Package evaluation to test OnlinePCA on Julia 1.14.0-DEV.73 (4c8bca6988*) started at 2025-11-17T00:12:00.724 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 10.3s ################################################################################ # Installation # Installing OnlinePCA... Resolving package versions... Installed Rmath_jll ─────────────────── v0.5.1+0 Installed CodecZstd ─────────────────── v0.8.7 Installed FilePathsBase ─────────────── v0.9.24 Installed URIs ──────────────────────── v1.6.1 Installed GLM ───────────────────────── v1.9.0 Installed MacroTools ────────────────── v0.5.16 Installed DataStructures ────────────── v0.19.3 Installed libaec_jll ────────────────── v1.1.4+0 Installed InlineStrings ─────────────── v1.4.5 Installed HypergeometricFunctions ───── v0.3.28 Installed FillArrays ────────────────── v1.15.0 Installed Mux ───────────────────────── v1.0.2 Installed StatsModels ───────────────── v0.7.7 Installed DelimitedFiles ────────────── v1.9.1 Installed MPICH_jll ─────────────────── v4.3.2+0 Installed ConcurrentUtilities ───────── v2.5.0 Installed CodecZlib ─────────────────── v0.7.8 Installed AliasTables ───────────────── v1.1.3 Installed OnlinePCA ─────────────────── v0.3.10 Installed StatsBase ─────────────────── v0.34.8 Installed Observables ───────────────── v0.5.5 Installed ExceptionUnwrapping ───────── v0.1.11 Installed ShiftedArrays ─────────────── v2.0.0 Installed MicrosoftMPI_jll ──────────── v10.1.4+3 Installed OrderedCollections ────────── v1.8.1 Installed Compat ────────────────────── v4.18.1 Installed Kaleido_jll ───────────────── v0.2.1+0 Installed TranscodingStreams ────────── v0.11.3 Installed IteratorInterfaceExtensions ─ v1.0.0 Installed TensorCore ────────────────── v0.1.1 Installed InvertedIndices ───────────── v1.3.1 Installed DataAPI ───────────────────── v1.16.0 Installed WebSockets ────────────────── v1.6.0 Installed Statistics ────────────────── v1.11.1 Installed FunctionalCollections ─────── v0.5.0 Installed PrecompileTools ───────────── v1.3.3 Installed Xorg_libpciaccess_jll ─────── v0.18.1+0 Installed StatsAPI ──────────────────── v1.7.1 Installed DataValueInterfaces ───────── v1.0.0 Installed Hiccup ────────────────────── v0.2.2 Installed ProgressMeter ─────────────── v1.11.0 Installed MbedTLS ───────────────────── v1.1.9 Installed Colors ────────────────────── v0.13.1 Installed SentinelArrays ────────────── v1.4.8 Installed OpenSSL ───────────────────── v1.6.0 Installed IrrationalConstants ───────── v0.2.6 Installed LoggingExtras ─────────────── v1.2.0 Installed TextWrap ──────────────────── v1.0.2 Installed AssetRegistry ─────────────── v0.1.0 Installed QuadGK ────────────────────── v2.11.2 Installed ColorTypes ────────────────── v0.12.1 Installed StringManipulation ────────── v0.4.1 Installed Widgets ───────────────────── v0.6.7 Installed ColorVectorSpace ──────────── v0.11.0 Installed Pidfile ───────────────────── v1.3.0 Installed Requires ──────────────────── v1.3.1 Installed HTTP ──────────────────────── v1.10.19 Installed OpenSpecFun_jll ───────────── v0.5.6+0 Installed HDF5_jll ──────────────────── v1.14.6+0 Installed LogExpFunctions ───────────── v0.3.29 Installed ArgParse ──────────────────── v1.2.0 Installed BitFlags ──────────────────── v0.1.9 Installed OpenMPI_jll ───────────────── v5.0.9+0 Installed Hwloc_jll ─────────────────── v2.12.2+0 Installed CSV ───────────────────────── v0.10.15 Installed Parsers ───────────────────── v2.8.3 Installed Rmath ─────────────────────── v0.9.0 Installed JSON ──────────────────────── v0.21.4 Installed PrettyTables ──────────────── v3.1.0 Installed Distributions ─────────────── v0.25.122 Installed Parameters ────────────────── v0.12.3 Installed PlotlyKaleido ─────────────── v2.3.0 Installed StatsFuns ─────────────────── v1.5.2 Installed Tables ────────────────────── v1.12.1 Installed MatrixMarket ──────────────── v0.5.2 Installed PtrArrays ─────────────────── v1.3.0 Installed XML2_jll ──────────────────── v2.13.9+0 Installed DataFrames ────────────────── v1.8.1 Installed WebIO ─────────────────────── v0.8.21 Installed Reexport ──────────────────── v1.2.2 Installed SpecialFunctions ──────────── v2.6.1 Installed SimpleBufferStream ────────── v1.2.0 Installed FixedPointNumbers ─────────── v0.8.5 Installed PlotlyBase ────────────────── v0.8.21 Installed Blink ─────────────────────── v0.12.9 Installed Preferences ───────────────── v1.5.0 Installed Missings ──────────────────── v1.2.0 Installed MPIPreferences ────────────── v0.1.11 Installed JSExpr ────────────────────── v0.5.4 Installed WeakRefStrings ────────────── v1.4.2 Installed JLLWrappers ───────────────── v1.7.1 Installed PooledArrays ──────────────── v1.4.3 Installed Libiconv_jll ──────────────── v1.18.0+0 Installed TableTraits ───────────────── v1.0.1 Installed LaTeXStrings ──────────────── v1.4.0 Installed MbedTLS_jll ───────────────── v2.28.10+0 Installed Mustache ──────────────────── v1.0.21 Installed Crayons ───────────────────── v4.1.1 Installed SortingAlgorithms ─────────── v1.2.2 Installed PDMats ────────────────────── v0.11.36 Installed HDF5 ──────────────────────── v0.17.2 Installed MPItrampoline_jll ─────────── v5.5.4+0 Installed Lazy ──────────────────────── v0.15.1 Installed UnPack ────────────────────── v1.0.2 Installed WorkerUtilities ───────────── v1.6.1 Installed DocStringExtensions ───────── v0.9.5 Installed PlotlyJS ──────────────────── v0.18.17 Installed ColorSchemes ──────────────── v3.31.0 Installing 17 artifacts Installed artifact mathjax 18.7 KiB Installed artifact libaec 49.6 KiB Installed artifact plotly-base-artifacts 430.0 KiB Installed artifact web 215.6 KiB Installed artifact plotly-artifacts 1.7 MiB Installed artifact plotly 2.3 MiB Installed artifact XML2 2.5 MiB Installed artifact Hwloc 3.5 MiB Installed artifact Rmath 121.9 KiB Installed artifact HDF5 5.7 MiB Installed artifact Xorg_libpciaccess 24.8 KiB Installed artifact Libiconv 1.9 MiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact MbedTLS 2.2 MiB Installed artifact MPICH 3.3 MiB Installed artifact Kaleido 75.3 MiB Installed artifact electronjs_app 79.1 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 v5.0.9+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 89.09s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv. 4416.9 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... 4365.8 ms ✓ MacroTools 1629.8 ms ✓ InlineStrings 739.3 ms ✓ Reexport 860.2 ms ✓ TensorCore 2035.9 ms ✓ IrrationalConstants 757.8 ms ✓ DataValueInterfaces 831.5 ms ✓ StatsAPI 1098.6 ms ✓ Observables 1269.7 ms ✓ TranscodingStreams 867.4 ms ✓ TextWrap 850.9 ms ✓ LaTeXStrings 1130.6 ms ✓ Statistics 799.7 ms ✓ PtrArrays 782.2 ms ✓ SimpleBufferStream 858.8 ms ✓ DataAPI 1197.4 ms ✓ URIs 837.6 ms ✓ InvertedIndices 889.3 ms ✓ BitFlags 878.2 ms ✓ ShiftedArrays 975.3 ms ✓ WorkerUtilities 2213.4 ms ✓ FillArrays 761.3 ms ✓ UnPack 1327.7 ms ✓ OrderedCollections 1072.9 ms ✓ DocStringExtensions 714.1 ms ✓ IteratorInterfaceExtensions 2003.4 ms ✓ Crayons 933.9 ms ✓ DelimitedFiles 1104.3 ms ✓ Requires 1791.5 ms ✓ ConcurrentUtilities 1219.3 ms ✓ SuiteSparse 2918.5 ms ✓ SentinelArrays 1063.9 ms ✓ LoggingExtras 1796.8 ms ✓ ProgressMeter 1147.2 ms ✓ Compat 1166.7 ms ✓ Preferences 1073.0 ms ✓ Pidfile 1626.6 ms ✓ ExceptionUnwrapping 1333.0 ms ✓ FunctionalCollections 5956.2 ms ✓ Lazy 1394.0 ms ✓ Hiccup 1794.8 ms ✓ CodecZstd 920.3 ms ✓ CodecZlib 1939.6 ms ✓ ArgParse 1377.8 ms ✓ Statistics → SparseArraysExt 4051.6 ms ✓ FixedPointNumbers 969.4 ms ✓ AliasTables 979.3 ms ✓ Missings 1022.3 ms ✓ PooledArrays 4197.3 ms ✓ OpenSSL 1549.1 ms ✓ FillArrays → FillArraysSparseArraysExt 978.1 ms ✓ FillArrays → FillArraysStatisticsExt 974.1 ms ✓ Parameters 3827.5 ms ✓ DataStructures 1715.4 ms ✓ LogExpFunctions 753.9 ms ✓ TableTraits 1877.8 ms ✓ PDMats 831.8 ms ✓ Compat → CompatLinearAlgebraExt 923.0 ms ✓ PrecompileTools 1136.4 ms ✓ JLLWrappers 1461.9 ms ✓ MPIPreferences 1297.0 ms ✓ MatrixMarket 2762.5 ms ✓ ColorTypes 1094.8 ms ✓ SortingAlgorithms 2340.0 ms ✓ QuadGK 1824.9 ms ✓ Tables 1427.3 ms ✓ FillArrays → FillArraysPDMatsExt 2115.6 ms ✓ FilePathsBase 3145.4 ms ✓ StringManipulation 17561.5 ms ✓ Parsers 1359.0 ms ✓ Kaleido_jll 1397.0 ms ✓ Rmath_jll 1125.5 ms ✓ MicrosoftMPI_jll 1405.1 ms ✓ OpenSpecFun_jll 1384.8 ms ✓ libaec_jll 1427.4 ms ✓ Xorg_libpciaccess_jll 1390.7 ms ✓ Libiconv_jll 1388.4 ms ✓ MbedTLS_jll 4597.4 ms ✓ MPItrampoline_jll 1227.0 ms ✓ ColorTypes → StyledStringsExt 8446.7 ms ✓ Colors 4052.0 ms ✓ ColorVectorSpace 4548.7 ms ✓ StatsBase 1276.3 ms ✓ Mustache 2600.4 ms ✓ FilePathsBase → FilePathsBaseTestExt 928.5 ms ✓ FilePathsBase → FilePathsBaseMmapExt 42483.9 ms ✓ PrettyTables 4240.3 ms ✓ JSON 947.2 ms ✓ InlineStrings → ParsersExt 1494.8 ms ✓ Rmath 5158.3 ms ✓ SpecialFunctions 1459.5 ms ✓ XML2_jll 2015.6 ms ✓ MbedTLS 1794.1 ms ✓ Widgets 9225.8 ms ✓ ColorSchemes 1724.6 ms ✓ PDMats → StatsBaseExt 93425.6 ms ✓ DataFrames 2184.8 ms ✓ PlotlyKaleido 1251.3 ms ✓ AssetRegistry 2545.0 ms ✓ WeakRefStrings 2448.7 ms ✓ HypergeometricFunctions 1298.9 ms ✓ ColorVectorSpace → SpecialFunctionsExt 1388.3 ms ✓ Hwloc_jll 25739.1 ms ✓ HTTP 13186.2 ms ✓ PlotlyBase 30924.1 ms ✓ CSV 2842.1 ms ✓ StatsFuns 5427.7 ms ✓ MPICH_jll 4563.2 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. 4749.4 ms ✓ WebSockets 9263.5 ms ✓ Mux 17490.9 ms ✓ PlotlyBase → DataFramesExt 5086.7 ms ✓ StatsModels 9396.8 ms ✓ Distributions 5479.7 ms ✓ HDF5_jll 8578.9 ms ✓ WebIO 5238.7 ms ✓ GLM 3512.7 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`. 8383.9 ms ✓ PlotlyBase → DistributionsExt 14689.6 ms ✓ HDF5 8213.2 ms ✓ JSExpr 11961.5 ms ✓ Blink 17575.3 ms ✓ PlotlyJS 12828.3 ms ✓ PlotlyJS → CSVExt 21152.2 ms ✓ PlotlyJS → DataFramesExt 19420.2 ms ✓ OnlinePCA 125 dependencies successfully precompiled in 603 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 616.84s ################################################################################ # 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_FzMvdV/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_FzMvdV/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 v5.0.9+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_FzMvdV/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_FzMvdV/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 v5.0.9+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_g3rYFu 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_g3rYFu/Data.zst csvfile => /tmp/jl_g3rYFu/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_g3rYFu/Data.mtx binfile => /tmp/jl_g3rYFu/Data.mtx.zst ####### Binarization of Binary COO (Julia API) ####### ####### Binarization of Binary COO (Command line) ####### Parsed args: bincoofile => /tmp/jl_g3rYFu/Data.bincoo binfile => /tmp/jl_g3rYFu/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_g3rYFu/Data.zst outdir => /tmp/jl_NmgYE7 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_g3rYFu/Data.mtx.zst outdir => /tmp/jl_BoItpW 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_NmgYE7/Feature_Vars.csv binfile => /tmp/jl_g3rYFu/Data.zst outdir => /tmp/jl_NmgYE7 rowcv2list => /tmp/jl_NmgYE7/Feature_CV2s.csv rowmeanlist => /tmp/jl_NmgYE7/Feature_Means.csv Highly Variable Genes are calculated... ####### Filtering (Julia API) ####### ####### Filtering (Command line) ####### Parsed args: input => /tmp/jl_g3rYFu/Data.zst samplelist => /tmp/jl_NmgYE7/Sample_NoCounts.csv outdir => /tmp/jl_NmgYE7 thr2 => 10 direct1 => + direct2 => + featurelist => /tmp/jl_NmgYE7/Feature_Means.csv thr1 => 10 Parsed args: input => /tmp/jl_g3rYFu/Data.zst samplelist => outdir => /tmp/jl_NmgYE7 thr2 => 10 direct1 => + direct2 => + featurelist => /tmp/jl_NmgYE7/Feature_Means.csv thr1 => 10 Parsed args: input => /tmp/jl_g3rYFu/Data.zst samplelist => /tmp/jl_NmgYE7/Sample_NoCounts.csv outdir => /tmp/jl_NmgYE7 thr2 => 10 direct1 => + direct2 => + featurelist => thr1 => 10 ####### GD (Julia API) ####### ####### GD (Command line) ####### Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" 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_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" initW => "/tmp/jl_NmgYE7/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_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" 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_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => "/tmp/jl_NmgYE7/Loadings.csv" Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" 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_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing ####### Oja (Julia API) ####### Progress: 1%|▎ | ETA: 0:02:26 Progress: 1%|▍ | ETA: 0:02:41 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:02:07 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 Progress: 1%|▎ | ETA: 0:02:22 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 Progress: 1%|▎ | ETA: 0:01:18 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 ####### Oja (Command line) ####### Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" 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_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:06:23 Progress: 1%|▌ | ETA: 0:03:48 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" 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_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:07:12 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" 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_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:08:28 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" 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_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:08:16 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 ####### SGD (Julia API) ####### Progress: 1%|▎ | ETA: 0:03:08 Progress: 1%|▍ | ETA: 0:03:58 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:04:17 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:04:44 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:03:24 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 ####### SGD (Command line) ####### Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" 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_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" numbatch => 100 rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:07:01 Progress: 1%|▍ | ETA: 0:05:40 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" 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_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" numbatch => 100 rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:07:54 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" 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_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" numbatch => 100 rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:08:23 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" 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_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" numbatch => 100 rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:09:11 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 ####### CCIPCA (Julia API) ####### Progress: 1%|▎ | ETA: 0:02:08 Progress: 1%|▍ | ETA: 0:02:31 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 ####### CCIPCA (Command line) ####### Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" initW => nothing lower => 0 stepsize => "1.0e-15" dim => "3" rowvarlist => "" offsetStoch => 1.0f-15 expvar => 0.1f0 input => "/tmp/jl_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" upper => 1.0f38 numepoch => "1" initV => nothing Progress: 1%|▎ | ETA: 0:08:50 Progress: 1%|▍ | ETA: 0:06:59 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 ####### RSGD (Julia API) ####### Progress: 1%|▎ | ETA: 0:13:58 Progress: 1%|▍ | ETA: 0:11:10 Progress: 34%|██████████████▏ | ETA: 0:00:14 Progress: 100%|█████████████████████████████████████████| Time: 0:00:07 Progress: 1%|▎ | ETA: 0:04:04 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:05:44 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:03:17 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 ####### RSGD (Command line) ####### Parsed args: scale => "ftt" logdir => "/tmp/jl_NmgYE7" 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_g3rYFu/Data.zst" perm => false pseudocount => 1.0f0 colsumlist => "" numbatch => 100 rowmeanlist => "/tmp/jl_NmgYE7/Feature_FTTMeans.csv" evalfreq => 5000 cper => 1.0f0 outdir => "/tmp/jl_NmgYE7" g => 0.9f0 upper => 1.0f38 numepoch => "1" offsetFull => 1.0f-20 initV => nothing Progress: 1%|▎ | ETA: 0:11:43 Progress: 1%|▍ | ETA: 0:08:42 Progress: 34%|█████████████▊ | ETA: 0:00:11 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 ====================================================================================== 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 1791 running 1 of 1 signal (10): User defined signal 1 obvious_subtype at /source/src/subtype.c:1969 obvious_subtype at /source/src/subtype.c:2156 obvious_subtype at /source/src/subtype.c:1939 [inlined] obvious_subtype at /source/src/subtype.c:1945 ijl_subtype_env at /source/src/subtype.c:2270 intersect at /source/src/subtype.c:4151 intersect_tuple at /source/src/subtype.c:3695 intersect at /source/src/subtype.c:4216 intersect_all at /source/src/subtype.c:4358 jl_type_intersection_env_s at /source/src/subtype.c:4606 jl_typemap_intersection_node_visitor at /source/src/typemap.c:543 jl_typemap_intersection_visitor at /source/src/typemap.c:810 jl_typemap_intersection_memory_visitor at /source/src/typemap.c:500 jl_typemap_intersection_visitor at /source/src/typemap.c:701 ml_matches at /source/src/gf.c:4966 ml_matches at /source/src/gf.c:4847 [inlined] ijl_matching_methods at /source/src/gf.c:3234 [inlined] ijl_matching_methods at /source/src/gf.c:3221 _methods_by_ftype at ./runtime_internals.jl:1603 [inlined] verify_call at ./../usr/share/julia/Compiler/src/reinfer.jl:574 verify_method at ./../usr/share/julia/Compiler/src/reinfer.jl:237 verify_method_graph at ./../usr/share/julia/Compiler/src/reinfer.jl:101 scan_new_code! at ./../usr/share/julia/Compiler/src/reinfer.jl:87 jfptr_scan_new_codeNOT._86401.1 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 tojlinvoke89565.1 at /opt/julia/lib/julia/sys.so (unknown line) j_scan_new_codeNOT._89343.1 at /opt/julia/lib/julia/sys.so (unknown line) insert_backedges at ./../usr/share/julia/Compiler/src/reinfer.jl:77 jfptr_insert_backedges_89341.1 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] ijl_call_in_typeinf_world at /source/src/gf.c:556 insert_backedges_typeinf at ./../usr/share/julia/Compiler/src/reinfer.jl:657 [inlined] #_include_from_serialized#879 at ./loading.jl:1332 _include_from_serialized at ./loading.jl:1291 [inlined] #_require_search_from_serialized#896 at ./loading.jl:2153 _require_search_from_serialized at ./loading.jl:2060 [inlined] __require_prelocked at ./loading.jl:2710 _require_prelocked at ./loading.jl:2576 macro expansion at ./loading.jl:2504 [inlined] macro expansion at ./lock.jl:376 [inlined] __require at ./loading.jl:2468 jfptr___require_22584.1 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] jl_f_invoke_in_world at /source/src/builtins.c:908 require at ./loading.jl:2444 [inlined] eval_import_path at ./module.jl:36 [inlined] eval_import_path_all at ./module.jl:60 _eval_using at ./module.jl:137 [inlined] _eval_using at ./module.jl:137 jfptr__eval_using_79068.1 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_16453.1 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 tojlinvoke93356.1 at /opt/julia/lib/julia/sys.so (unknown line) j_eval_58025.1 at /opt/julia/lib/julia/sys.so (unknown line) include_string at ./loading.jl:2994 _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 _include at ./loading.jl:3054 include at ./Base.jl:309 jfptr_include_13857.1 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 tojlinvoke93368.1 at /opt/julia/lib/julia/sys.so (unknown line) j_include_57975.1 at /opt/julia/lib/julia/sys.so (unknown line) exec_options at ./client.jl:344 jfptr_exec_options_57947.1 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 tojlinvoke91488.1 at /opt/julia/lib/julia/sys.so (unknown line) j_exec_options_77849.1 at /opt/julia/lib/julia/sys.so (unknown line) _start at ./client.jl:577 jfptr__start_77846.1 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: 0x7a6d6d4ce249) 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 816 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_3358.1 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 tojlinvoke93391.1 at /opt/julia/lib/julia/sys.so (unknown line) j_wait_57872.1 at /opt/julia/lib/julia/sys.so (unknown line) wait_forever at ./task.jl:1168 jfptr_wait_forever_57871.1 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 ============================================================== ====================================================================================== 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_3358.1 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 tojlinvoke93391.1 at /opt/julia/lib/julia/sys.so (unknown line) j_wait_57872.1 at /opt/julia/lib/julia/sys.so (unknown line) wait_forever at ./task.jl:1168 jfptr_wait_forever_57871.1 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 ============================================================== ┌ 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 0x000078f4f2ab4010 Total snapshots: 22. Utilization: 0% ╎22 @Base/task.jl:1168 wait_forever() 21╎ 22 @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 0x00007a6d531fc010 Total snapshots: 209. Utilization: 100% ╎209 @Base/client.jl:577 _start() ╎ 209 @Base/client.jl:344 exec_options(opts::Base.JLOptions) ╎ 209 @Base/Base.jl:309 include(mod::Module, _path::String) ╎ 209 @Base/loading.jl:3054 _include(mapexpr::Function, mod::Module, _pat… ╎ 209 @Base/loading.jl:2994 include_string(mapexpr::typeof(identity), mo… ╎ 209 @Base/boot.jl:489 eval(m::Module, e::Any) ╎ ╎ 209 @Base/module.jl:137 _eval_using(to::Module, path::Expr) ╎ ╎ 209 @Base/module.jl:137 _eval_using ╎ ╎ 209 @Base/module.jl:60 eval_import_path_all(at::Module, path::Expr… ╎ ╎ 209 @Base/module.jl:36 eval_import_path ╎ ╎ 209 @Base/loading.jl:2444 require ╎ ╎ ╎ 209 @Base/loading.jl:2468 __require(into::Module, mod::Symbol) ╎ ╎ ╎ 209 @Base/lock.jl:376 macro expansion ╎ ╎ ╎ 209 @Base/loading.jl:2504 macro expansion ╎ ╎ ╎ 209 @Base/loading.jl:2576 _require_prelocked(uuidkey::Base.P… ╎ ╎ ╎ 209 @Base/loading.jl:2710 __require_prelocked(pkg::Base.Pkg… ╎ ╎ ╎ ╎ 209 @Base/loading.jl:2060 _require_search_from_serialized ╎ ╎ ╎ ╎ 209 @Base/loading.jl:2153 _require_search_from_serialized… ╎ ╎ ╎ ╎ 209 @Base/loading.jl:1291 _include_from_serialized ╎ ╎ ╎ ╎ 209 @Base/…ading.jl:1332 _include_from_serialized(pkg::… ╎ ╎ ╎ ╎ 209 @Compiler/…r.jl:657 insert_backedges_typeinf ╎ ╎ ╎ ╎ ╎ 209 @Compiler/…r.jl:77 insert_backedges(internal_meth… ╎ ╎ ╎ ╎ ╎ 207 @Compiler/…r.jl:87 scan_new_code!(internal_metho… ╎ ╎ ╎ ╎ ╎ 207 @Compiler/….jl:101 verify_method_graph(codeinst… ╎ ╎ ╎ ╎ ╎ 1 @Compiler/….jl:197 verify_method(codeinst::Cor… 1╎ ╎ ╎ ╎ ╎ 1 @Base/…dict.jl:86 setindex! ╎ ╎ ╎ ╎ ╎ 3 @Compiler/….jl:226 verify_method(codeinst::Cor… 3╎ ╎ ╎ ╎ ╎ 3 @Base/…als.jl:1622 get_ci_mi ╎ ╎ ╎ ╎ ╎ 169 @Compiler/….jl:231 verify_method(codeinst::Cor… ╎ ╎ ╎ ╎ ╎ 1 @Compiler/…jl:473 verify_call(sig::Any, expec… 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Compiler/…jl:400 get_method_from_edge ╎ ╎ ╎ ╎ ╎ 167 @Compiler/…jl:574 verify_call(sig::Any, expec… 166╎ ╎ ╎ ╎ ╎ ╎ 167 @Base/…ls.jl:1603 _methods_by_ftype ╎ ╎ ╎ ╎ ╎ 1 @Compiler/…jl:588 verify_call(sig::Any, expec… 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…als.jl:980 getindex ╎ ╎ ╎ ╎ ╎ 13 @Compiler/….jl:237 verify_method(codeinst::Cor… ╎ ╎ ╎ ╎ ╎ 6 @Compiler/…jl:539 verify_call(sig::Any, expec… 6╎ ╎ ╎ ╎ ╎ ╎ 6 @Base/…ls.jl:1143 typeintersect ╎ ╎ ╎ ╎ ╎ 7 @Compiler/…jl:574 verify_call(sig::Any, expec… 7╎ ╎ ╎ ╎ ╎ ╎ 7 @Base/…ls.jl:1603 _methods_by_ftype ╎ ╎ ╎ ╎ ╎ 1 @Compiler/….jl:277 verify_method(codeinst::Cor… ╎ ╎ ╎ ╎ ╎ 1 @Base/…alue.jl:59 getindex 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…ler.jl:57 getproperty 1╎ ╎ ╎ ╎ ╎ 1 @Compiler/….jl:295 verify_method(codeinst::Cor… ╎ ╎ ╎ ╎ ╎ 1 @Compiler/….jl:296 verify_method(codeinst::Cor… 1╎ ╎ ╎ ╎ ╎ 1 @Base/…als.jl:980 getindex ╎ ╎ ╎ ╎ ╎ 2 @Compiler/….jl:302 verify_method(codeinst::Cor… ╎ ╎ ╎ ╎ ╎ 1 @Compiler/….jl:55 VerifyMethodInitialState 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…ls.jl:1622 get_ci_mi 1╎ ╎ ╎ ╎ ╎ 1 @Compiler/….jl:57 VerifyMethodInitialState ╎ ╎ ╎ ╎ ╎ 1 @Compiler/….jl:303 verify_method(codeinst::Cor… ╎ ╎ ╎ ╎ ╎ 1 @Base/…ray.jl:1345 push! ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…ay.jl:1348 _push! ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…ay.jl:1200 _growend! ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…ls.jl:11 length 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…ls.jl:10 size 1╎ ╎ ╎ ╎ ╎ 13 @Compiler/….jl:333 verify_method(codeinst::Cor… ╎ ╎ ╎ ╎ ╎ 2 @Compiler/…jl:799 store_backedges(caller::Cor… ╎ ╎ ╎ ╎ ╎ ╎ 2 @Base/…ors.jl:197 iterate 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Compiler/…l:0 iterate 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Compiler/…l:746 iterate 4╎ ╎ ╎ ╎ ╎ 4 @Compiler/…jl:805 store_backedges(caller::Cor… 4╎ ╎ ╎ ╎ ╎ 4 @Compiler/…jl:808 store_backedges(caller::Cor… ╎ ╎ ╎ ╎ ╎ 2 @Compiler/…jl:811 store_backedges(caller::Cor… ╎ ╎ ╎ ╎ ╎ ╎ 2 @Base/…ors.jl:197 iterate 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Compiler/…l:743 iterate 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Compiler/…l:746 iterate ╎ ╎ ╎ ╎ ╎ 2 @Compiler/….jl:336 verify_method(codeinst::Cor… ╎ ╎ ╎ ╎ ╎ 2 @Base/…ict.jl:121 delete! 2╎ ╎ ╎ ╎ ╎ ╎ 2 @Base/…ict.jl:104 pop! 2╎ ╎ ╎ ╎ ╎ 2 @Compiler/…r.jl:91 scan_new_code!(internal_metho… [816] signal 15: Terminated in expression starting at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/test/test_rsgd.jl:67 _ZNK4llvm7GVNPass9LeaderMap13verifyRemovedEPKNS_5ValueE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm7GVNPass17removeInstructionEPNS_11InstructionE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) [1791] signal 15: Terminated in expression starting at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/bin/rsgd:138 _ZN4llvm13PMDataManager22initializeAnalysisImplEPNS_4PassE 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:1623 addModule at /source/src/jitlayers.cpp:2114 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 #any#754 at ./reducedim.jl:993 any at ./reducedim.jl:993 unknown function (ip: 0x7a6d505445d4) 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_fptr_interpret_call at /source/src/interpreter.c:802 _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 eval_body at /source/src/interpreter.c:558 eval_body at /source/src/interpreter.c:558 jl_fptr_interpret_call at /source/src/interpreter.c:802 _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_fptr_interpret_call at /source/src/interpreter.c:802 _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_body at /source/src/interpreter.c:581 eval_body at /source/src/interpreter.c:558 jl_fptr_interpret_call at /source/src/interpreter.c:802 _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_fptr_interpret_call at /source/src/interpreter.c:802 _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_fptr_interpret_call at /source/src/interpreter.c:802 _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_fptr_interpret_call at /source/src/interpreter.c:802 _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_invoke at /source/src/gf.c:4123 parse_commandline at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/src/Utils.jl:809 main at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/bin/rsgd:8 unknown function (ip: 0x7a6d5051068f) 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_16453.1 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 tojlinvoke93356.1 at /opt/julia/lib/julia/sys.so (unknown line) j_eval_58025.1 at /opt/julia/lib/julia/sys.so (unknown line) include_string at ./loading.jl:2994 _jl_invoke at /source/src/gf.c:4116 [inlined] ijl_apply_generic at /source/src/gf.c:4313 _include at ./loading.jl:3054 include at ./Base.jl:309 jfptr_include_13857.1 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 tojlinvoke93368.1 at /opt/julia/lib/julia/sys.so (unknown line) j_include_57975.1 at /opt/julia/lib/julia/sys.so (unknown line) exec_options at ./client.jl:344 jfptr_exec_options_57947.1 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 tojlinvoke91488.1 at /opt/julia/lib/julia/sys.so (unknown line) j_exec_options_77849.1 at /opt/julia/lib/julia/sys.so (unknown line) _start at ./client.jl:577 jfptr__start_77846.1 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: 0x7a6d6d4ce249) 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: 19313040 (Pool: 19312772; Big: 268); GC: 10 _ZN4llvm7GVNPass12processBlockEPNS_10BasicBlockE.part.0 at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm7GVNPass17iterateOnFunctionERNS_8FunctionE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm7GVNPass7runImplERNS_8FunctionERNS_15AssumptionCacheERNS_13DominatorTreeERKNS_17TargetLibraryInfoERNS_9AAResultsEPNS_23MemoryDependenceResultsERNS_8LoopInfoEPNS_25OptimizationRemarkEmitterEPNS_9MemorySSAE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm7GVNPass3runERNS_8FunctionERNS_15AnalysisManagerIS1_JEEE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) PkgEval terminated after 2737.62s: test duration exceeded the time limit