Package evaluation to test OnlinePCA on Julia 1.14.0-DEV.65 (b05afe0f25*) started at 2025-11-14T00:06:27.143 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 10.3s ################################################################################ # Installation # Installing OnlinePCA... Resolving package versions... Installed URIs ──────────────────────── v1.6.1 Installed MacroTools ────────────────── v0.5.16 Installed Rmath_jll ─────────────────── v0.5.1+0 Installed CodecZstd ─────────────────── v0.8.7 Installed FilePathsBase ─────────────── v0.9.24 Installed GLM ───────────────────────── v1.9.0 Installed DataStructures ────────────── v0.19.3 Installed libaec_jll ────────────────── v1.1.4+0 Installed InlineStrings ─────────────── v1.4.5 Installed HypergeometricFunctions ───── v0.3.28 Installed DelimitedFiles ────────────── v1.9.1 Installed Mux ───────────────────────── v1.0.2 Installed StatsModels ───────────────── v0.7.7 Installed FillArrays ────────────────── v1.15.0 Installed MPICH_jll ─────────────────── v4.3.2+0 Installed ConcurrentUtilities ───────── v2.5.0 Installed CodecZlib ─────────────────── v0.7.8 Installed OnlinePCA ─────────────────── v0.3.10 Installed AliasTables ───────────────── v1.1.3 Installed Observables ───────────────── v0.5.5 Installed ExceptionUnwrapping ───────── v0.1.11 Installed OrderedCollections ────────── v1.8.1 Installed StatsBase ─────────────────── v0.34.8 Installed MicrosoftMPI_jll ──────────── v10.1.4+3 Installed TranscodingStreams ────────── v0.11.3 Installed ShiftedArrays ─────────────── v2.0.0 Installed IteratorInterfaceExtensions ─ v1.0.0 Installed Compat ────────────────────── v4.18.1 Installed DataAPI ───────────────────── v1.16.0 Installed Statistics ────────────────── v1.11.1 Installed Kaleido_jll ───────────────── v0.2.1+0 Installed TensorCore ────────────────── v0.1.1 Installed InvertedIndices ───────────── v1.3.1 Installed Xorg_libpciaccess_jll ─────── v0.18.1+0 Installed WebSockets ────────────────── v1.6.0 Installed FunctionalCollections ─────── v0.5.0 Installed StatsAPI ──────────────────── v1.7.1 Installed PrecompileTools ───────────── v1.3.3 Installed DataValueInterfaces ───────── v1.0.0 Installed Hiccup ────────────────────── v0.2.2 Installed SentinelArrays ────────────── v1.4.8 Installed Colors ────────────────────── v0.13.1 Installed OpenSSL ───────────────────── v1.6.0 Installed ProgressMeter ─────────────── v1.11.0 Installed MbedTLS ───────────────────── v1.1.9 Installed LoggingExtras ─────────────── v1.2.0 Installed IrrationalConstants ───────── v0.2.6 Installed AssetRegistry ─────────────── v0.1.0 Installed TextWrap ──────────────────── v1.0.2 Installed StringManipulation ────────── v0.4.1 Installed QuadGK ────────────────────── v2.11.2 Installed ColorTypes ────────────────── v0.12.1 Installed Widgets ───────────────────── v0.6.7 Installed OpenSpecFun_jll ───────────── v0.5.6+0 Installed Requires ──────────────────── v1.3.1 Installed Pidfile ───────────────────── v1.3.0 Installed HDF5_jll ──────────────────── v1.14.6+0 Installed CSV ───────────────────────── v0.10.15 Installed ColorVectorSpace ──────────── v0.11.0 Installed ArgParse ──────────────────── v1.2.0 Installed HTTP ──────────────────────── v1.10.19 Installed LogExpFunctions ───────────── v0.3.29 Installed BitFlags ──────────────────── v0.1.9 Installed Hwloc_jll ─────────────────── v2.12.2+0 Installed OpenMPI_jll ───────────────── v5.0.8+0 Installed Parsers ───────────────────── v2.8.3 Installed JSON ──────────────────────── v0.21.4 Installed Rmath ─────────────────────── v0.9.0 Installed Parameters ────────────────── v0.12.3 Installed PrettyTables ──────────────── v3.1.0 Installed MatrixMarket ──────────────── v0.5.2 Installed PlotlyKaleido ─────────────── v2.3.0 Installed StatsFuns ─────────────────── v1.5.2 Installed Distributions ─────────────── v0.25.122 Installed WebIO ─────────────────────── v0.8.21 Installed XML2_jll ──────────────────── v2.13.9+0 Installed Tables ────────────────────── v1.12.1 Installed Reexport ──────────────────── v1.2.2 Installed PtrArrays ─────────────────── v1.3.0 Installed SpecialFunctions ──────────── v2.6.1 Installed DataFrames ────────────────── v1.8.1 Installed FixedPointNumbers ─────────── v0.8.5 Installed Preferences ───────────────── v1.5.0 Installed PlotlyBase ────────────────── v0.8.21 Installed MPIPreferences ────────────── v0.1.11 Installed SimpleBufferStream ────────── v1.2.0 Installed Missings ──────────────────── v1.2.0 Installed Blink ─────────────────────── v0.12.9 Installed PooledArrays ──────────────── v1.4.3 Installed Libiconv_jll ──────────────── v1.18.0+0 Installed TableTraits ───────────────── v1.0.1 Installed JSExpr ────────────────────── v0.5.4 Installed JLLWrappers ───────────────── v1.7.1 Installed LaTeXStrings ──────────────── v1.4.0 Installed WeakRefStrings ────────────── v1.4.2 Installed Mustache ──────────────────── v1.0.21 Installed SortingAlgorithms ─────────── v1.2.2 Installed MbedTLS_jll ───────────────── v2.28.10+0 Installed MPItrampoline_jll ─────────── v5.5.4+0 Installed Crayons ───────────────────── v4.1.1 Installed Lazy ──────────────────────── v0.15.1 Installed PDMats ────────────────────── v0.11.36 Installed UnPack ────────────────────── v1.0.2 Installed HDF5 ──────────────────────── v0.17.2 Installed DocStringExtensions ───────── v0.9.5 Installed WorkerUtilities ───────────── v1.6.1 Installed ColorSchemes ──────────────── v3.31.0 Installed PlotlyJS ──────────────────── v0.18.17 Installing 17 artifacts Installed artifact libaec 49.6 KiB Installed artifact Rmath 121.9 KiB Installed artifact plotly-base-artifacts 430.0 KiB Installed artifact MbedTLS 2.2 MiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact Libiconv 1.9 MiB Installed artifact web 215.6 KiB Installed artifact Xorg_libpciaccess 24.8 KiB Installed artifact plotly-artifacts 1.7 MiB Installed artifact HDF5 5.7 MiB Installed artifact mathjax 18.7 KiB Installed artifact XML2 2.5 MiB Installed artifact Hwloc 3.5 MiB Installed artifact plotly 2.3 MiB Installed artifact MPICH 3.3 MiB Installed artifact electronjs_app 79.1 MiB Installed artifact Kaleido 75.3 MiB Updating `~/.julia/environments/v1.14/Project.toml` [975b03d1] + OnlinePCA v0.3.10 Updating `~/.julia/environments/v1.14/Manifest.toml` [66dad0bd] + AliasTables v1.1.3 [c7e460c6] + ArgParse v1.2.0 [bf4720bc] + AssetRegistry v0.1.0 [d1d4a3ce] + BitFlags v0.1.9 [ad839575] + Blink v0.12.9 [336ed68f] + CSV v0.10.15 [944b1d66] + CodecZlib v0.7.8 [6b39b394] + CodecZstd v0.8.7 [35d6a980] + ColorSchemes v3.31.0 [3da002f7] + ColorTypes v0.12.1 [c3611d14] + ColorVectorSpace v0.11.0 [5ae59095] + Colors v0.13.1 [34da2185] + Compat v4.18.1 [f0e56b4a] + ConcurrentUtilities v2.5.0 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.8.1 [864edb3b] + DataStructures v0.19.3 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [31c24e10] + Distributions v0.25.122 [ffbed154] + DocStringExtensions v0.9.5 [460bff9d] + ExceptionUnwrapping v0.1.11 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.15.0 [53c48c17] + FixedPointNumbers v0.8.5 [de31a74c] + FunctionalCollections v0.5.0 [38e38edf] + GLM v1.9.0 [f67ccb44] + HDF5 v0.17.2 [cd3eb016] + HTTP v1.10.19 [9fb69e20] + Hiccup v0.2.2 [34004b35] + HypergeometricFunctions v0.3.28 [842dd82b] + InlineStrings v1.4.5 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.6 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 [97c1335a] + JSExpr v0.5.4 ⌅ [682c06a0] + JSON v0.21.4 [b964fa9f] + LaTeXStrings v1.4.0 [50d2b5c4] + Lazy v0.15.1 [2ab3a3ac] + LogExpFunctions v0.3.29 [e6f89c97] + LoggingExtras v1.2.0 [3da0fdf6] + MPIPreferences v0.1.11 [1914dd2f] + MacroTools v0.5.16 [4d4711f2] + MatrixMarket v0.5.2 [739be429] + MbedTLS v1.1.9 [e1d29d7a] + Missings v1.2.0 [ffc61752] + Mustache v1.0.21 [a975b10e] + Mux v1.0.2 [510215fc] + Observables v0.5.5 [975b03d1] + OnlinePCA v0.3.10 [4d8831e6] + OpenSSL v1.6.0 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.36 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.8.3 [fa939f87] + Pidfile v1.3.0 [a03496cd] + PlotlyBase v0.8.21 [f0f68f2c] + PlotlyJS v0.18.17 [f2990250] + PlotlyKaleido v2.3.0 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.3.3 [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 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [79098fc4] + Rmath v0.9.0 [91c51154] + SentinelArrays v1.4.8 [1277b4bf] + ShiftedArrays v2.0.0 [777ac1f9] + SimpleBufferStream v1.2.0 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.6.1 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.8 [4c63d2b9] + StatsFuns v1.5.2 [3eaba693] + StatsModels v0.7.7 [892a3eda] + StringManipulation v0.4.1 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [62fd8b95] + TensorCore v0.1.1 [b718987f] + TextWrap v1.0.2 [3bb67fe8] + TranscodingStreams v0.11.3 [5c2747f8] + URIs v1.6.1 [3a884ed6] + UnPack v1.0.2 [ea10d353] + WeakRefStrings v1.4.2 [0f1e0344] + WebIO v0.8.21 [104b5d7c] + WebSockets v1.6.0 [cc8bc4a8] + Widgets v0.6.7 [76eceee3] + WorkerUtilities v1.6.1 [0234f1f7] + HDF5_jll v1.14.6+0 [e33a78d0] + Hwloc_jll v2.12.2+0 [f7e6163d] + Kaleido_jll v0.2.1+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [7cb0a576] + MPICH_jll v4.3.2+0 [f1f71cc9] + MPItrampoline_jll v5.5.4+0 [c8ffd9c3] + MbedTLS_jll v2.28.10+0 [9237b28f] + MicrosoftMPI_jll v10.1.4+3 [fe0851c0] + OpenMPI_jll v5.0.8+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 ⌅ [02c8fc9c] + XML2_jll v2.13.9+0 [a65dc6b1] + Xorg_libpciaccess_jll v0.18.1+0 [477f73a3] + libaec_jll v1.1.4+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 v1.0.0 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.13.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.13.0 [de0858da] + Printf v1.11.0 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v1.0.0 [9e88b42a] + Serialization v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.13.0 [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 v8.16.0+0 [e37daf67] + LibGit2_jll v1.9.1+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 [efcefdf7] + PCRE2_jll v10.47.0+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.1+2 [3161d3a3] + Zstd_jll v1.5.7+1 [8e850b90] + libblastrampoline_jll v5.15.0+0 [8e850ede] + nghttp2_jll v1.68.0+1 [3f19e933] + p7zip_jll v17.7.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Building WebIO ───→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/0eef0765186f7452e52236fa42ca8c9b3c11c6e3/build.log` Building PlotlyJS → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/287e092914da6c91f002aafcf82a2ec065bf94a3/build.log` Installation completed after 89.9s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv. 4705.7 ms ✓ TestEnv 1 dependency successfully precompiled in 5 seconds. 27 already precompiled. 1 dependency had output during precompilation: ┌ TestEnv │ WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv. └ ┌ Error: Failed to use TestEnv.jl; test dependencies will not be precompiled │ exception = │ UndefVarError: `project_rel_path` not defined in `TestEnv` │ Suggestion: this global was defined as `Pkg.Operations.project_rel_path` but not assigned a value. │ Stacktrace: │ [1] get_test_dir(ctx::Pkg.Types.Context, pkgspec::PackageSpec) │ @ TestEnv ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:75 │ [2] test_dir_has_project_file │ @ ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:52 [inlined] │ [3] maybe_gen_project_override! │ @ ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:83 [inlined] │ [4] activate(pkg::String; allow_reresolve::Bool) │ @ TestEnv ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/activate_set.jl:12 │ [5] activate(pkg::String) │ @ TestEnv ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/activate_set.jl:9 │ [6] top-level scope │ @ /PkgEval.jl/scripts/precompile.jl:24 │ [7] include(mod::Module, _path::String) │ @ Base ./Base.jl:309 │ [8] exec_options(opts::Base.JLOptions) │ @ Base ./client.jl:344 │ [9] _start() │ @ Base ./client.jl:577 └ @ Main /PkgEval.jl/scripts/precompile.jl:26 Precompiling package dependencies... Precompiling packages... 4207.0 ms ✓ MacroTools 1764.8 ms ✓ InlineStrings 785.6 ms ✓ Reexport 876.5 ms ✓ TensorCore 1973.6 ms ✓ IrrationalConstants 774.9 ms ✓ DataValueInterfaces 798.8 ms ✓ StatsAPI 1032.6 ms ✓ Observables 1277.2 ms ✓ TranscodingStreams 890.4 ms ✓ TextWrap 887.3 ms ✓ LaTeXStrings 1149.4 ms ✓ Statistics 849.0 ms ✓ PtrArrays 821.1 ms ✓ SimpleBufferStream 866.5 ms ✓ DataAPI 1216.3 ms ✓ URIs 849.9 ms ✓ InvertedIndices 852.3 ms ✓ BitFlags 865.2 ms ✓ ShiftedArrays 993.0 ms ✓ WorkerUtilities 2403.0 ms ✓ FillArrays 792.8 ms ✓ UnPack 1270.1 ms ✓ OrderedCollections 1136.6 ms ✓ DocStringExtensions 751.6 ms ✓ IteratorInterfaceExtensions 2087.7 ms ✓ Crayons 983.8 ms ✓ DelimitedFiles 1199.3 ms ✓ Requires 2109.2 ms ✓ ConcurrentUtilities 1299.8 ms ✓ SuiteSparse 3133.7 ms ✓ SentinelArrays 1082.0 ms ✓ LoggingExtras 1796.1 ms ✓ ProgressMeter 1204.5 ms ✓ Compat 1165.3 ms ✓ Preferences 1023.1 ms ✓ Pidfile 1608.1 ms ✓ ExceptionUnwrapping 1331.3 ms ✓ FunctionalCollections 5733.9 ms ✓ Lazy 1366.9 ms ✓ Hiccup 1825.2 ms ✓ CodecZstd 955.2 ms ✓ CodecZlib 1816.7 ms ✓ ArgParse 1385.9 ms ✓ Statistics → SparseArraysExt 3921.4 ms ✓ FixedPointNumbers 939.2 ms ✓ AliasTables 992.6 ms ✓ Missings 998.4 ms ✓ PooledArrays 4094.4 ms ✓ OpenSSL 1553.4 ms ✓ FillArrays → FillArraysSparseArraysExt 935.7 ms ✓ FillArrays → FillArraysStatisticsExt 950.6 ms ✓ Parameters 3827.8 ms ✓ DataStructures 1605.4 ms ✓ LogExpFunctions 742.7 ms ✓ TableTraits 1767.6 ms ✓ PDMats 815.8 ms ✓ Compat → CompatLinearAlgebraExt 874.2 ms ✓ PrecompileTools 1222.3 ms ✓ JLLWrappers 1440.6 ms ✓ MPIPreferences 1350.9 ms ✓ MatrixMarket 2789.2 ms ✓ ColorTypes 1048.7 ms ✓ SortingAlgorithms 2303.0 ms ✓ QuadGK 1677.3 ms ✓ Tables 1427.3 ms ✓ FillArrays → FillArraysPDMatsExt 2201.9 ms ✓ FilePathsBase 3089.6 ms ✓ StringManipulation 17214.3 ms ✓ Parsers 1448.4 ms ✓ Kaleido_jll 1440.7 ms ✓ Rmath_jll 1233.0 ms ✓ MicrosoftMPI_jll 1398.6 ms ✓ OpenSpecFun_jll 1783.5 ms ✓ libaec_jll 1910.6 ms ✓ Xorg_libpciaccess_jll 1782.9 ms ✓ Libiconv_jll 1684.3 ms ✓ MbedTLS_jll 4733.8 ms ✓ MPItrampoline_jll 1354.2 ms ✓ ColorTypes → StyledStringsExt 8723.8 ms ✓ Colors 4091.8 ms ✓ ColorVectorSpace 4492.3 ms ✓ StatsBase 1259.4 ms ✓ Mustache 2655.6 ms ✓ FilePathsBase → FilePathsBaseTestExt 941.1 ms ✓ FilePathsBase → FilePathsBaseMmapExt 42170.1 ms ✓ PrettyTables 3948.5 ms ✓ JSON 916.2 ms ✓ InlineStrings → ParsersExt 1460.0 ms ✓ Rmath 5234.9 ms ✓ SpecialFunctions 1436.7 ms ✓ XML2_jll 2016.3 ms ✓ MbedTLS 1793.0 ms ✓ Widgets 9756.0 ms ✓ ColorSchemes 2061.8 ms ✓ PDMats → StatsBaseExt 98079.0 ms ✓ DataFrames 1293.9 ms ✓ PlotlyKaleido 976.2 ms ✓ AssetRegistry 2662.5 ms ✓ WeakRefStrings 2506.0 ms ✓ HypergeometricFunctions 1359.2 ms ✓ ColorVectorSpace → SpecialFunctionsExt 1411.1 ms ✓ Hwloc_jll 27560.7 ms ✓ HTTP 13575.1 ms ✓ PlotlyBase 29855.3 ms ✓ CSV 2617.1 ms ✓ StatsFuns 3984.7 ms ✓ MPICH_jll 3972.9 ms ✓ OpenMPI_jll WARNING: Imported binding Logging.termlength was undeclared at import time during import to WebSockets. WARNING: Imported binding Logging.showvalue was undeclared at import time during import to WebSockets. 4838.8 ms ✓ WebSockets 9067.7 ms ✓ Mux 17582.5 ms ✓ PlotlyBase → DataFramesExt 4928.4 ms ✓ StatsModels 8763.8 ms ✓ Distributions 5758.8 ms ✓ HDF5_jll 8349.7 ms ✓ WebIO 5466.3 ms ✓ GLM 4237.4 ms ✓ Distributions → DistributionsTestExt WARNING: Constructor for type "Plot" was extended in `DistributionsExt` without explicit qualification or import.  NOTE: Assumed "Plot" refers to `PlotlyBase.Plot`. This behavior is deprecated and may differ in future versions.  NOTE: This behavior may have differed in Julia versions prior to 1.12.  Hint: If you intended to create a new generic function of the same name, use `function Plot end`.  Hint: To silence the warning, qualify `Plot` as `PlotlyBase.Plot` in the method signature or explicitly `import PlotlyBase: Plot`. 8551.9 ms ✓ PlotlyBase → DistributionsExt 15161.7 ms ✓ HDF5 8876.4 ms ✓ JSExpr 12825.7 ms ✓ Blink 18035.2 ms ✓ PlotlyJS 14184.1 ms ✓ PlotlyJS → CSVExt 20623.8 ms ✓ PlotlyJS → DataFramesExt 19399.8 ms ✓ OnlinePCA 125 dependencies successfully precompiled in 611 seconds. 39 already precompiled. 2 dependencies had output during precompilation: ┌ WebSockets │ WARNING: Imported binding Logging.termlength was undeclared at import time during import to WebSockets. │ WARNING: Imported binding Logging.showvalue was undeclared at import time during import to WebSockets. └ ┌ PlotlyBase → DistributionsExt │ WARNING: Constructor for type "Plot" was extended in `DistributionsExt` without explicit qualification or import. │ NOTE: Assumed "Plot" refers to `PlotlyBase.Plot`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function Plot end`. │ Hint: To silence the warning, qualify `Plot` as `PlotlyBase.Plot` in the method signature or explicitly `import PlotlyBase: Plot`. └ Precompilation completed after 627.91s ################################################################################ # Testing # Testing OnlinePCA Test Could not use exact versions of packages in manifest, re-resolving. Note: if you do not check your manifest file into source control, then you can probably ignore this message. However, if you do check your manifest file into source control, then you probably want to pass the `allow_reresolve = false` kwarg when calling the `Pkg.test` function. Updating `/tmp/jl_BLfFA7/Project.toml` [31c24e10] ↑ Distributions v0.25.111 ⇒ v0.25.122 [1a297f60] ↑ FillArrays v1.12.0 ⇒ v1.15.0 [975b03d1] + OnlinePCA v0.3.10 [10745b16] ↑ Statistics v1.10.0 ⇒ v1.11.1 [37e2e46d] ~ LinearAlgebra ⇒ v1.13.0 [2f01184e] ↑ SparseArrays v1.10.0 ⇒ v1.13.0 [8dfed614] ~ Test ⇒ v1.11.0 Updating `/tmp/jl_BLfFA7/Manifest.toml` [bf4720bc] + AssetRegistry v0.1.0 [d1d4a3ce] + BitFlags v0.1.9 [ad839575] + Blink v0.12.9 [336ed68f] + CSV v0.10.15 [944b1d66] ↑ CodecZlib v0.7.6 ⇒ v0.7.8 [6b39b394] + CodecZstd v0.8.7 [35d6a980] + ColorSchemes v3.31.0 [3da002f7] + ColorTypes v0.12.1 [c3611d14] + ColorVectorSpace v0.11.0 [5ae59095] + Colors v0.13.1 [34da2185] ↑ Compat v4.16.0 ⇒ v4.18.1 [f0e56b4a] + ConcurrentUtilities v2.5.0 [a8cc5b0e] + Crayons v4.1.1 [a93c6f00] + DataFrames v1.8.1 [864edb3b] ↑ DataStructures v0.18.20 ⇒ v0.19.3 [e2d170a0] + DataValueInterfaces v1.0.0 [31c24e10] ↑ Distributions v0.25.111 ⇒ v0.25.122 [ffbed154] ↑ DocStringExtensions v0.9.3 ⇒ v0.9.5 [460bff9d] + ExceptionUnwrapping v0.1.11 [48062228] + FilePathsBase v0.9.24 [1a297f60] ↑ FillArrays v1.12.0 ⇒ v1.15.0 [53c48c17] + FixedPointNumbers v0.8.5 [de31a74c] + FunctionalCollections v0.5.0 [38e38edf] + GLM v1.9.0 [f67ccb44] + HDF5 v0.17.2 [cd3eb016] + HTTP v1.10.19 [9fb69e20] + Hiccup v0.2.2 [34004b35] ↑ HypergeometricFunctions v0.3.24 ⇒ v0.3.28 [842dd82b] + InlineStrings v1.4.5 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] ↑ IrrationalConstants v0.2.2 ⇒ v0.2.6 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] ↑ JLLWrappers v1.5.0 ⇒ v1.7.1 [97c1335a] + JSExpr v0.5.4 ⌅ [682c06a0] + JSON v0.21.4 [b964fa9f] + LaTeXStrings v1.4.0 [50d2b5c4] + Lazy v0.15.1 [2ab3a3ac] ↑ LogExpFunctions v0.3.28 ⇒ v0.3.29 [e6f89c97] + LoggingExtras v1.2.0 [3da0fdf6] + MPIPreferences v0.1.11 [1914dd2f] + MacroTools v0.5.16 [739be429] + MbedTLS v1.1.9 [ffc61752] + Mustache v1.0.21 [a975b10e] + Mux v1.0.2 [510215fc] + Observables v0.5.5 [975b03d1] + OnlinePCA v0.3.10 [4d8831e6] + OpenSSL v1.6.0 [bac558e1] ↑ OrderedCollections v1.6.3 ⇒ v1.8.1 [90014a1f] ↑ PDMats v0.11.31 ⇒ v0.11.36 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.8.3 [fa939f87] + Pidfile v1.3.0 [a03496cd] + PlotlyBase v0.8.21 [f0f68f2c] + PlotlyJS v0.18.17 [f2990250] + PlotlyKaleido v2.3.0 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] ↑ Preferences v1.4.3 ⇒ v1.5.0 [08abe8d2] + PrettyTables v3.1.0 [92933f4c] + ProgressMeter v1.11.0 [43287f4e] ↑ PtrArrays v1.2.0 ⇒ v1.3.0 [1fd47b50] ↑ QuadGK v2.10.1 ⇒ v2.11.2 [ae029012] + Requires v1.3.1 [79098fc4] ↑ Rmath v0.7.1 ⇒ v0.9.0 [91c51154] + SentinelArrays v1.4.8 [1277b4bf] + ShiftedArrays v2.0.0 [777ac1f9] + SimpleBufferStream v1.2.0 [a2af1166] ↑ SortingAlgorithms v1.2.1 ⇒ v1.2.2 [276daf66] ↑ SpecialFunctions v2.4.0 ⇒ v2.6.1 [10745b16] ↑ Statistics v1.10.0 ⇒ v1.11.1 [82ae8749] ↑ StatsAPI v1.7.0 ⇒ v1.7.1 [2913bbd2] ↑ StatsBase v0.34.3 ⇒ v0.34.8 [4c63d2b9] ↑ StatsFuns v1.3.1 ⇒ v1.5.2 [3eaba693] + StatsModels v0.7.7 [892a3eda] + StringManipulation v0.4.1 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [62fd8b95] + TensorCore v0.1.1 [3bb67fe8] ↑ TranscodingStreams v0.11.2 ⇒ v0.11.3 [5c2747f8] + URIs v1.6.1 [3a884ed6] + UnPack v1.0.2 [ea10d353] + WeakRefStrings v1.4.2 [0f1e0344] + WebIO v0.8.21 [104b5d7c] + WebSockets v1.6.0 [cc8bc4a8] + Widgets v0.6.7 [76eceee3] + WorkerUtilities v1.6.1 [0234f1f7] + HDF5_jll v1.14.6+0 [e33a78d0] + Hwloc_jll v2.12.2+0 [f7e6163d] + Kaleido_jll v0.2.1+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [7cb0a576] + MPICH_jll v4.3.2+0 [f1f71cc9] + MPItrampoline_jll v5.5.4+0 [c8ffd9c3] ↑ MbedTLS_jll v2.28.2+1 ⇒ v2.28.10+0 [9237b28f] + MicrosoftMPI_jll v10.1.4+3 [fe0851c0] + OpenMPI_jll v5.0.8+0 [efe28fd5] ↑ OpenSpecFun_jll v0.5.5+0 ⇒ v0.5.6+0 [f50d1b31] ↑ Rmath_jll v0.4.3+0 ⇒ v0.5.1+0 ⌅ [02c8fc9c] + XML2_jll v2.13.9+0 [a65dc6b1] + Xorg_libpciaccess_jll v0.18.1+0 [477f73a3] + libaec_jll v1.1.4+0 [0dad84c5] ↑ ArgTools v1.1.1 ⇒ 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 ⇒ 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 ⇒ v1.0.0 [76f85450] ~ LibGit2 ⇒ v1.11.0 [8f399da3] ~ Libdl ⇒ v1.11.0 [37e2e46d] ~ LinearAlgebra ⇒ v1.13.0 [56ddb016] ~ Logging ⇒ v1.11.0 [d6f4376e] ~ Markdown ⇒ v1.11.0 [a63ad114] ~ Mmap ⇒ v1.11.0 [ca575930] ↑ NetworkOptions v1.2.0 ⇒ v1.3.0 [44cfe95a] ↑ Pkg v1.10.0 ⇒ v1.13.0 [de0858da] ~ Printf ⇒ v1.11.0 [3fa0cd96] ~ REPL ⇒ v1.11.0 [9a3f8284] ~ Random ⇒ v1.11.0 [ea8e919c] ↑ SHA v0.7.0 ⇒ v1.0.0 [9e88b42a] ~ Serialization ⇒ v1.11.0 [6462fe0b] ~ Sockets ⇒ v1.11.0 [2f01184e] ↑ SparseArrays v1.10.0 ⇒ v1.13.0 [f489334b] + StyledStrings v1.11.0 [8dfed614] ~ Test ⇒ v1.11.0 [cf7118a7] ~ UUIDs ⇒ v1.11.0 [4ec0a83e] ~ Unicode ⇒ v1.11.0 [e66e0078] ↑ CompilerSupportLibraries_jll v1.1.1+0 ⇒ v1.3.0+1 [deac9b47] ↑ LibCURL_jll v8.4.0+0 ⇒ v8.16.0+0 [e37daf67] ↑ LibGit2_jll v1.6.4+0 ⇒ v1.9.1+0 [29816b5a] ↑ LibSSH2_jll v1.11.0+1 ⇒ v1.11.3+1 [14a3606d] ↑ MozillaCACerts_jll v2023.1.10 ⇒ v2025.11.4 [4536629a] ↑ OpenBLAS_jll v0.3.23+4 ⇒ v0.3.29+0 [05823500] ↑ OpenLibm_jll v0.8.1+2 ⇒ v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.4+0 [efcefdf7] + PCRE2_jll v10.47.0+0 [bea87d4a] ↑ SuiteSparse_jll v7.2.1+1 ⇒ v7.10.1+0 [83775a58] ↑ Zlib_jll v1.2.13+1 ⇒ v1.3.1+2 [3161d3a3] + Zstd_jll v1.5.7+1 [8e850b90] ↑ libblastrampoline_jll v5.8.0+1 ⇒ v5.15.0+0 [8e850ede] ↑ nghttp2_jll v1.52.0+1 ⇒ v1.68.0+1 [3f19e933] ↑ p7zip_jll v17.4.0+2 ⇒ v17.7.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Test Successfully re-resolved Status `/tmp/jl_BLfFA7/Project.toml` [c7e460c6] ArgParse v1.2.0 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.122 [1a297f60] FillArrays v1.15.0 [4d4711f2] MatrixMarket v0.5.2 [975b03d1] OnlinePCA v0.3.10 [10745b16] Statistics v1.11.1 [37e2e46d] LinearAlgebra v1.13.0 [2f01184e] SparseArrays v1.13.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_BLfFA7/Manifest.toml` [66dad0bd] AliasTables v1.1.3 [c7e460c6] ArgParse v1.2.0 [bf4720bc] AssetRegistry v0.1.0 [d1d4a3ce] BitFlags v0.1.9 [ad839575] Blink v0.12.9 [336ed68f] CSV v0.10.15 [944b1d66] CodecZlib v0.7.8 [6b39b394] CodecZstd v0.8.7 [35d6a980] ColorSchemes v3.31.0 [3da002f7] ColorTypes v0.12.1 [c3611d14] ColorVectorSpace v0.11.0 [5ae59095] Colors v0.13.1 [34da2185] Compat v4.18.1 [f0e56b4a] ConcurrentUtilities v2.5.0 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.8.1 [864edb3b] DataStructures v0.19.3 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.122 [ffbed154] DocStringExtensions v0.9.5 [460bff9d] ExceptionUnwrapping v0.1.11 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.15.0 [53c48c17] FixedPointNumbers v0.8.5 [de31a74c] FunctionalCollections v0.5.0 [38e38edf] GLM v1.9.0 [f67ccb44] HDF5 v0.17.2 [cd3eb016] HTTP v1.10.19 [9fb69e20] Hiccup v0.2.2 [34004b35] HypergeometricFunctions v0.3.28 [842dd82b] InlineStrings v1.4.5 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.6 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.1 [97c1335a] JSExpr v0.5.4 ⌅ [682c06a0] JSON v0.21.4 [b964fa9f] LaTeXStrings v1.4.0 [50d2b5c4] Lazy v0.15.1 [2ab3a3ac] LogExpFunctions v0.3.29 [e6f89c97] LoggingExtras v1.2.0 [3da0fdf6] MPIPreferences v0.1.11 [1914dd2f] MacroTools v0.5.16 [4d4711f2] MatrixMarket v0.5.2 [739be429] MbedTLS v1.1.9 [e1d29d7a] Missings v1.2.0 [ffc61752] Mustache v1.0.21 [a975b10e] Mux v1.0.2 [510215fc] Observables v0.5.5 [975b03d1] OnlinePCA v0.3.10 [4d8831e6] OpenSSL v1.6.0 [bac558e1] OrderedCollections v1.8.1 [90014a1f] PDMats v0.11.36 [d96e819e] Parameters v0.12.3 [69de0a69] Parsers v2.8.3 [fa939f87] Pidfile v1.3.0 [a03496cd] PlotlyBase v0.8.21 [f0f68f2c] PlotlyJS v0.18.17 [f2990250] PlotlyKaleido v2.3.0 [2dfb63ee] PooledArrays v1.4.3 [aea7be01] PrecompileTools v1.3.3 [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 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [79098fc4] Rmath v0.9.0 [91c51154] SentinelArrays v1.4.8 [1277b4bf] ShiftedArrays v2.0.0 [777ac1f9] SimpleBufferStream v1.2.0 [a2af1166] SortingAlgorithms v1.2.2 [276daf66] SpecialFunctions v2.6.1 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.1 [2913bbd2] StatsBase v0.34.8 [4c63d2b9] StatsFuns v1.5.2 [3eaba693] StatsModels v0.7.7 [892a3eda] StringManipulation v0.4.1 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [62fd8b95] TensorCore v0.1.1 [b718987f] TextWrap v1.0.2 [3bb67fe8] TranscodingStreams v0.11.3 [5c2747f8] URIs v1.6.1 [3a884ed6] UnPack v1.0.2 [ea10d353] WeakRefStrings v1.4.2 [0f1e0344] WebIO v0.8.21 [104b5d7c] WebSockets v1.6.0 [cc8bc4a8] Widgets v0.6.7 [76eceee3] WorkerUtilities v1.6.1 [0234f1f7] HDF5_jll v1.14.6+0 [e33a78d0] Hwloc_jll v2.12.2+0 [f7e6163d] Kaleido_jll v0.2.1+0 [94ce4f54] Libiconv_jll v1.18.0+0 [7cb0a576] MPICH_jll v4.3.2+0 [f1f71cc9] MPItrampoline_jll v5.5.4+0 [c8ffd9c3] MbedTLS_jll v2.28.10+0 [9237b28f] MicrosoftMPI_jll v10.1.4+3 [fe0851c0] OpenMPI_jll v5.0.8+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 ⌅ [02c8fc9c] XML2_jll v2.13.9+0 [a65dc6b1] Xorg_libpciaccess_jll v0.18.1+0 [477f73a3] libaec_jll v1.1.4+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 v1.0.0 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.13.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.3.0 [44cfe95a] Pkg v1.13.0 [de0858da] Printf v1.11.0 [3fa0cd96] REPL v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v1.0.0 [9e88b42a] Serialization v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.13.0 [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 v8.16.0+0 [e37daf67] LibGit2_jll v1.9.1+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 [efcefdf7] PCRE2_jll v10.47.0+0 [bea87d4a] SuiteSparse_jll v7.10.1+0 [83775a58] Zlib_jll v1.3.1+2 [3161d3a3] Zstd_jll v1.5.7+1 [8e850b90] libblastrampoline_jll v5.15.0+0 [8e850ede] nghttp2_jll v1.68.0+1 [3f19e933] p7zip_jll v17.7.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... /tmp/jl_Rz4BuV Running all tests... ####### Binarization of CSV (Julia API) ####### 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 ####### Binarization of CSV (Command line) ####### WARNING: Imported binding Logging.termlength was undeclared at import time during import to WebSockets. WARNING: Imported binding Logging.showvalue was undeclared at import time during import to WebSockets. WARNING: Constructor for type "Plot" was extended in `DistributionsExt` without explicit qualification or import.  NOTE: Assumed "Plot" refers to `PlotlyBase.Plot`. This behavior is deprecated and may differ in future versions.  NOTE: This behavior may have differed in Julia versions prior to 1.12.  Hint: If you intended to create a new generic function of the same name, use `function Plot end`.  Hint: To silence the warning, qualify `Plot` as `PlotlyBase.Plot` in the method signature or explicitly `import PlotlyBase: Plot`. 2 dependencies had output during precompilation: ┌ PlotlyBase → DistributionsExt │ WARNING: Constructor for type "Plot" was extended in `DistributionsExt` without explicit qualification or import. │ NOTE: Assumed "Plot" refers to `PlotlyBase.Plot`. This behavior is deprecated and may differ in future versions. │ NOTE: This behavior may have differed in Julia versions prior to 1.12. │ Hint: If you intended to create a new generic function of the same name, use `function Plot end`. │ Hint: To silence the warning, qualify `Plot` as `PlotlyBase.Plot` in the method signature or explicitly `import PlotlyBase: Plot`. └ ┌ WebSockets │ WARNING: Imported binding Logging.termlength was undeclared at import time during import to WebSockets. │ WARNING: Imported binding Logging.showvalue was undeclared at import time during import to WebSockets. └ Parsed args: binfile => /tmp/jl_Rz4BuV/Data.zst csvfile => /tmp/jl_Rz4BuV/Data.csv 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 ####### Binarization of MM (Julia API) ####### ####### Binarization of MM (Command line) ####### Parsed args: mmfile => /tmp/jl_Rz4BuV/Data.mtx binfile => /tmp/jl_Rz4BuV/Data.mtx.zst ####### Binarization of Binary COO (Julia API) ####### ####### Binarization of Binary COO (Command line) ####### Parsed args: bincoofile => /tmp/jl_Rz4BuV/Data.bincoo binfile => /tmp/jl_Rz4BuV/Data.bincoo.zst ####### Summarization (Julia API) ####### 1 / 2 : Column-wise statistics are calculated... 2 / 2 : Row-wise statistics are calculated... ####### Summarization (Command line) ####### Parsed args: binfile => /tmp/jl_Rz4BuV/Data.zst outdir => /tmp/jl_rP7lW4 pseudocount => 1.0 mode => dense 1 / 2 : Column-wise statistics are calculated... 2 / 2 : Row-wise statistics are calculated... ####### Summarization (Julia API) ####### 1 / 2 : Column-wise statistics are calculated... 2 / 2 : Row-wise statistics are calculated... ####### Summarization (Command line) ####### Parsed args: binfile => /tmp/jl_Rz4BuV/Data.mtx.zst outdir => /tmp/jl_5zd1h9 pseudocount => 1.0 mode => sparse_mm 1 / 2 : Column-wise statistics are calculated... 2 / 2 : Row-wise statistics are calculated... ####### HVG (Julia API) ####### Highly Variable Genes are calculated... ####### HVG (Command line) ####### Parsed args: rowvarlist => /tmp/jl_rP7lW4/Feature_Vars.csv binfile => /tmp/jl_Rz4BuV/Data.zst outdir => /tmp/jl_rP7lW4 rowcv2list => /tmp/jl_rP7lW4/Feature_CV2s.csv rowmeanlist => /tmp/jl_rP7lW4/Feature_Means.csv Highly Variable Genes are calculated... ####### Filtering (Julia API) ####### ####### Filtering (Command line) ####### Parsed args: input => /tmp/jl_Rz4BuV/Data.zst samplelist => /tmp/jl_rP7lW4/Sample_NoCounts.csv outdir => /tmp/jl_rP7lW4 thr2 => 10 direct1 => + direct2 => + featurelist => /tmp/jl_rP7lW4/Feature_Means.csv thr1 => 10 Parsed args: input => /tmp/jl_Rz4BuV/Data.zst samplelist => outdir => /tmp/jl_rP7lW4 thr2 => 10 direct1 => + direct2 => + featurelist => /tmp/jl_rP7lW4/Feature_Means.csv thr1 => 10 Parsed args: input => /tmp/jl_Rz4BuV/Data.zst samplelist => /tmp/jl_rP7lW4/Sample_NoCounts.csv outdir => /tmp/jl_rP7lW4 thr2 => 10 direct1 => + direct2 => + featurelist => thr1 => 10 ####### GD (Julia API) ####### ####### GD (Command line) ####### Parsed args: scale => "ftt" logdir => "/tmp/jl_rP7lW4" initW => nothing scheduling => "robbins-monro" epsilon => 1.0f-8 stepsize => "1.0e-15" dim => "3" lower => 0 rowvarlist => "" offsetStoch => 1.0f-6 expvar => 0.1f0 input => "/tmp/jl_Rz4BuV/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_rP7lW4/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_rP7lW4" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Parsed args: scale => "ftt" logdir => "/tmp/jl_rP7lW4" initW => "/tmp/jl_rP7lW4/Eigen_vectors.csv" scheduling => "momentum" epsilon => 1.0f-8 stepsize => "1.0e-15" dim => "3" lower => 0 rowvarlist => "" offsetStoch => 1.0f-6 expvar => 0.1f0 input => "/tmp/jl_Rz4BuV/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_rP7lW4/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_rP7lW4" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Parsed args: scale => "ftt" logdir => "/tmp/jl_rP7lW4" initW => nothing scheduling => "nag" epsilon => 1.0f-8 stepsize => "1.0e-15" dim => "3" lower => 0 rowvarlist => "" offsetStoch => 1.0f-6 expvar => 0.1f0 input => "/tmp/jl_Rz4BuV/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_rP7lW4/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_rP7lW4" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => "/tmp/jl_rP7lW4/Loadings.csv" Parsed args: scale => "ftt" logdir => "/tmp/jl_rP7lW4" initW => nothing scheduling => "adagrad" epsilon => 1.0f-8 stepsize => "1.0e-15" dim => "3" lower => 0 rowvarlist => "" offsetStoch => 1.0f-6 expvar => 0.1f0 input => "/tmp/jl_Rz4BuV/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_rP7lW4/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_rP7lW4" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing ####### Oja (Julia API) ####### Progress: 1%|▎ | ETA: 0:02:39 Progress: 1%|▍ | ETA: 0:02:57 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:02:45 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:02:55 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:01:34 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 ####### Oja (Command line) ####### Parsed args: scale => "ftt" logdir => "/tmp/jl_rP7lW4" initW => nothing scheduling => "robbins-monro" epsilon => 1.0f-8 stepsize => "1.0e-15" dim => "3" lower => 0 rowvarlist => "" offsetStoch => 1.0f-6 expvar => 0.1f0 input => "/tmp/jl_Rz4BuV/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_rP7lW4/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_rP7lW4" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:06:42 Progress: 1%|▌ | ETA: 0:03:55 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scale => "ftt" logdir => "/tmp/jl_rP7lW4" initW => nothing scheduling => "momentum" epsilon => 1.0f-8 stepsize => "1.0e-15" dim => "3" lower => 0 rowvarlist => "" offsetStoch => 1.0f-6 expvar => 0.1f0 input => "/tmp/jl_Rz4BuV/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_rP7lW4/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_rP7lW4" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:07:16 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scale => "ftt" logdir => "/tmp/jl_rP7lW4" initW => nothing scheduling => "nag" epsilon => 1.0f-8 stepsize => "1.0e-15" dim => "3" lower => 0 rowvarlist => "" offsetStoch => 1.0f-6 expvar => 0.1f0 input => "/tmp/jl_Rz4BuV/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_rP7lW4/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_rP7lW4" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:08:00 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scale => "ftt" logdir => "/tmp/jl_rP7lW4" initW => nothing scheduling => "adagrad" epsilon => 1.0f-8 stepsize => "1.0e-15" dim => "3" lower => 0 rowvarlist => "" offsetStoch => 1.0f-6 expvar => 0.1f0 input => "/tmp/jl_Rz4BuV/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_rP7lW4/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_rP7lW4" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:08:15 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 ####### SGD (Julia API) ####### Progress: 1%|▎ | ETA: 0:03:05 Progress: 1%|▍ | ETA: 0:03:51 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:04:17 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:04:34 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:03:15 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 ####### SGD (Command line) ####### Parsed args: scale => "ftt" logdir => "/tmp/jl_rP7lW4" initW => nothing scheduling => "robbins-monro" epsilon => 1.0f-8 stepsize => "1.0e-15" dim => "3" lower => 0 rowvarlist => "" offsetStoch => 1.0f-6 expvar => 0.1f0 input => "/tmp/jl_Rz4BuV/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" numbatch => 100 rowmeanlist => "/tmp/jl_rP7lW4/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_rP7lW4" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:06:47 Progress: 1%|▍ | ETA: 0:05:27 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scale => "ftt" logdir => "/tmp/jl_rP7lW4" initW => nothing scheduling => "momentum" epsilon => 1.0f-8 stepsize => "1.0e-15" dim => "3" lower => 0 rowvarlist => "" offsetStoch => 1.0f-6 expvar => 0.1f0 input => "/tmp/jl_Rz4BuV/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" numbatch => 100 rowmeanlist => "/tmp/jl_rP7lW4/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_rP7lW4" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:07:22 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scale => "ftt" logdir => "/tmp/jl_rP7lW4" initW => nothing scheduling => "nag" epsilon => 1.0f-8 stepsize => "1.0e-15" dim => "3" lower => 0 rowvarlist => "" offsetStoch => 1.0f-6 expvar => 0.1f0 input => "/tmp/jl_Rz4BuV/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" numbatch => 100 rowmeanlist => "/tmp/jl_rP7lW4/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_rP7lW4" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:08:49 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scale => "ftt" logdir => "/tmp/jl_rP7lW4" initW => nothing scheduling => "adagrad" epsilon => 1.0f-8 stepsize => "1.0e-15" dim => "3" lower => 0 rowvarlist => "" offsetStoch => 1.0f-6 expvar => 0.1f0 input => "/tmp/jl_Rz4BuV/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" numbatch => 100 rowmeanlist => "/tmp/jl_rP7lW4/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_rP7lW4" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:09:34 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 ####### CCIPCA (Julia API) ####### Progress: 1%|▎ | ETA: 0:02:07 Progress: 1%|▍ | ETA: 0:02:27 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 ####### CCIPCA (Command line) ####### Parsed args: scale => "ftt" logdir => "/tmp/jl_rP7lW4" initW => nothing lower => 0 stepsize => "1.0e-15" dim => "3" rowvarlist => "" offsetStoch => 1.0f-15 expvar => 0.1f0 input => "/tmp/jl_Rz4BuV/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_rP7lW4/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_rP7lW4" upper => 1.0f38 numepoch => "1" initV => nothing Progress: 1%|▎ | ETA: 0:08:58 Progress: 1%|▍ | ETA: 0:07:06 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile. --trace-compile is enabled during profile collection. ====================================================================================== cmd: /opt/julia/bin/julia 1783 running 1 of 1 signal (10): User defined signal 1 unknown function (ip: 0x79d8d42806fc) at /lib/x86_64-linux-gnu/libc.so.6 __libc_free at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) _ZN4llvm17PMTopLevelManager17findAnalysisUsageEPNS_4PassE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm17PMTopLevelManager12schedulePassEPNS_4PassE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm16TargetPassConfig7addPassEPNS_4PassE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN12_GLOBAL__N_113X86PassConfig11addIRPassesEv at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm16TargetPassConfig13addISelPassesEv at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZL23addPassesToGenerateCodeRN4llvm24CodeGenTargetMachineImplERNS_6legacy15PassManagerBaseEbRNS_28MachineModuleInfoWrapperPassE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm24CodeGenTargetMachineImpl17addPassesToEmitMCERNS_6legacy15PassManagerBaseERPNS_9MCContextERNS_17raw_pwrite_streamEb at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) operator() at /source/src/jitlayers.cpp:1625 addModule at /source/src/jitlayers.cpp:2119 jl_compile_codeinst_now at /source/src/jitlayers.cpp:682 jl_compile_codeinst_impl at /source/src/jitlayers.cpp:876 jl_compile_method_internal at /source/src/gf.c:3648 _jl_invoke at /source/src/gf.c:4108 [inlined] ijl_apply_generic at /source/src/gf.c:4313 open at ./io.jl:424 #writedlm#16 at /home/pkgeval/.julia/packages/DelimitedFiles/aGcsu/src/DelimitedFiles.jl:794 [inlined] writedlm at /home/pkgeval/.julia/packages/DelimitedFiles/aGcsu/src/DelimitedFiles.jl:793 [inlined] write_csv at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/src/Utils.jl:191 [inlined] outputlog at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/src/Utils.jl:1324 unknown function (ip: 0x79d8b734d8ca) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 #ccipca#64 at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/src/ccipca.jl:112 ccipca at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/src/ccipca.jl:42 unknown function (ip: 0x79d8b7327f27) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 main at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/bin/ccipca:96 unknown function (ip: 0x79d8b731204f) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2284 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:679 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 jl_toplevel_eval_flex at /source/src/toplevel.c:742 jl_eval_toplevel_stmts at /source/src/toplevel.c:585 jl_toplevel_eval_flex at /source/src/toplevel.c:683 ijl_toplevel_eval at /source/src/toplevel.c:754 ijl_toplevel_eval_in at /source/src/toplevel.c:799 eval at ./boot.jl:489 jfptr_eval_13268.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_invoke at /source/src/gf.c:4123 tojlinvoke93350.1 at /opt/julia/lib/julia/sys.so (unknown line) j_eval_59361.1 at /opt/julia/lib/julia/sys.so (unknown line) include_string at ./loading.jl:2997 _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 _include at ./loading.jl:3057 include at ./Base.jl:309 jfptr_include_15889.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_invoke at /source/src/gf.c:4123 tojlinvoke93365.1 at /opt/julia/lib/julia/sys.so (unknown line) j_include_59314.1 at /opt/julia/lib/julia/sys.so (unknown line) exec_options at ./client.jl:344 _start at ./client.jl:577 jfptr__start_59166.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2284 [inlined] true_main at /source/src/jlapi.c:971 jl_repl_entrypoint at /source/src/jlapi.c:1138 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x79d8d4211249) at /lib/x86_64-linux-gnu/libc.so.6 __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) at /workspace/srcdir/glibc-2.17/csu/../sysdeps/x86_64/start.S unknown function (ip: (nil)) at (unknown file) ============================================================== Profile collected. A report will print at the next yield point. Disabling --trace-compile ============================================================== ####### RSGD (Julia API) ####### ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile. --trace-compile is enabled during profile collection. ====================================================================================== cmd: /opt/julia/bin/julia 816 running 1 of 1 signal (10): User defined signal 1 _ZN4llvm16SelectionDAGISel16SelectCodeCommonEPNS_6SDNodeEPKhj at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN12_GLOBAL__N_115X86DAGToDAGISel6SelectEPN4llvm6SDNodeE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm16SelectionDAGISel22DoInstructionSelectionEv at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm16SelectionDAGISel17CodeGenAndEmitDAGEv at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm16SelectionDAGISel20SelectAllBasicBlocksERKNS_8FunctionE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm16SelectionDAGISel20runOnMachineFunctionERNS_15MachineFunctionE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm22SelectionDAGISelLegacy20runOnMachineFunctionERNS_15MachineFunctionE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm19MachineFunctionPass13runOnFunctionERNS_8FunctionE.part.0 at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm13FPPassManager13runOnFunctionERNS_8FunctionE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm13FPPassManager11runOnModuleERNS_6ModuleE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm6legacy15PassManagerImpl3runERNS_6ModuleE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) operator() at /source/src/jitlayers.cpp:1628 addModule at /source/src/jitlayers.cpp:2119 jl_compile_codeinst_now at /source/src/jitlayers.cpp:682 jl_compile_codeinst_impl at /source/src/jitlayers.cpp:876 jl_compile_method_internal at /source/src/gf.c:3648 _jl_invoke at /source/src/gf.c:4108 [inlined] ijl_apply_generic at /source/src/gf.c:4313 #rsgd##0 at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/src/rsgd.jl:100 #open#316 at ./io.jl:427 open at ./io.jl:424 [inlined] rsgd at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/src/rsgd.jl:86 unknown function (ip: 0x7adfa7fea26b) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 #rsgd#69 at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/src/rsgd.jl:63 rsgd at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/src/rsgd.jl:47 unknown function (ip: 0x7adfa7fe3545) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2284 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:679 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 jl_toplevel_eval_flex at /source/src/toplevel.c:742 jl_eval_toplevel_stmts at /source/src/toplevel.c:585 jl_toplevel_eval_flex at /source/src/toplevel.c:683 ijl_toplevel_eval at /source/src/toplevel.c:754 ijl_toplevel_eval_in at /source/src/toplevel.c:799 eval at ./boot.jl:489 include_string at ./loading.jl:2997 _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 _include at ./loading.jl:3057 include at ./Base.jl:310 IncludeInto at ./Base.jl:311 unknown function (ip: 0x7adfb6731cb2) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2284 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:679 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 jl_toplevel_eval_flex at /source/src/toplevel.c:742 jl_eval_toplevel_stmts at /source/src/toplevel.c:585 jl_toplevel_eval_flex at /source/src/toplevel.c:683 ijl_toplevel_eval at /source/src/toplevel.c:754 ijl_toplevel_eval_in at /source/src/toplevel.c:799 eval at ./boot.jl:489 jfptr_eval_13268.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_invoke at /source/src/gf.c:4123 tojlinvoke93350.1 at /opt/julia/lib/julia/sys.so (unknown line) j_eval_59361.1 at /opt/julia/lib/julia/sys.so (unknown line) include_string at ./loading.jl:2997 _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 _include at ./loading.jl:3057 _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_invoke at /source/src/gf.c:4123 tojlinvoke95257.1 at /opt/julia/lib/julia/sys.so (unknown line) include at ./Base.jl:310 IncludeInto at ./Base.jl:311 jfptr_IncludeInto_40956.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2284 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:679 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 jl_toplevel_eval_flex at /source/src/toplevel.c:742 jl_eval_toplevel_stmts at /source/src/toplevel.c:585 jl_toplevel_eval_flex at /source/src/toplevel.c:683 ijl_toplevel_eval at /source/src/toplevel.c:754 ijl_toplevel_eval_in at /source/src/toplevel.c:799 eval at ./boot.jl:489 jfptr_eval_13268.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_invoke at /source/src/gf.c:4123 tojlinvoke93366.1 at /opt/julia/lib/julia/sys.so (unknown line) j_eval_59302.1 at /opt/julia/lib/julia/sys.so (unknown line) exec_options at ./client.jl:310 _start at ./client.jl:577 jfptr__start_59166.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2284 [inlined] true_main at /source/src/jlapi.c:971 jl_repl_entrypoint at /source/src/jlapi.c:1138 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x7adfd35a7249) at /lib/x86_64-linux-gnu/libc.so.6 __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) at /workspace/srcdir/glibc-2.17/csu/../sysdeps/x86_64/start.S unknown function (ip: (nil)) at (unknown file) ============================================================== Profile collected. A report will print at the next yield point. Disabling --trace-compile ============================================================== ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile. --trace-compile is enabled during profile collection. ====================================================================================== cmd: /opt/julia/bin/julia 1 running 0 of 1 signal (10): User defined signal 1 epoll_pwait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv__io_poll at /workspace/srcdir/libuv/src/unix/linux.c:1404 uv_run at /workspace/srcdir/libuv/src/unix/core.c:430 ijl_task_get_next at /source/src/scheduler.c:457 wait at ./task.jl:1246 jfptr_wait_1663.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_invoke at /source/src/gf.c:4123 tojlinvoke92335.1 at /opt/julia/lib/julia/sys.so (unknown line) j_wait_71186.1 at /opt/julia/lib/julia/sys.so (unknown line) wait_forever at ./task.jl:1168 jfptr_wait_forever_71185.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2284 [inlined] start_task at /source/src/task.c:1272 unknown function (ip: (nil)) at (unknown file) ============================================================== Profile collected. A report will print at the next yield point. Disabling --trace-compile ============================================================== Progress: 1%|▎ | ETA: 0:16:34┌ Warning: There were no samples collected in one or more groups. │ This may be due to idle threads, or you may need to run your │ program longer (perhaps by running it multiple times), │ or adjust the delay between samples with `Profile.init()`. └ @ Profile /opt/julia/share/julia/stdlib/v1.14/Profile/src/Profile.jl:1361 Overhead ╎ [+additional indent] Count File:Line Function ========================================================= Thread 1 (default) Task 0x000070c3e4051870 Total snapshots: 277. Utilization: 0% ╎277 @Base/task.jl:1168 wait_forever() 276╎ 277 @Base/task.jl:1246 wait() ┌ Warning: There were no samples collected in one or more groups. │ This may be due to idle threads, or you may need to run your │ program longer (perhaps by running it multiple times), │ or adjust the delay between samples with `Profile.init()`. └ @ Profile /opt/julia/share/julia/stdlib/v1.14/Profile/src/Profile.jl:1361 Overhead ╎ [+additional indent] Count File:Line Function ========================================================= Thread 1 (default) Task 0x00007adfb93fc010 Total snapshots: 1. Utilization: 100% ╎1 @Base/client.jl:577 _start() ╎ 1 @Base/client.jl:310 exec_options(opts::Base.JLOptions) ╎ 1 @Base/boot.jl:489 eval(m::Module, e::Any) ╎ 1 @Base/Base.jl:311 (::Base.IncludeInto)(fname::String) ╎ 1 @Base/Base.jl:310 include(mapexpr::Function, mod::Module, _path::Strin… ╎ 1 @Base/loading.jl:3057 _include(mapexpr::Function, mod::Module, _path:… ╎ ╎ 1 @Base/loading.jl:2997 include_string(mapexpr::typeof(identity), mod:… ╎ ╎ 1 @Base/boot.jl:489 eval(m::Module, e::Any) ╎ ╎ 1 @Base/Base.jl:311 (::Base.IncludeInto)(fname::String) ╎ ╎ 1 @Base/Base.jl:310 include(mapexpr::Function, mod::Module, _path::… ╎ ╎ 1 @Base/loading.jl:3057 _include(mapexpr::Function, mod::Module, _… ╎ ╎ ╎ 1 @Base/loading.jl:2997 include_string(mapexpr::typeof(identity),… ╎ ╎ ╎ 1 @Base/boot.jl:489 eval(m::Module, e::Any) ╎ ╎ ╎ 1 @OnlinePCA/…/rsgd.jl:47 kwcall(::@NamedTuple{input::String, d… ╎ ╎ ╎ 1 @OnlinePCA/…/rsgd.jl:63 rsgd(; input::String, outdir::Nothin… ╎ ╎ ╎ 1 @OnlinePCA/…rsgd.jl:86 rsgd(input::String, outdir::Nothing,… ╎ ╎ ╎ ╎ 1 @Base/io.jl:424 open ╎ ╎ ╎ ╎ 1 @Base/io.jl:427 open(f::OnlinePCA.var"#rsgd##0#rsgd##1"{S… ╎ ╎ ╎ ╎ 1 @OnlinePCA/…sgd.jl:100 (::OnlinePCA.var"#rsgd##0#rsgd##1… Progress: 100%|█████████████████████████████████████████| Time: 0:00:24 [1] signal 15: Terminated in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 epoll_pwait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv__io_poll at /workspace/srcdir/libuv/src/unix/linux.c:1404 uv_run at /workspace/srcdir/libuv/src/unix/core.c:430 ijl_task_get_next at /source/src/scheduler.c:457 wait at ./task.jl:1246 jfptr_wait_1663.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_invoke at /source/src/gf.c:4123 tojlinvoke92335.1 at /opt/julia/lib/julia/sys.so (unknown line) j_wait_71186.1 at /opt/julia/lib/julia/sys.so (unknown line) wait_forever at ./task.jl:1168 jfptr_wait_forever_71185.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2284 [inlined] start_task at /source/src/task.c:1272 unknown function (ip: (nil)) at (unknown file) Allocations: 53771479 (Pool: 53770580; Big: 899); GC: 45 [816] signal 15: Terminated in expression starting at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/test/test_rsgd.jl:9 _ZNK4llvm10BasicBlock13getTerminatorEv at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm8childrenIPNS_10BasicBlockEEENS_14iterator_rangeINS_11GraphTraitsIT_E17ChildIteratorTypeEEERKNS6_7NodeRefE.isra.0 at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm14DomTreeBuilder11SemiNCAInfoINS_17DominatorTreeBaseINS_10BasicBlockELb0EEEE11getChildrenILb0EEENS_11SmallVectorIPS3_Lj8EEES8_PNS5_15BatchUpdateInfoE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm14DomTreeBuilder11SemiNCAInfoINS_17DominatorTreeBaseINS_10BasicBlockELb0EEEE20CalculateFromScratchERS4_PNS5_15BatchUpdateInfoE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN12_GLOBAL__N_18Verifier6verifyERKN4llvm8FunctionE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm14verifyFunctionERKNS_8FunctionEPNS_11raw_ostreamE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) verifyLLVMIR at /source/src/pipeline.cpp:897 runOnLoop at /source/src/llvm-julia-licm.cpp:356 run at /source/src/llvm-julia-licm.cpp:381 run at /source/usr/include/llvm/IR/PassManagerInternal.h:91 _ZN4llvm11PassManagerINS_4LoopENS_15AnalysisManagerIS1_JRNS_27LoopStandardAnalysisResultsEEEEJS4_RNS_10LPMUpdaterEEE13runSinglePassIS1_St10unique_ptrINS_6detail11PassConceptIS1_S5_JS4_S7_EEESt14default_deleteISD_EEEESt8optionalINS_17PreservedAnalysesEERT_RT0_RS5_S4_S7_RNS_19PassInstrumentationE.isra.0 at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm11PassManagerINS_4LoopENS_15AnalysisManagerIS1_JRNS_27LoopStandardAnalysisResultsEEEEJS4_RNS_10LPMUpdaterEEE24runWithoutLoopNestPassesERS1_RS5_S4_S7_ at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm11PassManagerINS_4LoopENS_15AnalysisManagerIS1_JRNS_27LoopStandardAnalysisResultsEEEEJS4_RNS_10LPMUpdaterEEE3runERS1_RS5_S4_S7_ at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) run at /source/usr/include/llvm/IR/PassManagerInternal.h:91 _ZN4llvm25FunctionToLoopPassAdaptor3runERNS_8FunctionERNS_15AnalysisManagerIS1_JEEE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) run at /source/usr/include/llvm/IR/PassManagerInternal.h:91 _ZN4llvm11PassManagerINS_8FunctionENS_15AnalysisManagerIS1_JEEEJEE3runERS1_RS3_ at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) run at /source/usr/include/llvm/IR/PassManagerInternal.h:91 _ZN4llvm27ModuleToFunctionPassAdaptor3runERNS_6ModuleERNS_15AnalysisManagerIS1_JEEE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) run at /source/usr/include/llvm/IR/PassManagerInternal.h:91 _ZN4llvm11PassManagerINS_6ModuleENS_15AnalysisManagerIS1_JEEEJEE3runERS1_RS3_ at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) run at /source/src/pipeline.cpp:787 operator() at /source/src/jitlayers.cpp:1513 withModuleDo<(anonymous namespace)::sizedOptimizerT::operator()(llvm::orc::ThreadSafeModule) [with long unsigned int N = 4]:: > at /source/usr/include/llvm/ExecutionEngine/Orc/ThreadSafeModule.h:136 [inlined] operator() at /source/src/jitlayers.cpp:1474 [inlined] operator() at /source/src/jitlayers.cpp:1649 [inlined] addModule at /source/src/jitlayers.cpp:2106 jl_compile_codeinst_now at /source/src/jitlayers.cpp:682 jl_compile_codeinst_impl at /source/src/jitlayers.cpp:876 jl_compile_method_internal at /source/src/gf.c:3648 _jl_invoke at /source/src/gf.c:4108 [inlined] ijl_apply_generic at /source/src/gf.c:4313 #rsgd##0 at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/src/rsgd.jl:100 #open#316 at ./io.jl:427 open at ./io.jl:424 [inlined] rsgd at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/src/rsgd.jl:86 unknown function (ip: 0x7adfa75085eb) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 #rsgd#69 at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/src/rsgd.jl:63 rsgd at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/src/rsgd.jl:47 unknown function (ip: 0x7adfa7fe3545) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2284 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:679 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 jl_toplevel_eval_flex at /source/src/toplevel.c:742 jl_eval_toplevel_stmts at /source/src/toplevel.c:585 jl_toplevel_eval_flex at /source/src/toplevel.c:683 ijl_toplevel_eval at /source/src/toplevel.c:754 ijl_toplevel_eval_in at /source/src/toplevel.c:799 eval at ./boot.jl:489 include_string at ./loading.jl:2997 _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 _include at ./loading.jl:3057 include at ./Base.jl:310 IncludeInto at ./Base.jl:311 unknown function (ip: 0x7adfb6731cb2) at (unknown file) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2284 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:679 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 jl_toplevel_eval_flex at /source/src/toplevel.c:742 jl_eval_toplevel_stmts at /source/src/toplevel.c:585 jl_toplevel_eval_flex at /source/src/toplevel.c:683 ijl_toplevel_eval at /source/src/toplevel.c:754 ijl_toplevel_eval_in at /source/src/toplevel.c:799 eval at ./boot.jl:489 jfptr_eval_13268.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_invoke at /source/src/gf.c:4123 tojlinvoke93350.1 at /opt/julia/lib/julia/sys.so (unknown line) j_eval_59361.1 at /opt/julia/lib/julia/sys.so (unknown line) include_string at ./loading.jl:2997 _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 _include at ./loading.jl:3057 _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_invoke at /source/src/gf.c:4123 tojlinvoke95257.1 at /opt/julia/lib/julia/sys.so (unknown line) include at ./Base.jl:310 IncludeInto at ./Base.jl:311 jfptr_IncludeInto_40956.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2284 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:679 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 jl_toplevel_eval_flex at /source/src/toplevel.c:742 jl_eval_toplevel_stmts at /source/src/toplevel.c:585 jl_toplevel_eval_flex at /source/src/toplevel.c:683 ijl_toplevel_eval at /source/src/toplevel.c:754 ijl_toplevel_eval_in at /source/src/toplevel.c:799 eval at ./boot.jl:489 jfptr_eval_13268.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_invoke at /source/src/gf.c:4123 tojlinvoke93366.1 at /opt/julia/lib/julia/sys.so (unknown line) j_eval_59302.1 at /opt/julia/lib/julia/sys.so (unknown line) exec_options at ./client.jl:310 _start at ./client.jl:577 jfptr__start_59166.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 jl_apply at /source/src/julia.h:2284 [inlined] true_main at /source/src/jlapi.c:971 jl_repl_entrypoint at /source/src/jlapi.c:1138 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x7adfd35a7249) at /lib/x86_64-linux-gnu/libc.so.6 __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) at /workspace/srcdir/glibc-2.17/csu/../sysdeps/x86_64/start.S unknown function (ip: (nil)) at (unknown file) Allocations: 80083550 (Pool: 80082644; Big: 906); GC: 45 PkgEval terminated after 2734.31s: test duration exceeded the time limit