Package evaluation of OnlinePCA on Julia 1.13.0-DEV.774 (40c6d1b7c1*) started at 2025-06-24T21:01:18.526 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.56s ################################################################################ # Installation # Installing OnlinePCA... Resolving package versions... Updating `~/.julia/environments/v1.13/Project.toml` [975b03d1] + OnlinePCA v0.3.9 Updating `~/.julia/environments/v1.13/Manifest.toml` [66dad0bd] + AliasTables v1.1.3 [c7e460c6] + ArgParse v1.2.0 [944b1d66] + CodecZlib v0.7.8 [6b39b394] + CodecZstd v0.8.6 [34da2185] + Compat v4.16.0 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.7.0 [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [31c24e10] + Distributions v0.25.120 [ffbed154] + DocStringExtensions v0.9.5 [1a297f60] + FillArrays v1.13.0 [38e38edf] + GLM v1.9.0 [f67ccb44] + HDF5 v0.17.2 [34004b35] + HypergeometricFunctions v0.3.28 [842dd82b] + InlineStrings v1.4.4 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.0 [b964fa9f] + LaTeXStrings v1.4.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [3da0fdf6] + MPIPreferences v0.1.11 [4d4711f2] + MatrixMarket v0.5.2 [e1d29d7a] + Missings v1.2.0 [975b03d1] + OnlinePCA v0.3.9 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.35 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.3.2 [21216c6a] + Preferences v1.4.3 [08abe8d2] + PrettyTables v2.4.0 [92933f4c] + ProgressMeter v1.10.4 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [79098fc4] + Rmath v0.8.0 [91c51154] + SentinelArrays v1.4.8 [1277b4bf] + ShiftedArrays v2.0.0 [a2af1166] + SortingAlgorithms v1.2.1 [276daf66] + SpecialFunctions v2.5.1 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.5 [4c63d2b9] + StatsFuns v1.5.0 [3eaba693] + StatsModels v0.7.4 [892a3eda] + StringManipulation v0.4.1 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [b718987f] + TextWrap v1.0.2 [3bb67fe8] + TranscodingStreams v0.11.3 [0234f1f7] + HDF5_jll v1.14.6+0 [e33a78d0] + Hwloc_jll v2.12.1+0 [7cb0a576] + MPICH_jll v4.3.1+0 [f1f71cc9] + MPItrampoline_jll v5.5.4+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 [477f73a3] + libaec_jll v1.1.3+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 v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.12.0 [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 v0.7.0 [9e88b42a] + Serialization v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.12.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.14.1+1 [e37daf67] + LibGit2_jll v1.9.1+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.5.20 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.5+0 [458c3c95] + OpenSSL_jll v3.5.0+0 [efcefdf7] + PCRE2_jll v10.45.0+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 v5.13.1+0 [8e850ede] + nghttp2_jll v1.65.0+0 [3f19e933] + p7zip_jll v17.5.0+2 Installation completed after 8.99s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 361.71s ################################################################################ # Testing # Testing OnlinePCA Test Could not use exact versions of packages in manifest. Re-resolving dependencies Updating `/tmp/jl_ohNKiw/Project.toml` [31c24e10] ↑ Distributions v0.25.111 ⇒ v0.25.120 [1a297f60] ↑ FillArrays v1.12.0 ⇒ v1.13.0 [975b03d1] + OnlinePCA v0.3.9 [10745b16] ↑ Statistics v1.10.0 ⇒ v1.11.1 [37e2e46d] ~ LinearAlgebra ⇒ v1.12.0 [2f01184e] ↑ SparseArrays v1.10.0 ⇒ v1.12.0 [8dfed614] ~ Test ⇒ v1.11.0 Updating `/tmp/jl_ohNKiw/Manifest.toml` [944b1d66] ↑ CodecZlib v0.7.6 ⇒ v0.7.8 [6b39b394] + CodecZstd v0.8.6 [a8cc5b0e] + Crayons v4.1.1 [a93c6f00] + DataFrames v1.7.0 [864edb3b] ↑ DataStructures v0.18.20 ⇒ v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [31c24e10] ↑ Distributions v0.25.111 ⇒ v0.25.120 [ffbed154] ↑ DocStringExtensions v0.9.3 ⇒ v0.9.5 [1a297f60] ↑ FillArrays v1.12.0 ⇒ v1.13.0 [38e38edf] + GLM v1.9.0 [f67ccb44] + HDF5 v0.17.2 [34004b35] ↑ HypergeometricFunctions v0.3.24 ⇒ v0.3.28 [842dd82b] + InlineStrings v1.4.4 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] ↑ IrrationalConstants v0.2.2 ⇒ v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] ↑ JLLWrappers v1.5.0 ⇒ v1.7.0 [b964fa9f] + LaTeXStrings v1.4.0 [2ab3a3ac] ↑ LogExpFunctions v0.3.28 ⇒ v0.3.29 [3da0fdf6] + MPIPreferences v0.1.11 [975b03d1] + OnlinePCA v0.3.9 [bac558e1] ↑ OrderedCollections v1.6.3 ⇒ v1.8.1 [90014a1f] ↑ PDMats v0.11.31 ⇒ v0.11.35 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.3.2 [08abe8d2] + PrettyTables v2.4.0 [92933f4c] + ProgressMeter v1.10.4 [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 ⇒ v0.8.0 [91c51154] + SentinelArrays v1.4.8 [1277b4bf] + ShiftedArrays v2.0.0 [276daf66] ↑ SpecialFunctions v2.4.0 ⇒ v2.5.1 [10745b16] ↑ Statistics v1.10.0 ⇒ v1.11.1 [82ae8749] ↑ StatsAPI v1.7.0 ⇒ v1.7.1 [2913bbd2] ↑ StatsBase v0.34.3 ⇒ v0.34.5 [4c63d2b9] ↑ StatsFuns v1.3.1 ⇒ v1.5.0 [3eaba693] + StatsModels v0.7.4 [892a3eda] + StringManipulation v0.4.1 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [3bb67fe8] ↑ TranscodingStreams v0.11.2 ⇒ v0.11.3 [0234f1f7] + HDF5_jll v1.14.6+0 [e33a78d0] + Hwloc_jll v2.12.1+0 [7cb0a576] + MPICH_jll v4.3.1+0 [f1f71cc9] + MPItrampoline_jll v5.5.4+0 [c8ffd9c3] - MbedTLS_jll v2.28.2+1 [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 [477f73a3] + libaec_jll v1.1.3+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 [76f85450] ~ LibGit2 ⇒ v1.11.0 [8f399da3] ~ Libdl ⇒ v1.11.0 [37e2e46d] ~ LinearAlgebra ⇒ v1.12.0 [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 [9e88b42a] ~ Serialization ⇒ v1.11.0 [6462fe0b] ~ Sockets ⇒ v1.11.0 [2f01184e] ↑ SparseArrays v1.10.0 ⇒ v1.12.0 [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 ⇒ v8.14.1+1 [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 ⇒ v2025.5.20 [4536629a] ↑ OpenBLAS_jll v0.3.23+4 ⇒ v0.3.29+0 [05823500] ↑ OpenLibm_jll v0.8.1+2 ⇒ v0.8.5+0 [458c3c95] + OpenSSL_jll v3.5.0+0 [efcefdf7] + PCRE2_jll v10.45.0+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 ⇒ v5.13.1+0 [8e850ede] ↑ nghttp2_jll v1.52.0+1 ⇒ v1.65.0+0 [3f19e933] ↑ p7zip_jll v17.4.0+2 ⇒ v17.5.0+2 Test Successfully re-resolved Status `/tmp/jl_ohNKiw/Project.toml` [c7e460c6] ArgParse v1.2.0 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.120 [1a297f60] FillArrays v1.13.0 [4d4711f2] MatrixMarket v0.5.2 [975b03d1] OnlinePCA v0.3.9 [10745b16] Statistics v1.11.1 [37e2e46d] LinearAlgebra v1.12.0 [2f01184e] SparseArrays v1.12.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_ohNKiw/Manifest.toml` [66dad0bd] AliasTables v1.1.3 [c7e460c6] ArgParse v1.2.0 [944b1d66] CodecZlib v0.7.8 [6b39b394] CodecZstd v0.8.6 [34da2185] Compat v4.16.0 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.7.0 [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.120 [ffbed154] DocStringExtensions v0.9.5 [1a297f60] FillArrays v1.13.0 [38e38edf] GLM v1.9.0 [f67ccb44] HDF5 v0.17.2 [34004b35] HypergeometricFunctions v0.3.28 [842dd82b] InlineStrings v1.4.4 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.4 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.0 [b964fa9f] LaTeXStrings v1.4.0 [2ab3a3ac] LogExpFunctions v0.3.29 [3da0fdf6] MPIPreferences v0.1.11 [4d4711f2] MatrixMarket v0.5.2 [e1d29d7a] Missings v1.2.0 [975b03d1] OnlinePCA v0.3.9 [bac558e1] OrderedCollections v1.8.1 [90014a1f] PDMats v0.11.35 [2dfb63ee] PooledArrays v1.4.3 [aea7be01] PrecompileTools v1.3.2 [21216c6a] Preferences v1.4.3 [08abe8d2] PrettyTables v2.4.0 [92933f4c] ProgressMeter v1.10.4 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [79098fc4] Rmath v0.8.0 [91c51154] SentinelArrays v1.4.8 [1277b4bf] ShiftedArrays v2.0.0 [a2af1166] SortingAlgorithms v1.2.1 [276daf66] SpecialFunctions v2.5.1 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.1 [2913bbd2] StatsBase v0.34.5 [4c63d2b9] StatsFuns v1.5.0 [3eaba693] StatsModels v0.7.4 [892a3eda] StringManipulation v0.4.1 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [b718987f] TextWrap v1.0.2 [3bb67fe8] TranscodingStreams v0.11.3 [0234f1f7] HDF5_jll v1.14.6+0 [e33a78d0] Hwloc_jll v2.12.1+0 [7cb0a576] MPICH_jll v4.3.1+0 [f1f71cc9] MPItrampoline_jll v5.5.4+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 [477f73a3] libaec_jll v1.1.3+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 v0.6.4 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.12.0 [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 v0.7.0 [9e88b42a] Serialization v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.12.0 [f489334b] StyledStrings v1.11.0 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] LibCURL_jll v8.14.1+1 [e37daf67] LibGit2_jll v1.9.1+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.5.20 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.5+0 [458c3c95] OpenSSL_jll v3.5.0+0 [efcefdf7] PCRE2_jll v10.45.0+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 v5.13.1+0 [8e850ede] nghttp2_jll v1.65.0+0 [3f19e933] p7zip_jll v17.5.0+2 Testing Running tests... Precompiling packages... 8612.8 ms ✓ Distributions → DistributionsTestExt 1 dependency successfully precompiled in 11 seconds. 49 already precompiled. /tmp/jl_RlbJpB 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) ####### Precompiling packages... 1358.7 ms ✓ ShiftedArrays 998.2 ms ✓ TextWrap 1906.7 ms ✓ InlineStrings 2370.8 ms ✓ CodecZstd 969.5 ms ✓ InvertedIndices 1166.5 ms ✓ DelimitedFiles 1160.0 ms ✓ PooledArrays 1432.7 ms ✓ MatrixMarket 6945.6 ms ✓ SentinelArrays 5881.1 ms ✓ StatsModels 2383.2 ms ✓ ArgParse 209159.3 ms ✓ DataFrames 7171.6 ms ✓ GLM 20388.7 ms ✓ OnlinePCA 14 dependencies successfully precompiled in 266 seconds. 95 already precompiled. Parsed args: csvfile => /tmp/jl_RlbJpB/Data.csv binfile => /tmp/jl_RlbJpB/Data.zst 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: binfile => /tmp/jl_RlbJpB/Data.mtx.zst mmfile => /tmp/jl_RlbJpB/Data.mtx ####### Binarization of Binary COO (Julia API) ####### ####### Binarization of Binary COO (Command line) ####### Parsed args: binfile => /tmp/jl_RlbJpB/Data.bincoo.zst bincoofile => /tmp/jl_RlbJpB/Data.bincoo ####### Summarization (Julia API) ####### 1 / 2 : Column-wise statistics are calculated... 2 / 2 : Row-wise statistics are calculated... ####### Summarization (Command line) ####### Parsed args: outdir => /tmp/jl_Zt74tW binfile => /tmp/jl_RlbJpB/Data.zst 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: outdir => /tmp/jl_FhkMHR binfile => /tmp/jl_RlbJpB/Data.mtx.zst 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: rowcv2list => /tmp/jl_Zt74tW/Feature_CV2s.csv outdir => /tmp/jl_Zt74tW binfile => /tmp/jl_RlbJpB/Data.zst rowvarlist => /tmp/jl_Zt74tW/Feature_Vars.csv rowmeanlist => /tmp/jl_Zt74tW/Feature_Means.csv Highly Variable Genes are calculated... ####### Filtering (Julia API) ####### ####### Filtering (Command line) ####### Parsed args: input => /tmp/jl_RlbJpB/Data.zst direct1 => + outdir => /tmp/jl_Zt74tW direct2 => + thr2 => 10 samplelist => /tmp/jl_Zt74tW/Sample_NoCounts.csv featurelist => /tmp/jl_Zt74tW/Feature_Means.csv thr1 => 10 Parsed args: input => /tmp/jl_RlbJpB/Data.zst direct1 => + outdir => /tmp/jl_Zt74tW direct2 => + thr2 => 10 samplelist => featurelist => /tmp/jl_Zt74tW/Feature_Means.csv thr1 => 10 Parsed args: input => /tmp/jl_RlbJpB/Data.zst direct1 => + outdir => /tmp/jl_Zt74tW direct2 => + thr2 => 10 samplelist => /tmp/jl_Zt74tW/Sample_NoCounts.csv featurelist => thr1 => 10 ####### GD (Julia API) ####### ####### GD (Command line) ####### Parsed args: scheduling => "robbins-monro" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Parsed args: scheduling => "momentum" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false evalfreq => 5000 initV => nothing initW => "/tmp/jl_Zt74tW/Eigen_vectors.csv" lower => 0 offsetStoch => 1.0f-6 Parsed args: scheduling => "nag" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false evalfreq => 5000 initV => "/tmp/jl_Zt74tW/Loadings.csv" initW => nothing lower => 0 offsetStoch => 1.0f-6 Parsed args: scheduling => "adagrad" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 ####### Oja (Julia API) ####### Progress: 1%|▎ | ETA: 0:02:49 Progress: 1%|▍ | ETA: 0:03:11 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:02:51 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:02:52 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:03:38 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 ####### Oja (Command line) ####### Parsed args: scheduling => "robbins-monro" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:06:38 Progress: 1%|▌ | ETA: 0:03:57 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scheduling => "momentum" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:06:47 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scheduling => "nag" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:07:49 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scheduling => "adagrad" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:08:12 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 ####### SGD (Julia API) ####### Progress: 1%|▎ | ETA: 0:03:19 Progress: 1%|▍ | ETA: 0:04:12 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:04:31 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:04:41 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:04:46 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 ####### SGD (Command line) ####### Parsed args: scheduling => "robbins-monro" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:06:50 Progress: 1%|▍ | ETA: 0:05:37 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scheduling => "momentum" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:07:13 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: scheduling => "nag" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:09:25 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 Parsed args: scheduling => "adagrad" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:08:02 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 ####### CCIPCA (Julia API) ####### Progress: 1%|▎ | ETA: 0:02:04 Progress: 1%|▍ | ETA: 0:02:38 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 ####### CCIPCA (Command line) ####### Parsed args: rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" pseudocount => 1.0f0 rowvarlist => "" colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" numepoch => "1" expvar => 0.1f0 perm => false evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-15 Progress: 1%|▎ | ETA: 0:09:37 Progress: 1%|▍ | ETA: 0:07:53 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 ####### RSGD (Julia API) ####### Progress: 1%|▎ | ETA: 0:17:42 Progress: 1%|▍ | ETA: 0:13:44 Progress: 100%|█████████████████████████████████████████| Time: 0:00:08 Progress: 1%|▎ | ETA: 0:04:41 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:06:06 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:04:55 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 ####### RSGD (Command line) ####### Parsed args: scheduling => "robbins-monro" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:15:05 Progress: 1%|▍ | ETA: 0:11:10 Progress: 100%|█████████████████████████████████████████| Time: 0:00:06 Parsed args: scheduling => "momentum" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:14:05 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 Parsed args: scheduling => "nag" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:12:44 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 Parsed args: scheduling => "adagrad" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:16:38 Progress: 100%|█████████████████████████████████████████| Time: 0:00:06 ####### SVRG (Julia API) ####### Progress: 1%|▎ | ETA: 0:05:05 Progress: 1%|▍ | ETA: 0:05:51 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Progress: 1%|▎ | ETA: 0:06:20 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:09:32 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Progress: 1%|▎ | ETA: 0:07:58 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 ####### SVRG (Command line) ####### Parsed args: scheduling => "robbins-monro" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:16:28 Progress: 1%|▍ | ETA: 0:13:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:07 Parsed args: scheduling => "momentum" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:16:02 Progress: 100%|█████████████████████████████████████████| Time: 0:00:06 Parsed args: scheduling => "nag" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:19:33 Progress: 100%|█████████████████████████████████████████| Time: 0:00:08 Parsed args: scheduling => "adagrad" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:18:46 Progress: 100%|█████████████████████████████████████████| Time: 0:00:07 ####### RSVRG (Julia API) ####### Progress: 1%|▎ | ETA: 0:04:49 Progress: 1%|▍ | ETA: 0:05:51 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Progress: 1%|▎ | ETA: 0:06:10 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:09:02 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Progress: 1%|▎ | ETA: 0:08:05 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 ####### RSVRG (Command line) ####### Parsed args: scheduling => "robbins-monro" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:25:16 Progress: 1%|▍ | ETA: 0:18:55 Progress: 100%|█████████████████████████████████████████| Time: 0:00:11 Parsed args: scheduling => "momentum" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:25:55 Progress: 100%|█████████████████████████████████████████| Time: 0:00:10 Parsed args: scheduling => "nag" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:27:34 Progress: 100%|█████████████████████████████████████████| Time: 0:00:11 Parsed args: scheduling => "adagrad" rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" epsilon => 1.0f-8 pseudocount => 1.0f0 rowvarlist => "" offsetFull => 1.0f-20 colsumlist => "" stepsize => "1.0e-15" upper => 1.0f38 cper => 1.0f0 scale => "ftt" g => 0.9f0 numepoch => "1" expvar => 0.1f0 perm => false numbatch => 100 evalfreq => 5000 initV => nothing initW => nothing lower => 0 offsetStoch => 1.0f-6 Progress: 1%|▎ | ETA: 0:25:53 Progress: 100%|█████████████████████████████████████████| Time: 0:00:10 ####### Orthogonal Iteration (Julia API) ####### Progress: 0%|▏ | ETA: 0:06:35 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 ####### Orthogonal Iteration (Command line) ####### Parsed args: rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" pseudocount => 1.0f0 rowvarlist => "" colsumlist => "" upper => 1.0f38 cper => 1.0f0 scale => "ftt" numepoch => "3" expvar => 0.1f0 perm => false initV => nothing initW => nothing lower => 0 Progress: 0%|▏ | ETA: 0:25:49 Progress: 33%|█████████████▊ | ETA: 0:00:11 Progress: 100%|█████████████████████████████████████████| Time: 0:00:06 ####### Randomized Block Krylov Iteration (Julia API) ####### Progress: 33%|█████████████▊ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 Q' A Q' A' A svd(Q' A' A) Q*U ####### Randomized Block Krylov Iteration (Command line) ####### Parsed args: rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" pseudocount => 1.0f0 rowvarlist => "" colsumlist => "" upper => 1.0f38 cper => 1.0f0 scale => "ftt" numepoch => "3" expvar => 0.1f0 perm => false initV => nothing initW => nothing lower => 0 Progress: 0%|▏ | ETA: 0:24:32 Progress: 33%|█████████████▊ | ETA: 0:00:10 Progress: 100%|█████████████████████████████████████████| Time: 0:00:06 Q' A Q' A' A svd(Q' A' A) Q*U ####### ARNOLDI (Julia API) ####### Progress: 20%|████████▎ | ETA: 0:00:02 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 ####### ARNOLDI (Command line) ####### Parsed args: rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" pseudocount => 1.0f0 rowvarlist => "" colsumlist => "" cper => 1.0f0 scale => "ftt" numepoch => "3" expvar => 0.1f0 perm => false Progress: 67%|███████████████████████████▍ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 ####### LANCZOS (Julia API) ####### Progress: 20%|████████▎ | ETA: 0:00:00 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 ####### LANCZOS (Command line) ####### Parsed args: rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" pseudocount => 1.0f0 rowvarlist => "" colsumlist => "" cper => 1.0f0 scale => "ftt" numepoch => "3" expvar => 0.1f0 perm => false Progress: 67%|███████████████████████████▍ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 ####### HALKO (Julia API) ####### Random Projection : Y = A Ω Progress: 1%|▎ | ETA: 0:01:07 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 QR factorization : Q = qr(Y) Subspace iterations (1/2) : qr(A' Q) qr(A' Q) Subspace iterations (2/2) : Y = qr(A qr(A' Q)) Q = qr(Y) Subspace iterations (1/2) : qr(A' Q) qr(A' Q) Subspace iterations (2/2) : Y = qr(A qr(A' Q)) Q = qr(Y) Subspace iterations (1/2) : qr(A' Q) qr(A' Q) Subspace iterations (2/2) : Y = qr(A qr(A' Q)) Q = qr(Y) Calculation of small matrix : B = Q' A SVD with small matrix : svd(B) ####### HALKO (Command line) ####### Parsed args: rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" pseudocount => 1.0f0 rowvarlist => "" colsumlist => "" noversamples => 5 cper => 1.0f0 niter => 3 scale => "ftt" perm => false initV => nothing initW => nothing Random Projection : Y = A Ω Progress: 1%|▎ | ETA: 0:06:55 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 QR factorization : Q = qr(Y) Subspace iterations (1/2) : qr(A' Q) Progress: 1%|▎ | ETA: 0:02:07 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 qr(A' Q) Subspace iterations (2/2) : Y = qr(A qr(A' Q)) Q = qr(Y) Subspace iterations (1/2) : qr(A' Q) qr(A' Q) Subspace iterations (2/2) : Y = qr(A qr(A' Q)) Q = qr(Y) Subspace iterations (1/2) : qr(A' Q) qr(A' Q) Subspace iterations (2/2) : Y = qr(A qr(A' Q)) Q = qr(Y) Calculation of small matrix : B = Q' A SVD with small matrix : svd(B) ####### ALGORITHM971 (Julia API) ####### Random Projection : Y = A Ω LU factorization : L = lu(Y) Normalized power iterations (1/3) : A' L L = lu(A' L) Normalized power iterations (2/3) : Y = A lu(A' L) Normalized power iterations (3/3) : L = lu(A lu(A' L)) Normalized power iterations (1/3) : A' L L = lu(A' L) Normalized power iterations (2/3) : Y = A lu(A' L) Normalized power iterations (3/3) : L = lu(A lu(A' L)) Normalized power iterations (1/3) : A' L L = lu(A' L) Normalized power iterations (2/3) : Y = A lu(A' L) QR factorization (3/3) : Q = qr(A lu(A' L)) Calculation of small matrix : B = Q' A SVD with small matrix : svd(B) ####### ALGORITHM971 (Command line) ####### Parsed args: rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" pseudocount => 1.0f0 rowvarlist => "" colsumlist => "" noversamples => 5 cper => 1.0f0 niter => 3 scale => "ftt" perm => false initV => nothing initW => nothing Random Projection : Y = A Ω Progress: 1%|▎ | ETA: 0:05:46 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 LU factorization : L = lu(Y) Normalized power iterations (1/3) : A' L Progress: 1%|▎ | ETA: 0:01:48 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 L = lu(A' L) Normalized power iterations (2/3) : Y = A lu(A' L) Normalized power iterations (3/3) : L = lu(A lu(A' L)) Normalized power iterations (1/3) : A' L L = lu(A' L) Normalized power iterations (2/3) : Y = A lu(A' L) Normalized power iterations (3/3) : L = lu(A lu(A' L)) Normalized power iterations (1/3) : A' L L = lu(A' L) Normalized power iterations (2/3) : Y = A lu(A' L) QR factorization (3/3) : Q = qr(A lu(A' L)) Calculation of small matrix : B = Q' A SVD with small matrix : svd(B) ####### SINGLEPASS (Julia API) ####### Random Projection : Y = A Ω, Ytilde = A' Ωtilde QR factorization : Q = qr(Y), Qtilde = qr(Ytilde) Solve linear equation : Ωtilde' Q B = Ytilde' Qtilde for B SVD with small matrix : svd(B) ####### SINGLEPASS (Command line) ####### Parsed args: rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" pseudocount => 1.0f0 rowvarlist => "" colsumlist => "" noversamples => 5 cper => 1.0f0 niter => 3 scale => "ftt" perm => false initV => nothing initW => nothing Random Projection : Y = A Ω, Ytilde = A' Ωtilde Progress: 1%|▎ | ETA: 0:03:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 QR factorization : Q = qr(Y), Qtilde = qr(Ytilde) Solve linear equation : Ωtilde' Q B = Ytilde' Qtilde for B SVD with small matrix : svd(B) ####### SINGLEPASS2 (Julia API) ####### Random Projection : G = A Ω, H = A' A Ω Subspace iterations (1/2) : Q = qr(Yi) Subspace iterations (2/2) : Q = qr(Qi - Q(Q' Qi)) Subspace iterations (1/2) : Q = qr(Yi) Subspace iterations (2/2) : Q = qr(Qi - Q(Q' Qi)) Subspace iterations (1/2) : Q = qr(Yi) Subspace iterations (2/2) : Q = qr(Qi - Q(Q' Qi)) SVD with small matrix : svd(B) ####### SINGLEPASS2 (Command line) ####### Parsed args: rowmeanlist => "/tmp/jl_Zt74tW/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_Zt74tW" input => "/tmp/jl_RlbJpB/Data.zst" outdir => "/tmp/jl_Zt74tW" pseudocount => 1.0f0 rowvarlist => "" colsumlist => "" noversamples => 5 cper => 1.0f0 niter => 3 scale => "ftt" perm => false initV => nothing initW => nothing Random Projection : G = A Ω, H = A' A Ω Progress: 1%|▎ | ETA: 0:02:28 Progress: 7%|███ | ETA: 0:00:24 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Subspace iterations (1/2) : Q = qr(Yi) Subspace iterations (2/2) : Q = qr(Qi - Q(Q' Qi)) Subspace iterations (1/2) : Q = qr(Yi) Subspace iterations (2/2) : Q = qr(Qi - Q(Q' Qi)) Subspace iterations (1/2) : Q = qr(Yi) Subspace iterations (2/2) : Q = qr(Qi - Q(Q' Qi)) SVD with small matrix : svd(B) ####### Sparse Randomized SVD (Julia API) ####### Initial Setting... Progress: 40%|████████████████▍ | ETA: 0:00:10 Progress: 100%|█████████████████████████████████████████| Time: 0:00:06 Random Projection : Y = A Ω Progress: 40%|████████████████▍ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 LU factorization : L = lu(Y) ##### Iteration 1 / 3 ##### Normalized power iterations (1/3) : A' L Progress: 40%|████████████████▍ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 Normalized power iterations (2/3) : A A' L LU decomposition (3/3) : L = lu(A A' L) ##### Iteration 2 / 3 ##### Normalized power iterations (1/3) : A' L Normalized power iterations (2/3) : A A' L LU decomposition (3/3) : L = lu(A A' L) ##### Iteration 3 / 3 ##### Normalized power iterations (1/3) : A' L Normalized power iterations (2/3) : A A' L QR decomposition (3/3) : Q = qr(A A' L) Small matrix computation : B = Q' A Progress: 40%|████████████████▍ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 SVD : B = U Σ V' ####### Sparse Randomized SVD (Command line) ####### Parsed args: rowmeanlist => "/tmp/jl_FhkMHR/Feature_FTTMeans.csv" dim => "3" logdir => "/tmp/jl_FhkMHR" input => "/tmp/jl_RlbJpB/Data.mtx.zst" outdir => "/tmp/jl_FhkMHR" rowvarlist => "" colsumlist => "" noversamples => 5 cper => 1.0f0 niter => 3 scale => "ftt" chunksize => "51" perm => false initV => nothing initW => nothing Initial Setting... Progress: 40%|████████████████▍ | ETA: 0:00:07 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 449 running 1 of 1 signal (10): User defined signal 1 _ZN4llvm23MemoryDependenceResults30getSimplePointerDependencyFromERKNS_14MemoryLocationEbNS_21ilist_iterator_w_bitsINS_12ilist_detail12node_optionsINS_11InstructionELb1ELb0EvLb1ENS_10BasicBlockEEELb0ELb0EEEPS8_PS7_PjRNS_14BatchAAResultsE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm23MemoryDependenceResults24getPointerDependencyFromERKNS_14MemoryLocationEbNS_21ilist_iterator_w_bitsINS_12ilist_detail12node_optionsINS_11InstructionELb1ELb0EvLb1ENS_10BasicBlockEEELb0ELb0EEEPS8_PS7_PjRNS_14BatchAAResultsE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm23MemoryDependenceResults23getNonLocalInfoForBlockEPNS_11InstructionERKNS_14MemoryLocationEbPNS_10BasicBlockEPSt6vectorINS_16NonLocalDepEntryESaIS9_EEjRNS_14BatchAAResultsE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm23MemoryDependenceResults27getNonLocalPointerDepFromBBEPNS_11InstructionERKNS_12PHITransAddrERKNS_14MemoryLocationEbPNS_10BasicBlockERNS_15SmallVectorImplINS_17NonLocalDepResultEEERNS_13SmallDenseMapISA_PNS_5ValueELj16ENS_12DenseMapInfoISA_vEENS_6detail12DenseMapPairISA_SH_EEEEbb at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm23MemoryDependenceResults28getNonLocalPointerDependencyEPNS_11InstructionERNS_15SmallVectorImplINS_17NonLocalDepResultEEE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm7GVNPass19processNonLocalLoadEPNS_8LoadInstE.part.0 at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm7GVNPass18processInstructionEPNS_11InstructionE.part.0 at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _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) 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:791 operator() at /source/src/jitlayers.cpp:1518 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:1479 [inlined] operator() at /source/src/jitlayers.cpp:1631 [inlined] addModule at /source/src/jitlayers.cpp:2088 jl_compile_codeinst_now at /source/src/jitlayers.cpp:683 jl_compile_codeinst_impl at /source/src/jitlayers.cpp:883 jl_compile_method_internal at /source/src/gf.c:3212 _jl_invoke at /source/src/gf.c:3684 [inlined] ijl_apply_generic at /source/src/gf.c:3892 #sparse_rsvd#112 at /home/pkgeval/.julia/packages/OnlinePCA/UhOUu/src/sparse_rsvd.jl:50 sparse_rsvd at /home/pkgeval/.julia/packages/OnlinePCA/UhOUu/src/sparse_rsvd.jl:33 unknown function (ip: 0x7963a813e0af) at (unknown file) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 main at /home/pkgeval/.julia/packages/OnlinePCA/UhOUu/bin/sparse_rsvd:71 unknown function (ip: 0x7963a81141df) at (unknown file) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [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:708 jl_interpret_toplevel_thunk at /source/src/interpreter.c:899 jl_toplevel_eval_flex at /source/src/toplevel.c:773 jl_toplevel_eval_flex at /source/src/toplevel.c:713 ijl_toplevel_eval at /source/src/toplevel.c:785 ijl_toplevel_eval_in at /source/src/toplevel.c:830 eval at ./boot.jl:489 include_string at ./loading.jl:2846 _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 _include at ./loading.jl:2906 include at ./Base.jl:309 exec_options at ./client.jl:324 _start at ./client.jl:557 jfptr__start_63934.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [inlined] true_main at /source/src/jlapi.c:964 jl_repl_entrypoint at /source/src/jlapi.c:1132 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x7963a949d249) 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 ============================================================== Random Projection : Y = A Ω ┌ 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/v1.13/Profile/src/Profile.jl:1362 Progress: 40%|████████████████▍ | ETA: 0:00:01Overhead ╎ [+additional indent] Count File:Line Function ========================================================= Thread 1 (default) Task 0x000079638f400010 Total snapshots: 1. Utilization: 100% ╎1 @Base/client.jl:557 _start() ╎ 1 @Base/client.jl:324 exec_options(opts::Base.JLOptions) ╎ 1 @Base/Base.jl:309 include(mod::Module, _path::String) ╎ 1 @Base/loading.jl:2906 _include(mapexpr::Function, mod::Module, _path::S… ╎ 1 @Base/loading.jl:2846 include_string(mapexpr::typeof(identity), mod::M… ╎ 1 @Base/boot.jl:489 eval(m::Module, e::Any) ╎ ╎ 1 @OnlinePCA/…sparse_rsvd:71 main() ╎ ╎ 1 @OnlinePCA/…se_rsvd.jl:33 kwcall(::@NamedTuple{input::String, scale… ╎ ╎ 1 @OnlinePCA/…se_rsvd.jl:50 sparse_rsvd(; input::String, outdir::Not…  Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 LU factorization : L = lu(Y) ##### Iteration 1 / 3 ##### Normalized power iterations (1/3) : A' L Progress: 40%|████████████████▍ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 Normalized power iterations (2/3) : A A' L LU decomposition (3/3) : L = lu(A A' L) ##### Iteration 2 / 3 ##### Normalized power iterations (1/3) : A' L Normalized power iterations (2/3) : A A' L LU decomposition (3/3) : L = lu(A A' L) ##### Iteration 3 / 3 ##### Normalized power iterations (1/3) : A' L Normalized power iterations (2/3) : A A' L QR decomposition (3/3) : Q = qr(A A' L) Small matrix computation : B = Q' A Progress: 40%|████████████████▍ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 SVD : B = U Σ V' ####### Exact Out-of-Core PCA (Dense, Julia API) ####### ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 175 running 1 of 1 signal (10): User defined signal 1 renumber_ssa2 at ./../usr/share/julia/Compiler/src/ssair/ir.jl:1324 renumber_ssa2! at ./../usr/share/julia/Compiler/src/ssair/ir.jl:1356 process_node! at ./../usr/share/julia/Compiler/src/ssair/ir.jl:1598 iterate_compact at ./../usr/share/julia/Compiler/src/ssair/ir.jl:1949 iterate at ./../usr/share/julia/Compiler/src/ssair/ir.jl:1871 ir_inline_item! at ./../usr/share/julia/Compiler/src/ssair/inlining.jl:399 batch_inline! at ./../usr/share/julia/Compiler/src/ssair/inlining.jl:663 ssa_inlining_pass! at ./../usr/share/julia/Compiler/src/ssair/inlining.jl:79 run_passes_ipo_safe at ./../usr/share/julia/Compiler/src/optimize.jl:1033 run_passes_ipo_safe at ./../usr/share/julia/Compiler/src/optimize.jl:1046 optimize at ./../usr/share/julia/Compiler/src/optimize.jl:1019 jfptr_optimize_85816.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 finish_nocycle at ./../usr/share/julia/Compiler/src/typeinfer.jl:232 jfptr_finish_nocycle_85321.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 typeinf at ./../usr/share/julia/Compiler/src/abstractinterpretation.jl:4490 typeinf_ext at ./../usr/share/julia/Compiler/src/typeinfer.jl:1391 add_codeinsts_to_jit! at ./../usr/share/julia/Compiler/src/typeinfer.jl:1528 typeinf_ext_toplevel at ./../usr/share/julia/Compiler/src/typeinfer.jl:1561 typeinf_ext_toplevel at ./../usr/share/julia/Compiler/src/typeinfer.jl:1568 jfptr_typeinf_ext_toplevel_84579.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [inlined] jl_type_infer at /source/src/gf.c:461 jl_compile_method_internal at /source/src/gf.c:3199 _jl_invoke at /source/src/gf.c:3684 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [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:708 jl_interpret_toplevel_thunk at /source/src/interpreter.c:899 jl_toplevel_eval_flex at /source/src/toplevel.c:773 jl_toplevel_eval_flex at /source/src/toplevel.c:713 ijl_toplevel_eval at /source/src/toplevel.c:785 ijl_toplevel_eval_in at /source/src/toplevel.c:830 eval at ./boot.jl:489 include_string at ./loading.jl:2846 _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 _include at ./loading.jl:2906 include at ./Base.jl:310 IncludeInto at ./Base.jl:311 jfptr_IncludeInto_45279.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [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:708 jl_interpret_toplevel_thunk at /source/src/interpreter.c:899 jl_toplevel_eval_flex at /source/src/toplevel.c:773 jl_toplevel_eval_flex at /source/src/toplevel.c:713 ijl_toplevel_eval at /source/src/toplevel.c:785 ijl_toplevel_eval_in at /source/src/toplevel.c:830 eval at ./boot.jl:489 include_string at ./loading.jl:2846 _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 _include at ./loading.jl:2906 include at ./Base.jl:310 IncludeInto at ./Base.jl:311 jfptr_IncludeInto_45279.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [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:708 jl_interpret_toplevel_thunk at /source/src/interpreter.c:899 jl_toplevel_eval_flex at /source/src/toplevel.c:773 jl_toplevel_eval_flex at /source/src/toplevel.c:713 ijl_toplevel_eval at /source/src/toplevel.c:785 ijl_toplevel_eval_in at /source/src/toplevel.c:830 eval at ./boot.jl:489 exec_options at ./client.jl:290 _start at ./client.jl:557 jfptr__start_63934.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [inlined] true_main at /source/src/jlapi.c:964 jl_repl_entrypoint at /source/src/jlapi.c:1132 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x7876f77d3249) 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 ============================================================== ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== 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:1213 wait_forever at ./task.jl:1150 jfptr_wait_forever_66361.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) ============================================================== Profile collected. A report will print at the next yield point ============================================================== ┌ 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/v1.13/Profile/src/Profile.jl:1362 Overhead ╎ [+additional indent] Count File:Line Function ========================================================= Thread 1 (default) Task 0x00007a196cbf3d00 Total snapshots: 381. Utilization: 0% ╎381 @Base/task.jl:1150 wait_forever() 380╎ 381 @Base/task.jl:1213 wait() # 1. Column-wise Mean [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 [175] signal 15: Terminated in expression starting at /home/pkgeval/.julia/packages/OnlinePCA/UhOUu/test/test_exact_ooc_pca.jl:3 _ZN4llvm17LibCallSimplifierC1ERKNS_10DataLayoutEPKNS_17TargetLibraryInfoEPNS_13DominatorTreeEPNS_17DomConditionCacheEPNS_15AssumptionCacheERNS_25OptimizationRemarkEmitterEPNS_18BlockFrequencyInfoEPNS_18ProfileSummaryInfoENS_12function_refIFvPNS_11InstructionEPNS_5ValueEEEENSJ_IFvSL_EEE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) wait at ./task.jl:1213 _ZN4llvm16InstCombinerImpl15tryOptimizeCallEPNS_8CallInstE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) wait_forever at ./task.jl:1150 _ZN4llvm16InstCombinerImpl13visitCallBaseERNS_8CallBaseE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) jfptr_wait_forever_66361.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) Allocations: 21892991 (Pool: 21892472; Big: 519); GC: 23 _ZN4llvm16InstCombinerImpl13visitCallInstERNS_8CallInstE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm16InstCombinerImpl3runEv at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZL31combineInstructionsOverFunctionRN4llvm8FunctionERNS_19InstructionWorklistEPNS_9AAResultsERNS_15AssumptionCacheERNS_17TargetLibraryInfoERNS_19TargetTransformInfoERNS_13DominatorTreeERNS_25OptimizationRemarkEmitterEPNS_18BlockFrequencyInfoEPNS_21BranchProbabilityInfoEPNS_18ProfileSummaryInfoERKNS_18InstCombineOptionsE at /opt/julia/bin/../lib/julia/libLLVM.so.20.1jl (unknown line) _ZN4llvm15InstCombinePass3runERNS_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:791 operator() at /source/src/jitlayers.cpp:1518 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:1479 [inlined] operator() at /source/src/jitlayers.cpp:1631 [inlined] addModule at /source/src/jitlayers.cpp:2088 jl_compile_codeinst_now at /source/src/jitlayers.cpp:683 jl_compile_codeinst_impl at /source/src/jitlayers.cpp:883 jl_compile_method_internal at /source/src/gf.c:3212 _jl_invoke at /source/src/gf.c:3684 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [inlined] jl_f_invokelatest at /source/src/builtins.c:877 profile_printing_listener at ./Base.jl:337 #start_profile_listener##0 at ./Base.jl:355 jfptr_YY.start_profile_listenerYY.YY.0_18615.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3692 [inlined] ijl_apply_generic at /source/src/gf.c:3892 jl_apply at /source/src/julia.h:2343 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) Allocations: 121148562 (Pool: 121147061; Big: 1501); GC: 68 PkgEval terminated after 2744.47s: test duration exceeded the time limit