Package evaluation to test TrajGWAS on Julia 1.11.7 (58327cce5e*) started at 2025-10-29T06:32:04.735 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.2s ################################################################################ # Installation # Installing TrajGWAS... Resolving package versions... Updating `~/.julia/environments/v1.11/Project.toml` [9514c204] + TrajGWAS v0.4.7 Updating `~/.julia/environments/v1.11/Manifest.toml` [47edcb42] + ADTypes v1.18.0 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.4.0 [66dad0bd] + AliasTables v1.1.3 [4fba245c] + ArrayInterface v7.22.0 [67c07d97] + Automa v1.1.0 [13072b0f] + AxisAlgorithms v1.1.0 [6db4b851] + BGEN v0.2.2 [28d598bf] + BGZFStreams v0.3.2 [6e4b80f9] + BenchmarkTools v1.6.3 [47718e42] + BioGenerics v0.1.5 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [e1450e63] + BufferedStreams v1.2.2 [2a0fbf3d] + CPUSummary v0.2.7 [336ed68f] + CSV v0.10.15 ⌅ [324d7699] + CategoricalArrays v0.10.7 [d360d2e6] + ChainRulesCore v1.26.0 [fb6a15b2] + CloseOpenIntervals v0.1.13 [523fee87] + CodecBzip2 v0.8.5 [ba30903b] + CodecXz v0.7.4 [944b1d66] + CodecZlib v0.7.8 [6b39b394] + CodecZstd v0.8.6 [861a8166] + Combinatorics v1.0.3 [38540f10] + CommonSolve v0.2.4 [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 [adafc99b] + CpuId v0.3.1 [a8cc5b0e] + Crayons v4.1.1 [a10d1c49] + DBInterface v2.6.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.8.1 [864edb3b] + DataStructures v0.19.1 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 [a0c0ee7d] + DifferentiationInterface v0.7.9 [31c24e10] + Distributions v0.25.122 [ffbed154] + DocStringExtensions v0.9.5 [4e289a0a] + EnumX v1.0.5 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.14.0 [6a86dc24] + FiniteDiff v2.29.0 [f6369f11] + ForwardDiff v1.2.2 [2447270c] + GeneticVariantBase v0.1.2 [c27321d9] + Glob v1.3.1 [3e5b6fbb] + HostCPUFeatures v0.1.17 [34004b35] + HypergeometricFunctions v0.3.28 [09f84164] + HypothesisTests v0.11.6 [615f187c] + IfElse v0.1.1 [842dd82b] + InlineStrings v1.4.5 [a98d9a8b] + Interpolations v0.16.2 [3587e190] + InverseFunctions v0.1.17 [41ab1584] + InvertedIndices v1.3.1 [b6b21f68] + Ipopt v1.12.1 [92d709cd] + IrrationalConstants v0.2.6 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 [682c06a0] + JSON v1.2.0 [0f8b85d8] + JSON3 v1.14.3 [b964fa9f] + LaTeXStrings v1.4.0 [10f19ff3] + LayoutPointers v0.1.17 [d3d80556] + LineSearches v7.4.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [bdcacae8] + LoopVectorization v0.12.173 [1914dd2f] + MacroTools v0.5.16 [d125e4d3] + ManualMemory v0.1.8 [b8f27783] + MathOptInterface v1.46.0 [fdba3010] + MathProgBase v0.7.8 [e1d29d7a] + Missings v1.2.0 [d8a4904e] + MutableArithmetics v1.6.7 [d41bc354] + NLSolversBase v7.10.0 ⌅ [76087f3c] + NLopt v0.6.5 [77ba4419] + NaNMath v1.1.3 [6fe1bfb0] + OffsetArrays v1.17.0 [429524aa] + Optim v1.13.2 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.36 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.8.3 [1d0040c9] + PolyesterWeave v0.2.2 [2dfb63ee] + PooledArrays v1.4.3 [85a6dd25] + PositiveFactorizations v0.2.4 ⌅ [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.5.0 [08abe8d2] + PrettyTables v3.1.0 [92933f4c] + ProgressMeter v1.11.0 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [c84ed2f1] + Ratios v0.4.5 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [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 [0aa819cd] + SQLite v1.6.1 [431bcebd] + SciMLPublic v1.0.0 [91c51154] + SentinelArrays v1.4.8 [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 v1.9.15 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.7 [4c63d2b9] + StatsFuns v1.5.2 [3eaba693] + StatsModels v0.7.7 [892a3eda] + StringManipulation v0.4.1 [856f2bd8] + StructTypes v1.11.0 [ec057cc2] + StructUtils v2.5.1 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [8290d209] + ThreadingUtilities v0.5.5 [9514c204] + TrajGWAS v0.4.7 ⌅ [3bb67fe8] + TranscodingStreams v0.9.13 [3a884ed6] + UnPack v1.0.2 [a620830f] + VCFTools v0.2.10 [28eba6e3] + VariantCallFormat v0.5.9 [3d5dd08c] + VectorizationBase v0.21.72 [ea10d353] + WeakRefStrings v1.4.2 [2ff19380] + WiSER v0.2.6 [efce3f68] + WoodburyMatrices v1.0.0 [76eceee3] + WorkerUtilities v1.6.1 [ae81ac8f] + ASL_jll v0.1.3+0 [6e34b625] + Bzip2_jll v1.0.9+0 [e33a78d0] + Hwloc_jll v2.12.2+0 [9cc047cb] + Ipopt_jll v300.1400.1900+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [d00139f3] + METIS_jll v5.1.3+0 [d7ed1dd3] + MUMPS_seq_jll v500.800.100+0 [079eb43e] + NLopt_jll v2.10.0+0 [656ef2d0] + OpenBLAS32_jll v0.3.29+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 ⌅ [319450e9] + SPRAL_jll v2025.5.20+0 [76ed43ae] + SQLite_jll v3.48.0+0 ⌅ [02c8fc9c] + XML2_jll v2.13.9+0 [ffd25f8a] + XZ_jll v5.8.1+0 [a65dc6b1] + Xorg_libpciaccess_jll v0.18.1+0 [3161d3a3] + Zstd_jll v1.5.7+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 [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 [1a1011a3] + SharedArrays 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 ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 7.32s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 887.32s ################################################################################ # Testing # Testing TrajGWAS Status `/tmp/jl_h6qCe6/Project.toml` [6db4b851] BGEN v0.2.2 [336ed68f] CSV v0.10.15 [a93c6f00] DataFrames v1.8.1 [31c24e10] Distributions v0.25.122 [a98d9a8b] Interpolations v0.16.2 [b8f27783] MathOptInterface v1.46.0 [429524aa] Optim v1.13.2 [189a3867] Reexport v1.2.2 [4e780e97] SnpArrays v0.3.22 [10745b16] Statistics v1.11.1 [2913bbd2] StatsBase v0.34.7 [3eaba693] StatsModels v0.7.7 [bd369af6] Tables v1.12.1 [9514c204] TrajGWAS v0.4.7 [a620830f] VCFTools v0.2.10 [28eba6e3] VariantCallFormat v0.5.9 [2ff19380] WiSER v0.2.6 [37e2e46d] LinearAlgebra v1.11.0 [de0858da] Printf v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_h6qCe6/Manifest.toml` [47edcb42] ADTypes v1.18.0 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.4.0 [66dad0bd] AliasTables v1.1.3 [4fba245c] ArrayInterface v7.22.0 [67c07d97] Automa v1.1.0 [13072b0f] AxisAlgorithms v1.1.0 [6db4b851] BGEN v0.2.2 [28d598bf] BGZFStreams v0.3.2 [6e4b80f9] BenchmarkTools v1.6.3 [47718e42] BioGenerics v0.1.5 [62783981] BitTwiddlingConvenienceFunctions v0.1.6 [e1450e63] BufferedStreams v1.2.2 [2a0fbf3d] CPUSummary v0.2.7 [336ed68f] CSV v0.10.15 ⌅ [324d7699] CategoricalArrays v0.10.7 [d360d2e6] ChainRulesCore v1.26.0 [fb6a15b2] CloseOpenIntervals v0.1.13 [523fee87] CodecBzip2 v0.8.5 [ba30903b] CodecXz v0.7.4 [944b1d66] CodecZlib v0.7.8 [6b39b394] CodecZstd v0.8.6 [861a8166] Combinatorics v1.0.3 [38540f10] CommonSolve v0.2.4 [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 [adafc99b] CpuId v0.3.1 [a8cc5b0e] Crayons v4.1.1 [a10d1c49] DBInterface v2.6.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.8.1 [864edb3b] DataStructures v0.19.1 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 [a0c0ee7d] DifferentiationInterface v0.7.9 [31c24e10] Distributions v0.25.122 [ffbed154] DocStringExtensions v0.9.5 [4e289a0a] EnumX v1.0.5 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.14.0 [6a86dc24] FiniteDiff v2.29.0 [f6369f11] ForwardDiff v1.2.2 [2447270c] GeneticVariantBase v0.1.2 [c27321d9] Glob v1.3.1 [3e5b6fbb] HostCPUFeatures v0.1.17 [34004b35] HypergeometricFunctions v0.3.28 [09f84164] HypothesisTests v0.11.6 [615f187c] IfElse v0.1.1 [842dd82b] InlineStrings v1.4.5 [a98d9a8b] Interpolations v0.16.2 [3587e190] InverseFunctions v0.1.17 [41ab1584] InvertedIndices v1.3.1 [b6b21f68] Ipopt v1.12.1 [92d709cd] IrrationalConstants v0.2.6 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.1 [682c06a0] JSON v1.2.0 [0f8b85d8] JSON3 v1.14.3 [b964fa9f] LaTeXStrings v1.4.0 [10f19ff3] LayoutPointers v0.1.17 [d3d80556] LineSearches v7.4.0 [2ab3a3ac] LogExpFunctions v0.3.29 [bdcacae8] LoopVectorization v0.12.173 [1914dd2f] MacroTools v0.5.16 [d125e4d3] ManualMemory v0.1.8 [b8f27783] MathOptInterface v1.46.0 [fdba3010] MathProgBase v0.7.8 [e1d29d7a] Missings v1.2.0 [d8a4904e] MutableArithmetics v1.6.7 [d41bc354] NLSolversBase v7.10.0 ⌅ [76087f3c] NLopt v0.6.5 [77ba4419] NaNMath v1.1.3 [6fe1bfb0] OffsetArrays v1.17.0 [429524aa] Optim v1.13.2 [bac558e1] OrderedCollections v1.8.1 [90014a1f] PDMats v0.11.36 [d96e819e] Parameters v0.12.3 [69de0a69] Parsers v2.8.3 [1d0040c9] PolyesterWeave v0.2.2 [2dfb63ee] PooledArrays v1.4.3 [85a6dd25] PositiveFactorizations v0.2.4 ⌅ [aea7be01] PrecompileTools v1.2.1 [21216c6a] Preferences v1.5.0 [08abe8d2] PrettyTables v3.1.0 [92933f4c] ProgressMeter v1.11.0 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [c84ed2f1] Ratios v0.4.5 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [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 [0aa819cd] SQLite v1.6.1 [431bcebd] SciMLPublic v1.0.0 [91c51154] SentinelArrays v1.4.8 [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 v1.9.15 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.1 [2913bbd2] StatsBase v0.34.7 [4c63d2b9] StatsFuns v1.5.2 [3eaba693] StatsModels v0.7.7 [892a3eda] StringManipulation v0.4.1 [856f2bd8] StructTypes v1.11.0 [ec057cc2] StructUtils v2.5.1 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [8290d209] ThreadingUtilities v0.5.5 [9514c204] TrajGWAS v0.4.7 ⌅ [3bb67fe8] TranscodingStreams v0.9.13 [3a884ed6] UnPack v1.0.2 [a620830f] VCFTools v0.2.10 [28eba6e3] VariantCallFormat v0.5.9 [3d5dd08c] VectorizationBase v0.21.72 [ea10d353] WeakRefStrings v1.4.2 [2ff19380] WiSER v0.2.6 [efce3f68] WoodburyMatrices v1.0.0 [76eceee3] WorkerUtilities v1.6.1 [ae81ac8f] ASL_jll v0.1.3+0 [6e34b625] Bzip2_jll v1.0.9+0 [e33a78d0] Hwloc_jll v2.12.2+0 [9cc047cb] Ipopt_jll v300.1400.1900+0 [94ce4f54] Libiconv_jll v1.18.0+0 [d00139f3] METIS_jll v5.1.3+0 [d7ed1dd3] MUMPS_seq_jll v500.800.100+0 [079eb43e] NLopt_jll v2.10.0+0 [656ef2d0] OpenBLAS32_jll v0.3.29+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 ⌅ [319450e9] SPRAL_jll v2025.5.20+0 [76ed43ae] SQLite_jll v3.48.0+0 ⌅ [02c8fc9c] XML2_jll v2.13.9+0 [ffd25f8a] XZ_jll v5.8.1+0 [a65dc6b1] Xorg_libpciaccess_jll v0.18.1+0 [3161d3a3] Zstd_jll v1.5.7+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 [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 [1a1011a3] SharedArrays 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 ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... ****************************************************************************** This program contains Ipopt, a library for large-scale nonlinear optimization. Ipopt is released as open source code under the Eclipse Public License (EPL). For more information visit https://github.com/coin-or/Ipopt ****************************************************************************** run = 1, ‖Δβ‖ = 0.226739, ‖Δτ‖ = 0.457389, ‖ΔL‖ = 0.109248, status = LOCALLY_SOLVED, time(s) = 2.404975 run = 2, ‖Δβ‖ = 0.057532, ‖Δτ‖ = 0.014932, ‖ΔL‖ = 0.041254, status = LOCALLY_SOLVED, time(s) = 0.178024 Test Summary: | Pass Total Time generic | 4 4 56.2s Test Summary: | Pass Total Time generic_invariant | 4 4 17.2s run = 1, ‖Δβ‖ = 0.037090, ‖Δτ‖ = 0.136339, ‖ΔL‖ = 0.005441, status = LOCALLY_SOLVED, time(s) = 0.111159 run = 2, ‖Δβ‖ = 0.000913, ‖Δτ‖ = 0.019810, ‖ΔL‖ = 0.001582, status = LOCALLY_SOLVED, time(s) = 0.096430 0.2089229077734306 0.19055788036352628 run = 1, ‖Δβ‖ = 0.037090, ‖Δτ‖ = 0.136339, ‖ΔL‖ = 0.005441, status = LOCALLY_SOLVED, time(s) = 0.116846 run = 2, ‖Δβ‖ = 0.000913, ‖Δτ‖ = 0.019810, ‖ΔL‖ = 0.001582, status = LOCALLY_SOLVED, time(s) = 0.093631 0.2084190062148525 0.18913803850068825 Test Summary: | Pass Total Time trajgwas_singlesnp_plink | 2 2 1m40.6s run = 1, ‖Δβ‖ = 0.003459, ‖Δτ‖ = 0.421747, ‖ΔL‖ = 0.002492, status = LOCALLY_SOLVED, time(s) = 0.055078 run = 2, ‖Δβ‖ = 0.001369, ‖Δτ‖ = 0.015998, ‖ΔL‖ = 0.003244, status = LOCALLY_SOLVED, time(s) = 0.036478 run = 1, ‖Δβ‖ = 0.003459, ‖Δτ‖ = 0.421747, ‖ΔL‖ = 0.002492, status = LOCALLY_SOLVED, time(s) = 0.036425 run = 2, ‖Δβ‖ = 0.001369, ‖Δτ‖ = 0.015998, ‖ΔL‖ = 0.003244, status = LOCALLY_SOLVED, time(s) = 0.033163 Test Summary: | Pass Total Time trajgwas_singlesnp_vcf | 2 2 27.3s run = 1, ‖Δβ‖ = 0.096578, ‖Δτ‖ = 0.162563, ‖ΔL‖ = 0.007625, status = LOCALLY_SOLVED, time(s) = 0.118974 run = 2, ‖Δβ‖ = 0.003173, ‖Δτ‖ = 0.005584, ‖ΔL‖ = 0.001468, status = LOCALLY_SOLVED, time(s) = 0.100643 0.464291821807929550.49317590385507415 run = 1, ‖Δβ‖ = 0.096578, ‖Δτ‖ = 0.162563, ‖ΔL‖ = 0.007625, status = LOCALLY_SOLVED, time(s) = 0.112843 run = 2, ‖Δβ‖ = 0.003173, ‖Δτ‖ = 0.005584, ‖ΔL‖ = 0.001468, status = LOCALLY_SOLVED, time(s) = 0.097211 Test Summary: | Pass Total Time trajgwas_singlesnp_bgen | 2 2 37.2s run = 1, ‖Δβ‖ = 0.040947, ‖Δτ‖ = 0.071411, ‖ΔL‖ = 0.000478, status = LOCALLY_SOLVED, time(s) = 0.033342 run = 2, ‖Δβ‖ = 0.000251, ‖Δτ‖ = 0.000010, ‖ΔL‖ = 0.000097, status = LOCALLY_SOLVED, time(s) = 0.023805 run = 1, ‖Δβ‖ = 0.040947, ‖Δτ‖ = 0.071411, ‖ΔL‖ = 0.000478, status = LOCALLY_SOLVED, time(s) = 0.040661 run = 2, ‖Δβ‖ = 0.000251, ‖Δτ‖ = 0.000010, ‖ΔL‖ = 0.000097, status = LOCALLY_SOLVED, time(s) = 0.030706 run = 1, ‖Δβ‖ = 0.040947, ‖Δτ‖ = 0.071411, ‖ΔL‖ = 0.000478, status = LOCALLY_SOLVED, time(s) = 0.043763 run = 2, ‖Δβ‖ = 0.000251, ‖Δτ‖ = 0.000010, ‖ΔL‖ = 0.000097, status = LOCALLY_SOLVED, time(s) = 0.033397 Test Summary: | Pass Total Time trajgwas_snpset_plink | 3 3 21.7s run = 1, ‖Δβ‖ = 0.003459, ‖Δτ‖ = 0.421747, ‖ΔL‖ = 0.002492, status = LOCALLY_SOLVED, time(s) = 0.041528 run = 2, ‖Δβ‖ = 0.001369, ‖Δτ‖ = 0.015998, ‖ΔL‖ = 0.003244, status = LOCALLY_SOLVED, time(s) = 0.034727 run = 1, ‖Δβ‖ = 0.004330, ‖Δτ‖ = 0.403070, ‖ΔL‖ = 0.008125, status = LOCALLY_SOLVED, time(s) = 0.026797 run = 2, ‖Δβ‖ = 0.003020, ‖Δτ‖ = 0.000340, ‖ΔL‖ = 0.003227, status = LOCALLY_SOLVED, time(s) = 0.019490 ┌ Warning: This method requires reading in the entire VCF File. │ This can take a lot of memory for large files, as they must be brought into memory. └ @ TrajGWAS ~/.julia/packages/TrajGWAS/y0Cm6/src/gwas.jl:1405 run = 1, ‖Δβ‖ = 0.004330, ‖Δτ‖ = 0.403070, ‖ΔL‖ = 0.008125, status = LOCALLY_SOLVED, time(s) = 0.026528 run = 2, ‖Δβ‖ = 0.003020, ‖Δτ‖ = 0.000340, ‖ΔL‖ = 0.003227, status = LOCALLY_SOLVED, time(s) = 0.021197 ┌ Warning: This method requires reading in the entire VCF File. │ This can take a lot of memory for large files, as they must be brought into memory. └ @ TrajGWAS ~/.julia/packages/TrajGWAS/y0Cm6/src/gwas.jl:1450 Test Summary: | Pass Total Time trajgwas_snpset_vcf | 3 3 27.8s run = 1, ‖Δβ‖ = 0.096578, ‖Δτ‖ = 0.162563, ‖ΔL‖ = 0.007625, status = LOCALLY_SOLVED, time(s) = 0.109535 run = 2, ‖Δβ‖ = 0.003173, ‖Δτ‖ = 0.005584, ‖ΔL‖ = 0.001468, status = LOCALLY_SOLVED, time(s) = 0.092148 run = 1, ‖Δβ‖ = 0.091220, ‖Δτ‖ = 0.027517, ‖ΔL‖ = 0.001323, status = LOCALLY_SOLVED, time(s) = 0.066031 run = 2, ‖Δβ‖ = 0.000603, ‖Δτ‖ = 0.000018, ‖ΔL‖ = 0.000001, status = LOCALLY_SOLVED, time(s) = 0.051781 run = 1, ‖Δβ‖ = 0.091220, ‖Δτ‖ = 0.027517, ‖ΔL‖ = 0.001323, status = LOCALLY_SOLVED, time(s) = 0.066433 run = 2, ‖Δβ‖ = 0.000603, ‖Δτ‖ = 0.000018, ‖ΔL‖ = 0.000001, status = LOCALLY_SOLVED, time(s) = 0.051026 Test Summary: | Pass Total Time trajgwas_snpset_bgen | 3 3 29.2s run = 1, ‖Δβ‖ = 0.037090, ‖Δτ‖ = 0.136339, ‖ΔL‖ = 0.005441, status = LOCALLY_SOLVED, time(s) = 0.106797 run = 2, ‖Δβ‖ = 0.000913, ‖Δτ‖ = 0.019810, ‖ΔL‖ = 0.001582, status = LOCALLY_SOLVED, time(s) = 0.096825 run = 1, ‖Δβ‖ = 0.480377, ‖Δτ‖ = 0.023510, ‖ΔL‖ = 0.001822, status = LOCALLY_SOLVED, time(s) = 0.105743 run = 2, ‖Δβ‖ = 0.000323, ‖Δτ‖ = 0.002136, ‖ΔL‖ = 0.000025, status = LOCALLY_SOLVED, time(s) = 0.102338 run = 1, ‖Δβ‖ = 1.059989, ‖Δτ‖ = 0.458239, ‖ΔL‖ = 0.063093, status = LOCALLY_SOLVED, time(s) = 0.130077 run = 2, ‖Δβ‖ = 0.009118, ‖Δτ‖ = 0.105352, ‖ΔL‖ = 0.000056, status = LOCALLY_SOLVED, time(s) = 0.132251 run = 1, ‖Δβ‖ = 1.144781, ‖Δτ‖ = 0.251459, ‖ΔL‖ = 0.034318, status = LOCALLY_SOLVED, time(s) = 0.103726 run = 2, ‖Δβ‖ = 0.000830, ‖Δτ‖ = 0.025631, ‖ΔL‖ = 0.000042, status = LOCALLY_SOLVED, time(s) = 0.096165 run = 1, ‖Δβ‖ = 0.683108, ‖Δτ‖ = 0.773919, ‖ΔL‖ = 0.042397, status = LOCALLY_SOLVED, time(s) = 0.109206 run = 2, ‖Δβ‖ = 0.008159, ‖Δτ‖ = 0.069178, ‖ΔL‖ = 0.003574, status = LOCALLY_SOLVED, time(s) = 0.110305 run = 1, ‖Δβ‖ = 2.098898, ‖Δτ‖ = 1.507867, ‖ΔL‖ = 0.001622, status = LOCALLY_SOLVED, time(s) = 0.154551 run = 2, ‖Δβ‖ = 0.019418, ‖Δτ‖ = 0.135459, ‖ΔL‖ = 0.000693, status = LOCALLY_SOLVED, time(s) = 0.127965 run = 1, ‖Δβ‖ = 0.991636, ‖Δτ‖ = 0.497592, ‖ΔL‖ = 0.085477, status = LOCALLY_SOLVED, time(s) = 0.103422 run = 2, ‖Δβ‖ = 0.007112, ‖Δτ‖ = 0.048855, ‖ΔL‖ = 0.001937, status = LOCALLY_SOLVED, time(s) = 0.103012 run = 1, ‖Δβ‖ = 0.538890, ‖Δτ‖ = 0.561885, ‖ΔL‖ = 0.008679, status = LOCALLY_SOLVED, time(s) = 0.118285 run = 2, ‖Δβ‖ = 0.005768, ‖Δτ‖ = 0.052304, ‖ΔL‖ = 0.001816, status = LOCALLY_SOLVED, time(s) = 0.125467 run = 1, ‖Δβ‖ = 0.291026, ‖Δτ‖ = 0.105558, ‖ΔL‖ = 0.001157, status = LOCALLY_SOLVED, time(s) = 0.122744 run = 2, ‖Δβ‖ = 0.002563, ‖Δτ‖ = 0.023749, ‖ΔL‖ = 0.000197, status = LOCALLY_SOLVED, time(s) = 0.121362 Test Summary: | Pass Total Time trajgwas_gxe_plink | 1 1 33.0s run = 1, ‖Δβ‖ = 0.003459, ‖Δτ‖ = 0.421747, ‖ΔL‖ = 0.002492, status = LOCALLY_SOLVED, time(s) = 0.035344 run = 2, ‖Δβ‖ = 0.001369, ‖Δτ‖ = 0.015998, ‖ΔL‖ = 0.003244, status = LOCALLY_SOLVED, time(s) = 0.032831 run = 1, ‖Δβ‖ = 1.766233, ‖Δτ‖ = 0.190501, ‖ΔL‖ = 0.001092, status = LOCALLY_SOLVED, time(s) = 0.031147 run = 2, ‖Δβ‖ = 0.000420, ‖Δτ‖ = 0.017892, ‖ΔL‖ = 0.000106, status = LOCALLY_SOLVED, time(s) = 0.035103 run = 1, ‖Δβ‖ = 22.949357, ‖Δτ‖ = 8.168699, ‖ΔL‖ = 0.004072, status = LOCALLY_SOLVED, time(s) = 0.047884 run = 2, ‖Δβ‖ = 0.058329, ‖Δτ‖ = 0.125962, ‖ΔL‖ = 0.000397, status = LOCALLY_SOLVED, time(s) = 0.041451 run = 1, ‖Δβ‖ = 4.304201, ‖Δτ‖ = 11.486618, ‖ΔL‖ = 0.002078, status = LOCALLY_SOLVED, time(s) = 0.056963 run = 2, ‖Δβ‖ = 0.004943, ‖Δτ‖ = 2.643245, ‖ΔL‖ = 0.001795, status = LOCALLY_SOLVED, time(s) = 0.045978 run = 1, ‖Δβ‖ = 0.667219, ‖Δτ‖ = 0.298181, ‖ΔL‖ = 0.029436, status = LOCALLY_SOLVED, time(s) = 0.063299 run = 2, ‖Δβ‖ = 0.010613, ‖Δτ‖ = 0.039022, ‖ΔL‖ = 0.000174, status = LOCALLY_SOLVED, time(s) = 0.050112 run = 1, ‖Δβ‖ = 11.196144, ‖Δτ‖ = 10.912168, ‖ΔL‖ = 0.001531, status = LOCALLY_SOLVED, time(s) = 0.042151 run = 2, ‖Δβ‖ = 0.033644, ‖Δτ‖ = 0.048537, ‖ΔL‖ = 0.000505, status = LOCALLY_SOLVED, time(s) = 0.039551 run = 1, ‖Δβ‖ = 1.146113, ‖Δτ‖ = 0.089098, ‖ΔL‖ = 0.006116, status = LOCALLY_SOLVED, time(s) = 0.051901 run = 2, ‖Δβ‖ = 0.001804, ‖Δτ‖ = 0.006435, ‖ΔL‖ = 0.000094, status = LOCALLY_SOLVED, time(s) = 0.043519 run = 1, ‖Δβ‖ = 75.240926, ‖Δτ‖ = 35.436788, ‖ΔL‖ = 0.021237, status = LOCALLY_SOLVED, time(s) = 0.046770 run = 2, ‖Δβ‖ = 0.009969, ‖Δτ‖ = 1.006758, ‖ΔL‖ = 0.000962, status = LOCALLY_SOLVED, time(s) = 0.040212 run = 1, ‖Δβ‖ = 4.279400, ‖Δτ‖ = 0.171277, ‖ΔL‖ = 0.003532, status = LOCALLY_SOLVED, time(s) = 0.053266 run = 2, ‖Δβ‖ = 0.001745, ‖Δτ‖ = 0.043685, ‖ΔL‖ = 0.000076, status = LOCALLY_SOLVED, time(s) = 0.051958 Test Summary: | Pass Total Time trajgwas_gxe_vcf | 1 1 9.9s run = 1, ‖Δβ‖ = 0.096578, ‖Δτ‖ = 0.162563, ‖ΔL‖ = 0.007625, status = LOCALLY_SOLVED, time(s) = 0.111732 run = 2, ‖Δβ‖ = 0.003173, ‖Δτ‖ = 0.005584, ‖ΔL‖ = 0.001468, status = LOCALLY_SOLVED, time(s) = 0.095023 run = 1, ‖Δβ‖ = 0.094553, ‖Δτ‖ = 0.038943, ‖ΔL‖ = 0.000826, status = LOCALLY_SOLVED, time(s) = 0.144370 run = 2, ‖Δβ‖ = 0.000341, ‖Δτ‖ = 0.001963, ‖ΔL‖ = 0.000019, status = LOCALLY_SOLVED, time(s) = 0.128255 run = 1, ‖Δβ‖ = 1.014822, ‖Δτ‖ = 0.587778, ‖ΔL‖ = 0.066835, status = LOCALLY_SOLVED, time(s) = 0.157594 run = 2, ‖Δβ‖ = 0.003554, ‖Δτ‖ = 0.047684, ‖ΔL‖ = 0.001007, status = LOCALLY_SOLVED, time(s) = 0.164996 run = 1, ‖Δβ‖ = 1.805467, ‖Δτ‖ = 1.080978, ‖ΔL‖ = 0.066858, status = LOCALLY_SOLVED, time(s) = 0.145328 run = 2, ‖Δβ‖ = 0.003882, ‖Δτ‖ = 0.069993, ‖ΔL‖ = 0.001023, status = LOCALLY_SOLVED, time(s) = 0.163466 run = 1, ‖Δβ‖ = 0.272043, ‖Δτ‖ = 0.025066, ‖ΔL‖ = 0.005250, status = LOCALLY_SOLVED, time(s) = 0.152258 run = 2, ‖Δβ‖ = 0.000109, ‖Δτ‖ = 0.002682, ‖ΔL‖ = 0.000013, status = LOCALLY_SOLVED, time(s) = 0.151420 run = 1, ‖Δβ‖ = 0.257585, ‖Δτ‖ = 0.023956, ‖ΔL‖ = 0.005250, status = LOCALLY_SOLVED, time(s) = 0.139741 run = 2, ‖Δβ‖ = 0.000134, ‖Δτ‖ = 0.002222, ‖ΔL‖ = 0.000013, status = LOCALLY_SOLVED, time(s) = 0.141546 Test Summary: | Pass Total Time trajgwas_gxe_bgen | 2 2 13.7s Testing TrajGWAS tests passed Testing completed after 572.93s PkgEval succeeded after 1501.84s