface v1.38.0 [e1d29d7a] Missings v1.2.0 [d8a4904e] MutableArithmetics v1.6.4 [d41bc354] NLSolversBase v7.9.0 [77ba4419] NaNMath v1.1.2 [b8a86587] NearestNeighbors v0.4.21 [6fe1bfb0] OffsetArrays v1.16.0 [429524aa] Optim v1.11.0 [bac558e1] OrderedCollections v1.8.0 [90014a1f] PDMats v0.11.32 [d96e819e] Parameters v0.12.3 [69de0a69] Parsers v2.8.1 [1d0040c9] PolyesterWeave v0.2.2 [3a141323] PolynomialRoots v1.0.0 [f27b6e38] Polynomials v4.0.19 [2dfb63ee] PooledArrays v1.4.3 [85a6dd25] PositiveFactorizations v0.2.4 [aea7be01] PrecompileTools v1.2.1 [21216c6a] Preferences v1.4.3 [08abe8d2] PrettyTables v2.4.0 [92933f4c] ProgressMeter v1.10.2 [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 v0.8.0 [f2b01f46] Roots v2.2.6 [94e857df] SIMDTypes v0.1.0 [476501e8] SLEEFPirates v0.6.43 [91c51154] SentinelArrays v1.4.8 [efcf1570] Setfield v1.1.2 [1277b4bf] ShiftedArrays v2.0.0 [4e780e97] SnpArrays v0.3.22 [a2af1166] SortingAlgorithms v1.2.1 [276daf66] SpecialFunctions v2.5.0 [aedffcd0] Static v1.2.0 [0d7ed370] StaticArrayInterface v1.8.0 [90137ffa] StaticArrays v1.9.13 [1e83bf80] StaticArraysCore v1.4.3 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.0 ⌅ [2913bbd2] StatsBase v0.33.21 [4c63d2b9] StatsFuns v1.3.2 [3eaba693] StatsModels v0.7.4 [892a3eda] StringManipulation v0.4.1 [856f2bd8] StructTypes v1.11.0 [9449cd9e] TSVD v0.4.4 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.0 [8290d209] ThreadingUtilities v0.5.2 [c751599d] ToeplitzMatrices v0.8.5 ⌅ [3bb67fe8] TranscodingStreams v0.9.13 [3a884ed6] UnPack v1.0.2 [28eba6e3] VariantCallFormat v0.5.6 [3d5dd08c] VectorizationBase v0.21.71 [ea10d353] WeakRefStrings v1.4.2 [efce3f68] WoodburyMatrices v1.0.0 [76eceee3] WorkerUtilities v1.6.1 [6e34b625] Bzip2_jll v1.0.9+0 [f5851436] FFTW_jll v3.3.10+3 [1d5cc7b8] IntelOpenMP_jll v2025.0.4+0 [856f044c] MKL_jll v2025.0.1+1 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [ffd25f8a] XZ_jll v5.6.4+1 [3161d3a3] Zstd_jll v1.5.7+1 [78c6b45d] glmnet_jll v5.0.0+0 [1317d2d5] oneTBB_jll v2022.0.0+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 [dc6e5ff7] 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 v1.11.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.2.0 [44cfe95a] Pkg v1.12.0 [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 v1.12.0 [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 v1.2.0+0 [deac9b47] LibCURL_jll v8.6.0+0 [e37daf67] LibGit2_jll v1.8.0+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.6+1 [14a3606d] MozillaCACerts_jll v2024.11.26 [4536629a] OpenBLAS_jll v0.3.28+3 [05823500] OpenLibm_jll v0.8.1+3 [bea87d4a] SuiteSparse_jll v7.8.0+1 [83775a58] Zlib_jll v1.3.1+1 [8e850b90] libblastrampoline_jll v5.11.2+0 [8e850ede] nghttp2_jll v1.63.0+1 [3f19e933] p7zip_jll v17.5.0+1 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: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in lowrankdowndate_turbo!(LinearAlgebra.Cholesky{T, S} where S<:(AbstractArray{T, 2} where T), AbstractArray{T, 1} where T) where {T<:AbstractFloat} at /home/pkgeval/.julia/packages/Knockoffs/YJCQB/src/utilities.jl WARNING: llvmcall with integer pointers is deprecated. Use actual pointers instead, replacing i32 or i64 with i8* or ptr in lowrankupdate_turbo!(LinearAlgebra.Cholesky{T, S} where S<:(AbstractArray{T, 2} where T), AbstractArray{T, 1} where T) where {T<:AbstractFloat} at /home/pkgeval/.julia/packages/Knockoffs/YJCQB/src/utilities.jl 240.478589 seconds (96.81 M allocations: 4.869 GiB, 1.23% gc time, 99.34% compilation time: 11% of which was recompilation) Test Summary: | Pass Total Time fixed knockoffs | 10204 10204 4m06.7s 28.551829 seconds (6.77 M allocations: 518.958 MiB, 1.14% gc time, 49.41% compilation time) Test Summary: | Pass Total Time model X Guassian Knockoffs | 4 4 30.6s 18.054779 seconds (3.41 M allocations: 349.098 MiB, 1.30% gc time, 44.74% compilation time) Test Summary: | Pass Total Time model X 2nd order Knockoffs | 3 3 18.1s Test Summary: | Pass Total Time utility functions | 247876 247876 22.6s Test Summary: | Pass Total Time MK_statistics | 16 16 3.3s Test Summary: | Pass Total Time Markov chain knockoffs have the right correlation structure | 55 55 25.9s 56.058080 seconds (648.79 k allocations: 589.647 MiB, 2.28% gc time) 0.122940 seconds (102 allocations: 15.357 MiB) 0.142982 seconds (108 allocations: 15.362 MiB) 16.701070 seconds (6.81 M allocations: 395.093 MiB, 6.74% gc time, 85.14% compilation time: 1% of which was recompilation) 3.317816 seconds (1.24 k allocations: 49.584 MiB) 3.319730 seconds (1.24 k allocations: 49.584 MiB, 0.70% gc time) Test Summary: | Pass Total Time SDP vs MVR vs ME knockoffs | 2 2 1m22.5s 68.300199 seconds (660.00 k allocations: 587.209 MiB, 1.66% gc time) 0.910694 seconds (80 allocations: 10.467 MiB) Test Summary: | Pass Total Time SDP vs SDP fast | 1 1 1m10.1s 1.132261 seconds (238.44 k allocations: 22.970 MiB, 46.13% compilation time) 1.619217 seconds (85 allocations: 10.467 MiB) Test Summary: | Pass Total Time keyword arguments | 1 1 2.8s 0.566608 seconds (102 allocations: 42.377 MiB) 5.614753 seconds (1.25 k allocations: 125.264 MiB) 17.523479 seconds (4.91 M allocations: 386.342 MiB, 68.74% compilation time) Test Summary: | Pass Total Time debiasing preserves sparsity pattern | 5 5 24.0s ┌ 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: 0:00:04 Approximating covariance by blocks... 67%|█████████▍ | ETA: 0:00:02 Approximating covariance by blocks... 83%|███████████▋ | ETA: 0:00:01 Approximating covariance by blocks... 100%|██████████████| Time: 0:00:04 29.789274 seconds (10.07 M allocations: 1009.510 MiB, 5.08% gc time, 74.76% compilation time: 16% of which was recompilation) 0.809355 seconds (1.83 k allocations: 42.870 MiB, 1.73% gc time, 2.03% compilation time) 1.356427 seconds (2.79 k allocations: 201.995 MiB, 1.88% gc time, 1.26% compilation time) Test Summary: | Pass Total Time approximate constructions | 4 4 32.3s 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 2.1s 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 59.6s Test Summary: | Pass Total Time predict via knockoff-filter | 15 15 2.7s 94.030850 seconds (46.77 M allocations: 2.303 GiB, 1.99% gc time, 99.99% compilation time: <1% of which was recompilation) SDP initial obj = 2.600000000000001 Iter 1 (PCA): obj = 0.03744957450903603, δ = 0.996689246439459, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 2 (PCA): obj = 0.021446050474850372, δ = 0.05912204635467477, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 3 (PCA): obj = 0.0045491809687887045, δ = 0.0704268089822648, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 4 (PCA): obj = 0.0019507760387226971, δ = 0.03655716917702524, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 5 (PCA): obj = 0.0010425588078040525, δ = 0.006736557993816119, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 6 (PCA): obj = 0.0005407430553915637, δ = 0.005582509845114016, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 7 (PCA): obj = 0.0003347741669350123, δ = 0.003139395608757726, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 8 (PCA): obj = 0.0002090515640939903, δ = 0.0018212834813296566, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 9 (PCA): obj = 0.00020113898963497814, δ = 0.0002229929018856666, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 10 (PCA): obj = 0.0001773019952576691, δ = 0.0003541617878364881, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 11 (PCA): obj = 0.00016392867389970002, δ = 0.00013726149894680505, t1 = 0.01, t2 = 0.0, t3 = 0.01 Iter 12 (PCA): obj = 0.00015766750914941025, δ = 0.00010430278928557913, t1 = 0.01, t2 = 0.0, t3 = 0.02 Iter 13 (PCA): obj = 0.00015663860199817452, δ = 0.0001040763484195521, t1 = 0.01, t2 = 0.01, t3 = 0.02 11.130016 seconds (2.17 M allocations: 118.800 MiB, 99.56% compilation time: 1% of which was recompilation) SDP initial obj = 2.600000000000001 Iter 1 (PCA): obj = 0.03744957450903603, δ = 0.996689246439459, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 2 (PCA): obj = 0.021446050474850372, δ = 0.05912204635467477, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 3 (PCA): obj = 0.004549180968788698, δ = 0.0704268089822648, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 4 (PCA): obj = 0.001950776038722685, δ = 0.03655716917702524, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 5 (PCA): obj = 0.001042558807804052, δ = 0.006736557993816119, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 6 (PCA): obj = 0.0005407430553915624, δ = 0.005582509845114016, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 7 (PCA): obj = 0.00033477416693500426, δ = 0.003139395608757726, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 8 (PCA): obj = 0.0002090515640939825, δ = 0.0018212834813296566, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 9 (PCA): obj = 0.00020113898963497375, δ = 0.0002229929018856666, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 10 (PCA): obj = 0.00017730199525765788, δ = 0.0003541617878364881, t1 = 0.0, t2 = 0.0, t3 = 0.01 Iter 11 (CCD): obj = 1.983575932528608e-15, δ = 0.00012189258208106235, t1 = 0.01, t2 = 0.0, t3 = 0.01 Iter 12 (CCD): obj = 1.983575932528608e-15, δ = 0.0, t1 = 0.01, t2 = 0.01, t3 = 0.01 Iter 13 (PCA): obj = 0.00012434050251603057, δ = 9.739587512306788e-5, t1 = 0.01, t2 = 0.01, t3 = 0.02 Iter 14 (CCD): obj = 1.908531672138074e-15, δ = 4.7237470156225037e-5, t1 = 0.01, t2 = 0.01, t3 = 0.02 0.045906 seconds (4.59 k allocations: 11.218 MiB) SDP initial obj = 2.600000000000001 Iter 1 (PCA): obj = 0.03744957450903603, δ = 0.996689246439459, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 2 (CCD): obj = 0.001975951722420947, δ = 0.04040997122601586, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 3 (PCA): obj = 0.0011849168618914652, δ = 0.013954900661887431, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 4 (CCD): obj = 1.8823901178034383e-15, δ = 0.007872038276664495, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 5 (PCA): obj = 0.00012434050251662417, δ = 9.739587512360456e-5, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 6 (CCD): obj = 1.8093756659918808e-15, δ = 4.7237470156558103e-5, t1 = 0.0, t2 = 0.0, t3 = 0.0 0.026831 seconds (2.57 k allocations: 11.076 MiB) MVR initial obj = 3627.758405239077 Iter 1 (PCA): obj = 2134.3338341797325, δ = 0.982580447671203, t1 = 0.0, t2 = 0.0 Iter 2 (PCA): obj = 2134.2325877013486, δ = 0.0643650487008933, t1 = 0.0, t2 = 0.0 1.988010 seconds (371.49 k allocations: 29.268 MiB, 98.80% compilation time) MVR initial obj = 3627.758405239077 Iter 1 (PCA): obj = 2134.3338341797325, δ = 0.982580447671203, t1 = 0.0, t2 = 0.0 Iter 2 (PCA): obj = 2134.2325877013486, δ = 0.0643650487008933, t1 = 0.0, t2 = 0.0 Iter 3 (CCD): obj = 2134.232587701286, δ = 2.3275086851111695e-7, t1 = 0.0, t2 = 0.0,t3 = 0.0 0.025828 seconds (1.34 k allocations: 11.133 MiB) MVR initial obj = 3627.758405239077 Iter 1 (PCA): obj = 2134.3338341797325, δ = 0.982580447671203, t1 = 0.0, t2 = 0.0 Iter 2 (CCD): obj = 2134.3244105744875, δ = 0.001111626033916182, t1 = 0.0, t2 = 0.0,t3 = 0.0 Iter 3 (PCA): obj = 2134.2327037665823, δ = 0.06131979315168862, t1 = 0.0, t2 = 0.0 Iter 4 (CCD): obj = 2134.2326519499047, δ = 0.00012568469048371582, t1 = 0.0, t2 = 0.01,t3 = 0.0 0.250419 seconds (1.62 k allocations: 11.151 MiB, 90.38% gc time) Maxent initial obj = -257.9275190821772 Iter 1 (PCA): obj = -153.27202274240102, δ = 0.9946996466431095, t1 = 0.0, t2 = 0.0 Iter 2 (PCA): obj = -153.24879130720356, δ = 0.0601895660773662, t1 = 0.0, t2 = 0.0 1.734805 seconds (260.13 k allocations: 23.569 MiB, 99.24% compilation time) Maxent initial obj = -257.9275190821772 Iter 1 (PCA): obj = -153.27202274240102, δ = 0.9946996466431095, t1 = 0.0, t2 = 0.0 Iter 2 (PCA): obj = -153.24879130720356, δ = 0.0601895660773662, t1 = 0.0, t2 = 0.0 Iter 3 (CCD): obj = -153.24878956758232, δ = 0.00010284693688310882, t1 = 0.0, t2 = 0.0, t3 = 0.0 0.013745 seconds (1.31 k allocations: 11.005 MiB) Maxent initial obj = -257.9275190821772 Iter 1 (PCA): obj = -153.27202274240102, δ = 0.9946996466431095, t1 = 0.0, t2 = 0.0 Iter 2 (CCD): obj = -153.2656480405508, δ = 0.0031445886658079823, t1 = 0.0, t2 = 0.0, t3 = 0.0 Iter 3 (PCA): obj = -153.2488607491826, δ = 0.051199336594447274, t1 = 0.0, t2 = 0.0 Iter 4 (CCD): obj = -153.24880953840625, δ = 0.0006013356323908853, t1 = 0.0, t2 = 0.0, t3 = 0.0 0.015468 seconds (1.58 k allocations: 11.023 MiB) Init obj = 3.1526687895492618, with 10 unique blocks to optimze ┌ Warning: cannot step in centering direction └ @ Hypatia.Solvers ~/.julia/packages/Hypatia/Yxeja/src/Solvers/steppers/combined.jl:111 Iter 1: obj = 1.5469486994709227, δ = 0.6181254024533311 Iter 2: obj = 1.445999940932191, δ = 0.16960281580648484 Iter 3: obj = 1.414621355743327, δ = 0.08382717761956086 Iter 4: obj = 1.3979115327245744, δ = 0.11160417506681064 Iter 5: obj = 1.3886903612211638, δ = 0.12574672277840127 Iter 6: obj = 1.382412611295286, δ = 0.08442369056768957 Iter 7: obj = 1.3782493226172754, δ = 0.11224524019836135 Iter 8: obj = 1.375696463779709, δ = 0.054977403650065204 Iter 9: obj = 1.3732683303327704, δ = 0.05577302230349901 Iter 10: obj = 1.3715402153804532, δ = 0.04985868748625122 Iter 11: obj = 1.3700553912601678, δ = 0.03246944883292141 Iter 12: obj = 1.3665757853048317, δ = 0.09790442607073452 Iter 13: obj = 1.3646439081986281, δ = 0.05219907048423106 Iter 14: obj = 1.363077313635817, δ = 0.04045785657042672 Iter 15: obj = 1.361835769663411, δ = 0.030287850488781465 Iter 16: obj = 1.3608141626889894, δ = 0.02344799151534721 Iter 17: obj = 1.359980058676276, δ = 0.06347996905883652 Iter 18: obj = 1.359238159526969, δ = 0.06805431510995841 Iter 19: obj = 1.358594802884755, δ = 0.1005291435678346 Iter 20: obj = 1.3580224813131603, δ = 0.052950972924147355 Iter 21: obj = 1.3575188187928424, δ = 0.03794623812976339 Iter 22: obj = 1.357077879215468, δ = 0.02521916899951343 Iter 23: obj = 1.3567019768674136, δ = 0.12368386629545303 Iter 24: obj = 1.3563743234324497, δ = 0.24691943209036754 Iter 25: obj = 1.3560293045251073, δ = 0.12323295027964332 ┌ Warning: cannot step in centering direction └ @ Hypatia.Solvers ~/.julia/packages/Hypatia/Yxeja/src/Solvers/steppers/combined.jl:111 Iter 26: obj = 1.3556450088833012, δ = 0.038843520820118216 Iter 27: obj = 1.355260375283434, δ = 0.039306116950412695 ┌ Warning: cannot step in centering direction └ @ Hypatia.Solvers ~/.julia/packages/Hypatia/Yxeja/src/Solvers/steppers/combined.jl:111 Iter 28: obj = 1.354897997582572, δ = 0.04725718374407162 Iter 29: obj = 1.3545621366193603, δ = 0.04562062327048422 Iter 30: obj = 1.3542197559861249, δ = 0.029467540740730935 Iter 31: obj = 1.3538937766324772, δ = 0.07905517670899254 Iter 32: obj = 1.3535995356689272, δ = 0.0937515110920546 Iter 33: obj = 1.3533113159353258, δ = 0.03987635362525993 Iter 34: obj = 1.3530408268536518, δ = 0.08770692997325608 Iter 35: obj = 1.3528167924554286, δ = 0.08716565618969435 Iter 36: obj = 1.3526038238199718, δ = 0.11495119280311966 Iter 37: obj = 1.3524206594683854, δ = 0.11404373002184193 Iter 38: obj = 1.3522609034122683, δ = 0.021601854738999726 Iter 39: obj = 1.352117637721903, δ = 0.030495431782623483 Iter 40: obj = 1.3519882159807437, δ = 0.055040434528528526 Iter 41: obj = 1.3518709300126996, δ = 0.04810628503283215 Iter 42: obj = 1.3517639831964128, δ = 0.0341870365309343 Iter 43: obj = 1.3516647167611786, δ = 0.022300419055853615 Iter 44: obj = 1.3515718027842916, δ = 0.01941750728420588 Iter 45: obj = 1.3514845559891246, δ = 0.018638389640988184 Iter 46: obj = 1.3514015398198869, δ = 0.0017754237198776557 34.940182 seconds (21.53 M allocations: 1.153 GiB, 1.15% gc time, 75.80% compilation time: 9% of which was recompilation) Init obj = 4653.43626817798, with 10 unique blocks to optimze Iter 1: obj = 2654.619270553245, δ = 0.4542248861466393 Iter 2: obj = 2657.6189671958778, δ = 0.2164656584703376 Iter 3: obj = 2685.343173220365, δ = 0.04998475747177045 Iter 4: obj = 2691.9389419520676, δ = 0.01788962032793151 Iter 5: obj = 2694.1481672695945, δ = 0.010303435187533405 Iter 6: obj = 2695.2441841834384, δ = 0.005520824940661417 38.885140 seconds (10.93 M allocations: 1.010 GiB, 0.74% gc time, 43.32% compilation time: 19% of which was recompilation) Init obj = -316.38797935535644, with 10 unique blocks to optimze Iter 1: obj = -240.15908663023205, δ = 0.17133966967234232 Iter 2: obj = -242.0188316324216, δ = 0.013307302894961959 Iter 3: obj = -241.97500918278064, δ = 0.0007378738424329567 18.885018 seconds (9.16 M allocations: 473.373 MiB, 0.53% gc time, 95.82% compilation time: 1% of which was recompilation) 0.175100 seconds (33.78 k allocations: 13.245 MiB, 41.14% gc time, 12.20% compilation time: 100% of which was recompilation) 1.064574 seconds (95.56 k allocations: 47.390 MiB, 2.04% compilation time: 100% of which was recompilation) Test Summary: | Pass Total Time group knockoff optimization | 3558 3558 3m29.3s 1.849898 seconds (1.98 M allocations: 96.852 MiB, 98.94% compilation time: <1% of which was recompilation) Test Summary: | Pass Total Time block descent for a single block | 2 2 11.1s Test Summary: | Pass Total Time group knockoff utilities | 7 7 5.5s Test Summary: | Pass Total Time representative group knockoffs | 14 14 1m02.9s 1.200267 seconds (16.00 k allocations: 147.943 MiB, 5.12% compilation time) 1.502195 seconds (3.43 k allocations: 271.691 MiB) Test Summary: | Pass Total Time multiple knockoffs | 8 8 6m59.2s Testing Knockoffs tests passed Testing completed after 1524.09s PkgEval succeeded after 2582.31s