Package evaluation of OnlinePCA on Julia 1.11.5 (32ac370b68*) started at 2025-06-29T14:57:42.740 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.85s ################################################################################ # Installation # Installing OnlinePCA... Resolving package versions... Updating `~/.julia/environments/v1.11/Project.toml` [975b03d1] + OnlinePCA v0.3.9 Updating `~/.julia/environments/v1.11/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 v1.2.1 [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 [458c3c95] + OpenSSL_jll v3.5.0+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [3161d3a3] + Zstd_jll v1.5.7+1 [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 v1.6.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.11.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.2.0 [44cfe95a] + Pkg v1.11.0 [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 v1.11.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] + LibCURL_jll v8.6.0+0 [e37daf67] + LibGit2_jll v1.7.2+0 [29816b5a] + LibSSH2_jll v1.11.0+1 [c8ffd9c3] + MbedTLS_jll v2.28.6+0 [14a3606d] + MozillaCACerts_jll v2023.12.12 [4536629a] + OpenBLAS_jll v0.3.27+1 [05823500] + OpenLibm_jll v0.8.5+0 [bea87d4a] + SuiteSparse_jll v7.7.0+0 [83775a58] + Zlib_jll v1.2.13+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 [8e850ede] + nghttp2_jll v1.59.0+0 [3f19e933] + p7zip_jll v17.4.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 8.09s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 178.1s ################################################################################ # Testing # Testing OnlinePCA ┌ Warning: Could not use exact versions of packages in manifest, re-resolving └ @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1924 Status `/tmp/jl_WIbEoM/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 v1.11.0 [2f01184e] SparseArrays v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_WIbEoM/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 v1.2.1 [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 [458c3c95] OpenSSL_jll v3.5.0+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [3161d3a3] Zstd_jll v1.5.7+1 [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 v1.6.0 [7b1f6079] FileWatching v1.11.0 [9fa8497b] Future v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [4af54fe1] LazyArtifacts v1.11.0 [b27032c2] LibCURL v0.6.4 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.11.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.2.0 [44cfe95a] Pkg v1.11.0 [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 v1.11.0 [f489334b] StyledStrings v1.11.0 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] LibCURL_jll v8.6.0+0 [e37daf67] LibGit2_jll v1.7.2+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.6+0 [14a3606d] MozillaCACerts_jll v2023.12.12 [4536629a] OpenBLAS_jll v0.3.27+1 [05823500] OpenLibm_jll v0.8.5+0 [bea87d4a] SuiteSparse_jll v7.7.0+0 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.59.0+0 [3f19e933] p7zip_jll v17.4.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... Precompiling DistributionsTestExt... 4193.0 ms ✓ Distributions → DistributionsTestExt 1 dependency successfully precompiled in 6 seconds. 48 already precompiled. /tmp/jl_cLJ8fE 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 OnlinePCA... 1307.4 ms ✓ TextWrap 739.1 ms ✓ ShiftedArrays 918.4 ms ✓ DelimitedFiles 1240.7 ms ✓ MatrixMarket 2383.6 ms ✓ CodecZstd 1746.3 ms ✓ ArgParse 17973.6 ms ✓ StatsModels 15545.0 ms ✓ GLM 305057.5 ms ✓ OnlinePCA 9 dependencies successfully precompiled in 350 seconds. 100 already precompiled. Parsed args: binfile => /tmp/jl_cLJ8fE/Data.zst csvfile => /tmp/jl_cLJ8fE/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_cLJ8fE/Data.mtx binfile => /tmp/jl_cLJ8fE/Data.mtx.zst ####### Binarization of Binary COO (Julia API) ####### ####### Binarization of Binary COO (Command line) ####### Parsed args: binfile => /tmp/jl_cLJ8fE/Data.bincoo.zst bincoofile => /tmp/jl_cLJ8fE/Data.bincoo ####### Summarization (Julia API) ####### 1 / 2 : Column-wise statistics are calculated... 2 / 2 : Row-wise statistics are calculated... ####### Summarization (Command line) ####### Parsed args: pseudocount => 1.0 binfile => /tmp/jl_cLJ8fE/Data.zst mode => dense outdir => /tmp/jl_IBIz58 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: pseudocount => 1.0 binfile => /tmp/jl_cLJ8fE/Data.mtx.zst mode => sparse_mm outdir => /tmp/jl_oYSOxU 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: rowmeanlist => /tmp/jl_IBIz58/Feature_Means.csv binfile => /tmp/jl_cLJ8fE/Data.zst rowcv2list => /tmp/jl_IBIz58/Feature_CV2s.csv rowvarlist => /tmp/jl_IBIz58/Feature_Vars.csv outdir => /tmp/jl_IBIz58 Highly Variable Genes are calculated... ####### Filtering (Julia API) ####### ####### Filtering (Command line) ####### Parsed args: samplelist => /tmp/jl_IBIz58/Sample_NoCounts.csv thr1 => 10 direct2 => + direct1 => + thr2 => 10 outdir => /tmp/jl_IBIz58 input => /tmp/jl_cLJ8fE/Data.zst featurelist => /tmp/jl_IBIz58/Feature_Means.csv Parsed args: samplelist => thr1 => 10 direct2 => + direct1 => + thr2 => 10 outdir => /tmp/jl_IBIz58 input => /tmp/jl_cLJ8fE/Data.zst featurelist => /tmp/jl_IBIz58/Feature_Means.csv Parsed args: samplelist => /tmp/jl_IBIz58/Sample_NoCounts.csv thr1 => 10 direct2 => + direct1 => + thr2 => 10 outdir => /tmp/jl_IBIz58 input => /tmp/jl_cLJ8fE/Data.zst featurelist => ####### GD (Julia API) ####### ####### GD (Command line) ####### Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "robbins-monro" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "momentum" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => "/tmp/jl_IBIz58/Eigen_vectors.csv" colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "nag" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => "/tmp/jl_IBIz58/Loadings.csv" cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "adagrad" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false ####### Oja (Julia API) ####### Progress: 1%|▎ | ETA: 0:06:32 Progress: 1%|▍ | ETA: 0:09:22 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 Progress: 1%|▎ | ETA: 0:05:56 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:05:16 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:12:12 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 ####### Oja (Command line) ####### Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "robbins-monro" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:08:31 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "momentum" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:09:22 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "nag" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:11:52 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "adagrad" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:11:45 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 ####### SGD (Julia API) ####### Progress: 1%|▎ | ETA: 0:06:44 Progress: 1%|▍ | ETA: 0:08:32 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 Progress: 1%|▎ | ETA: 0:07:55 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Progress: 1%|▎ | ETA: 0:08:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Progress: 1%|▎ | ETA: 0:12:24 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 ####### SGD (Command line) ####### Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "robbins-monro" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:09:12 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "momentum" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:09:40 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "nag" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:12:48 Progress: 100%|█████████████████████████████████████████| Time: 0:00:06 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "adagrad" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:12:27 Progress: 100%|█████████████████████████████████████████| Time: 0:00:06 ####### CCIPCA (Julia API) ####### Progress: 1%|▎ | ETA: 0:02:04 Progress: 1%|▍ | ETA: 0:02:55 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 ####### CCIPCA (Command line) ####### Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 offsetStoch => 1.0f-15 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:14:28 Progress: 100%|█████████████████████████████████████████| Time: 0:00:07 ####### RSGD (Julia API) ####### Progress: 1%|▎ | ETA: 0:20:44 Progress: 1%|▍ | ETA: 0:17:54 Progress: 100%|█████████████████████████████████████████| Time: 0:00:10 Progress: 1%|▎ | ETA: 0:07:56 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Progress: 1%|▎ | ETA: 0:12:26 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 Progress: 1%|▎ | ETA: 0:12:09 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 ####### RSGD (Command line) ####### Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "robbins-monro" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:17:24 Progress: 100%|█████████████████████████████████████████| Time: 0:00:08 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "momentum" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:18:26 Progress: 100%|█████████████████████████████████████████| Time: 0:00:08 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "nag" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:19:45 Progress: 100%|█████████████████████████████████████████| Time: 0:00:09 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "adagrad" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:21:03 Progress: 100%|█████████████████████████████████████████| Time: 0:00:09 ####### SVRG (Julia API) ####### Progress: 1%|▎ | ETA: 0:12:05 Progress: 1%|▍ | ETA: 0:15:04 Progress: 100%|█████████████████████████████████████████| Time: 0:00:09 Progress: 1%|▎ | ETA: 0:12:44 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 Progress: 1%|▎ | ETA: 0:17:08 Progress: 100%|█████████████████████████████████████████| Time: 0:00:06 Progress: 1%|▎ | ETA: 0:28:50 Progress: 100%|█████████████████████████████████████████| Time: 0:00:11 ####### SVRG (Command line) ####### Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "robbins-monro" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:25:11 Progress: 1%|▍ | ETA: 0:21:11 Progress: 100%|█████████████████████████████████████████| Time: 0:00:12 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "momentum" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:25:03 Progress: 100%|█████████████████████████████████████████| Time: 0:00:11 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "nag" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:27:44 Progress: 100%|█████████████████████████████████████████| Time: 0:00:12 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "adagrad" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:26:48 Progress: 100%|█████████████████████████████████████████| Time: 0:00:11 ####### RSVRG (Julia API) ####### Progress: 1%|▎ | ETA: 0:11:12 Progress: 1%|▍ | ETA: 0:14:27 Progress: 100%|█████████████████████████████████████████| Time: 0:00:08 Progress: 1%|▎ | ETA: 0:11:54 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 Progress: 1%|▎ | ETA: 0:18:19 Progress: 100%|█████████████████████████████████████████| Time: 0:00:07 Progress: 1%|▎ | ETA: 0:29:55 Progress: 100%|█████████████████████████████████████████| Time: 0:00:12 ####### RSVRG (Command line) ####### Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "robbins-monro" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:33:40 Progress: 1%|▍ | ETA: 0:26:47 Progress: 100%|█████████████████████████████████████████| Time: 0:00:16 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "momentum" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:31:58 Progress: 100%|█████████████████████████████████████████| Time: 0:00:13 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "nag" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:33:16 Progress: 100%|█████████████████████████████████████████| Time: 0:00:14 Parsed args: logdir => "/tmp/jl_IBIz58" scale => "ftt" upper => 1.0f38 scheduling => "adagrad" offsetStoch => 1.0f-6 outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:32:38 Progress: 100%|█████████████████████████████████████████| Time: 0:00:14 ####### Orthogonal Iteration (Julia API) ####### Progress: 0%|▏ | ETA: 0:16:53 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 ####### Orthogonal Iteration (Command line) ####### Parsed args: logdir => "/tmp/jl_IBIz58" upper => 1.0f38 scale => "ftt" outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "3" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 dim => "3" perm => false Progress: 0%|▏ | ETA: 0:42:33 Progress: 33%|█████████████▊ | ETA: 0:00:17 Progress: 100%|█████████████████████████████████████████| Time: 0:00:09 ####### Randomized Block Krylov Iteration (Julia API) ####### Progress: 0%|▏ | ETA: 0:00:49 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: logdir => "/tmp/jl_IBIz58" upper => 1.0f38 scale => "ftt" outdir => "/tmp/jl_IBIz58" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "3" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 dim => "3" perm => false Progress: 0%|▏ | ETA: 0:39:41 Progress: 33%|█████████████▊ | ETA: 0:00:15 Progress: 100%|█████████████████████████████████████████| Time: 0:00:08 Q' A Q' A' A svd(Q' A' A) Q*U ####### ARNOLDI (Julia API) ####### Progress: 20%|████████▎ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 ####### ARNOLDI (Command line) ####### Parsed args: scale => "ftt" outdir => "/tmp/jl_IBIz58" rowvarlist => "" cper => 1.0f0 pseudocount => 1.0f0 colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "3" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 dim => "3" perm => false Progress: 67%|███████████████████████████▍ | ETA: 0:00:02 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 ####### LANCZOS (Julia API) ####### Progress: 20%|████████▎ | ETA: 0:00:00 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 ####### LANCZOS (Command line) ####### Parsed args: scale => "ftt" outdir => "/tmp/jl_IBIz58" rowvarlist => "" cper => 1.0f0 pseudocount => 1.0f0 colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" numepoch => "3" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" expvar => 0.1f0 dim => "3" perm => false Progress: 67%|███████████████████████████▍ | ETA: 0:00:02 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 ####### HALKO (Julia API) ####### Random Projection : Y = A Ω Progress: 1%|▎ | ETA: 0:01:05 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: logdir => "/tmp/jl_IBIz58" scale => "ftt" noversamples => 5 outdir => "/tmp/jl_IBIz58" rowvarlist => "" initV => nothing cper => 1.0f0 niter => 3 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" dim => "3" perm => false Random Projection : Y = A Ω Progress: 1%|▎ | ETA: 0:09:58 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 QR factorization : Q = qr(Y) Subspace iterations (1/2) : qr(A' Q) Progress: 1%|▎ | ETA: 0:01:43 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: logdir => "/tmp/jl_IBIz58" scale => "ftt" noversamples => 5 outdir => "/tmp/jl_IBIz58" rowvarlist => "" initV => nothing cper => 1.0f0 niter => 3 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" dim => "3" perm => false Random Projection : Y = A Ω Progress: 1%|▎ | ETA: 0:11:48 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 LU factorization : L = lu(Y) Normalized power iterations (1/3) : A' L Progress: 1%|▎ | ETA: 0:02:11 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: logdir => "/tmp/jl_IBIz58" scale => "ftt" noversamples => 5 outdir => "/tmp/jl_IBIz58" rowvarlist => "" initV => nothing cper => 1.0f0 niter => 3 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" dim => "3" perm => false Random Projection : Y = A Ω, Ytilde = A' Ωtilde Progress: 1%|▎ | ETA: 0:02:58 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 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: logdir => "/tmp/jl_IBIz58" scale => "ftt" noversamples => 5 outdir => "/tmp/jl_IBIz58" rowvarlist => "" initV => nothing cper => 1.0f0 niter => 3 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.zst" rowmeanlist => "/tmp/jl_IBIz58/Feature_FTTMeans.csv" dim => "3" perm => false Random Projection : G = A Ω, H = A' A Ω Progress: 1%|▎ | ETA: 0:03:25 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 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: 0:00:02 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 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: 0:00:03 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 SVD : B = U Σ V' ####### Sparse Randomized SVD (Command line) ####### Parsed args: logdir => "/tmp/jl_oYSOxU" scale => "ftt" noversamples => 5 outdir => "/tmp/jl_oYSOxU" rowvarlist => "" initV => nothing cper => 1.0f0 niter => 3 initW => nothing colsumlist => "" input => "/tmp/jl_cLJ8fE/Data.mtx.zst" rowmeanlist => "/tmp/jl_oYSOxU/Feature_FTTMeans.csv" dim => "3" perm => false chunksize => "51" Initial Setting... Progress: 40%|████████████████▍ | ETA: 0:00:05 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 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' ####### Exact Out-of-Core PCA (Dense, Julia API) ####### # 1. Column-wise Mean # 2. Out-of-Core Covariance Matrix Calculation Progress: 2 Time: 0:00:02 Progress: 6 Time: 0:00:02 # 3. PC Score (Z = XV) is being calculated. # 4. Out-of-Core PC Score Calculation # 5. Delayed Centering Correction # 6. Normalize W and Calculate Eigenvalues ####### Exact Out-of-Core PCA (Dense, Command line) ####### Parsed args: pseudocount => 1.0f0 mode => "dense" dim => "3" outdir => "/tmp/jl_IBIz58" input => "/tmp/jl_cLJ8fE/Data.zst" scale => "raw" chunksize => "51" # 1. Column-wise Mean # 2. Out-of-Core Covariance Matrix Calculation Progress: 2 Time: 0:00:00 Progress: 6 Time: 0:00:00 # 3. PC Score (Z = XV) is being calculated. # 4. Out-of-Core PC Score Calculation # 5. Delayed Centering Correction # 6. Normalize W and Calculate Eigenvalues ####### Exact Out-of-Core PCA (MM-Sparse, Julia API) ####### # 1. Column-wise Mean # 2. Out-of-Core Covariance Matrix Calculation Progress: 2 Time: 0:00:05 Progress: 6 Time: 0:00:05 # 3. PC Score (Z = XV) is being calculated. # 4. Out-of-Core PC Score Calculation Progress: 2 Time: 0:00:00 Progress: 6 Time: 0:00:00 # 5. Delayed Centering Correction # 6. Normalize W and Calculate Eigenvalues ####### Exact Out-of-Core PCA (MM-Sparse, Command line) ####### Parsed args: pseudocount => 1.0f0 mode => "sparse_mm" dim => "3" outdir => "/tmp/jl_oYSOxU" input => "/tmp/jl_cLJ8fE/Data.mtx.zst" scale => "raw" chunksize => "51" ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 518 running 1 of 1 signal (10): User defined signal 1 _ZN4llvm17PMTopLevelManager15collectLastUsesERNS_15SmallVectorImplIPNS_4PassEEES3_ at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm13PMDataManager16removeDeadPassesEPNS_4PassENS_9StringRefENS_19PassDebuggingStringE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm13FPPassManager13runOnFunctionERNS_8FunctionE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm13FPPassManager11runOnModuleERNS_6ModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm6legacy15PassManagerImpl3runERNS_6ModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc14SimpleCompilerclERNS_6ModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) operator() at /source/src/jitlayers.cpp:1388 _ZN4llvm3orc14IRCompileLayer4emitESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EENS0_16ThreadSafeModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16IRTransformLayer4emitESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EENS0_16ThreadSafeModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16IRTransformLayer4emitESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EENS0_16ThreadSafeModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16IRTransformLayer4emitESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EENS0_16ThreadSafeModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16IRTransformLayer4emitESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EENS0_16ThreadSafeModuleE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc31BasicIRLayerMaterializationUnit11materializeESt10unique_ptrINS0_29MaterializationResponsibilityESt14default_deleteIS3_EE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc19MaterializationTask3runEv at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm6detail18UniqueFunctionBaseIvJSt10unique_ptrINS_3orc4TaskESt14default_deleteIS4_EEEE8CallImplIPFvS7_EEEvPvRS7_ at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession22dispatchOutstandingMUsEv at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession17OL_completeLookupESt10unique_ptrINS0_21InProgressLookupStateESt14default_deleteIS3_EESt10shared_ptrINS0_23AsynchronousSymbolQueryEESt8functionIFvRKNS_8DenseMapIPNS0_8JITDylibENS_8DenseSetINS0_15SymbolStringPtrENS_12DenseMapInfoISF_vEEEENSG_ISD_vEENS_6detail12DenseMapPairISD_SI_EEEEEE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc25InProgressFullLookupState8completeESt10unique_ptrINS0_21InProgressLookupStateESt14default_deleteIS3_EE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession19OL_applyQueryPhase1ESt10unique_ptrINS0_21InProgressLookupStateESt14default_deleteIS3_EENS_5ErrorE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession6lookupENS0_10LookupKindERKSt6vectorISt4pairIPNS0_8JITDylibENS0_19JITDylibLookupFlagsEESaIS8_EENS0_15SymbolLookupSetENS0_11SymbolStateENS_15unique_functionIFvNS_8ExpectedINS_8DenseMapINS0_15SymbolStringPtrENS_18JITEvaluatedSymbolENS_12DenseMapInfoISI_vEENS_6detail12DenseMapPairISI_SJ_EEEEEEEEESt8functionIFvRKNSH_IS6_NS_8DenseSetISI_SL_EENSK_IS6_vEENSN_IS6_SV_EEEEEE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) _ZN4llvm3orc16ExecutionSession6lookupERKSt6vectorISt4pairIPNS0_8JITDylibENS0_19JITDylibLookupFlagsEESaIS7_EENS0_15SymbolLookupSetENS0_10LookupKindENS0_11SymbolStateESt8functionIFvRKNS_8DenseMapIS5_NS_8DenseSetINS0_15SymbolStringPtrENS_12DenseMapInfoISI_vEEEENSJ_IS5_vEENS_6detail12DenseMapPairIS5_SL_EEEEEE at /opt/julia/bin/../lib/julia/libLLVM-16jl.so (unknown line) addModule at /source/src/jitlayers.cpp:1875 jl_add_to_ee at /source/src/jitlayers.cpp:2306 _jl_compile_codeinst at /source/src/jitlayers.cpp:277 jl_generate_fptr_impl at /source/src/jitlayers.cpp:536 jl_compile_method_internal at /source/src/gf.c:2536 [inlined] jl_compile_method_internal at /source/src/gf.c:2423 _jl_invoke at /source/src/gf.c:2940 [inlined] ijl_apply_generic at /source/src/gf.c:3125 main at /home/pkgeval/.julia/packages/OnlinePCA/UhOUu/bin/exact_ooc_pca:33 unknown function (ip: 0x7b4f7b10abcf) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2734 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 _include at ./loading.jl:2794 include at ./Base.jl:562 jfptr_include_47034.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 exec_options at ./client.jl:323 _start at ./client.jl:531 jfptr__start_73694.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] true_main at /source/src/jlapi.c:900 jl_repl_entrypoint at /source/src/jlapi.c:1059 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x7b4f7c3ff249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) unknown function (ip: (nil)) ============================================================== Profile collected. A report will print at the next yield point ============================================================== # 1. Column-wise Mean # 2. Out-of-Core Covariance Matrix Calculation┌ 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/v1.11/Profile/src/Profile.jl:1240 Overhead ╎ [+additional indent] Count File:Line; Function ========================================================= Thread 1 Task 0x00007b4f6ee00010 Total snapshots: 11. Utilization: 100% ╎10 @Base/client.jl:531; _start() ╎ 10 @Base/client.jl:323; exec_options(opts::Base.JLOptions) ╎ 10 @Base/Base.jl:562; include(mod::Module, _path::String) ╎ 10 @Base/loading.jl:2794; _include(mapexpr::Function, mod::Module, _path::… ╎ 10 @Base/loading.jl:2734; include_string(mapexpr::typeof(identity), mod::… ╎ 10 @Base/boot.jl:430; eval 9╎ ╎ 10 …PCA/bin/exact_ooc_pca:33; main() Progress: 2 Time: 0:00:01 Progress: 6 Time: 0:00:01 # 3. PC Score (Z = XV) is being calculated. ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 159 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:522 poptask at ./task.jl:1012 wait at ./task.jl:1021 #wait#733 at ./condition.jl:130 wait at ./condition.jl:125 [inlined] wait at ./process.jl:694 wait at ./process.jl:687 [inlined] success at ./process.jl:556 [inlined] #run#899 at ./process.jl:513 run at ./process.jl:510 unknown function (ip: 0x76f9968d1472) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2734 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 _include at ./loading.jl:2794 include at ./sysimg.jl:38 unknown function (ip: 0x76f996894082) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2734 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 _include at ./loading.jl:2794 include at ./sysimg.jl:38 unknown function (ip: 0x76f996894082) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] exec_options at ./client.jl:296 _start at ./client.jl:531 jfptr__start_73694.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] true_main at /source/src/jlapi.c:900 jl_repl_entrypoint at /source/src/jlapi.c:1059 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x76f997b89249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) unknown function (ip: (nil)) ============================================================== Profile collected. A report will print at the next yield point ============================================================== # 4. Out-of-Core PC Score Calculation Progress: 2 Time: 0:00:01 Progress: 6 Time: 0:00:01 # 5. Delayed Centering Correction # 6. Normalize W and Calculate Eigenvalues ┌ 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/v1.11/Profile/src/Profile.jl:1240 Overhead ╎ [+additional indent] Count File:Line; Function ========================================================= Thread 1 Task 0x000076f98a600010 Total snapshots: 1. Utilization: 0% ╎1 @Base/client.jl:531; _start() ╎ 1 @Base/client.jl:296; exec_options(opts::Base.JLOptions) ╎ 1 @Base/boot.jl:430; eval ╎ 1 @Base/sysimg.jl:38; include(fname::String) ╎ 1 @Base/loading.jl:2794; _include(mapexpr::Function, mod::Module, _path::… ╎ 1 @Base/loading.jl:2734; include_string(mapexpr::typeof(identity), mod::… ╎ ╎ 1 @Base/boot.jl:430; eval ╎ ╎ 1 @Base/sysimg.jl:38; include(fname::String) ╎ ╎ 1 @Base/loading.jl:2794; _include(mapexpr::Function, mod::Module, _pa… ╎ ╎ 1 @Base/loading.jl:2734; include_string(mapexpr::typeof(identity), m… ╎ ╎ 1 @Base/boot.jl:430; eval ╎ ╎ ╎ 1 @Base/process.jl:510; run(::Cmd) ╎ ╎ ╎ 1 @Base/process.jl:513; run(::Cmd; wait::Bool) ╎ ╎ ╎ 1 @Base/process.jl:556; success ╎ ╎ ╎ 1 @Base/process.jl:687; wait ╎ ╎ ╎ 1 @Base/process.jl:694; wait(x::Base.Process, syncd::Bool) ╎ ╎ ╎ ╎ 1 @Base/condition.jl:125; wait ╎ ╎ ╎ ╎ 1 @Base/condition.jl:130; wait(c::Base.GenericCondition{Base… ╎ ╎ ╎ ╎ 1 @Base/task.jl:1021; wait() ╎ ╎ ╎ ╎ 1 @Base/task.jl:1012; poptask(W::Base.IntrusiveLinkedListS… ####### Exact Out-of-Core PCA (BinCOO-Sparse, Julia API) ####### # 1. Column-wise Mean # 2. Out-of-Core Covariance Matrix Calculation # 3. PC Score (Z = XV) is being calculated. # 4. Out-of-Core PC Score Calculation ====================================================================================== 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:522 poptask at ./task.jl:1012 wait at ./task.jl:1021 #wait#733 at ./condition.jl:130 wait at ./condition.jl:125 [inlined] wait at ./process.jl:694 wait at ./process.jl:687 unknown function (ip: 0x738a14b70e12) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 subprocess_handler at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2146 #131 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2086 withenv at ./env.jl:265 #118 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1935 with_temp_env at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1793 #116 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1902 #mktempdir#28 at ./file.jl:819 unknown function (ip: 0x738a14b5d2ad) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 mktempdir at ./file.jl:815 mktempdir at ./file.jl:815 [inlined] #sandbox#115 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1849 [inlined] sandbox at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1841 unknown function (ip: 0x738a14b51836) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 #test#128 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2067 test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2011 [inlined] #test#146 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:481 test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:460 unknown function (ip: 0x738a14b5153d) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 #test#77 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:159 unknown function (ip: 0x738a14b50f2d) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:148 #test#75 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:147 [inlined] test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:147 [inlined] #test#74 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:146 [inlined] test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:146 unknown function (ip: 0x738a14b4d3b6) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 eval_body at /source/src/interpreter.c:539 eval_body at /source/src/interpreter.c:539 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2734 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 _include at ./loading.jl:2794 include at ./Base.jl:562 jfptr_include_47034.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 exec_options at ./client.jl:323 _start at ./client.jl:531 jfptr__start_73694.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] true_main at /source/src/jlapi.c:900 jl_repl_entrypoint at /source/src/jlapi.c:1059 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x738a15dd6249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) unknown function (ip: (nil)) ============================================================== Profile collected. A report will print at the next yield point ============================================================== Progress: 2 Time: 0:00:02 Progress: 6 Time: 0:00:02 # 5. Delayed Centering Correction # 6. Normalize W and Calculate Eigenvalues ####### Exact Out-of-Core PCA (BinCOO-Sparse, Command line) ####### ┌ 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/v1.11/Profile/src/Profile.jl:1240 Overhead ╎ [+additional indent] Count File:Line; Function ========================================================= Thread 1 Task 0x0000738a08800010 Total snapshots: 6. Utilization: 0% ╎6 @Base/client.jl:531; _start() ╎ 6 @Base/client.jl:323; exec_options(opts::Base.JLOptions) ╎ 6 @Base/Base.jl:562; include(mod::Module, _path::String) ╎ 6 @Base/loading.jl:2794; _include(mapexpr::Function, mod::Module, _path::S… ╎ 6 @Base/loading.jl:2734; include_string(mapexpr::typeof(identity), mod::M… ╎ 6 @Base/boot.jl:430; eval ╎ ╎ 6 @Pkg/src/API.jl:146; kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(… ╎ ╎ 6 @Pkg/src/API.jl:146; #test#74 ╎ ╎ 6 @Pkg/src/API.jl:147; test ╎ ╎ 6 @Pkg/src/API.jl:147; #test#75 ╎ ╎ 6 @Pkg/src/API.jl:148; kwcall(::@NamedTuple{julia_args::Cmd}, ::typ… ╎ ╎ ╎ 6 @Pkg/src/API.jl:159; test(pkgs::Vector{Pkg.Types.PackageSpec}; i… ╎ ╎ ╎ 6 @Pkg/src/API.jl:460; kwcall(::@NamedTuple{julia_args::Cmd, io::… ╎ ╎ ╎ 6 @Pkg/src/API.jl:481; test(ctx::Pkg.Types.Context, pkgs::Vector… ╎ ╎ ╎ 6 …/src/Operations.jl:2011; test ╎ ╎ ╎ 6 …src/Operations.jl:2067; test(ctx::Pkg.Types.Context, pkgs::… ╎ ╎ ╎ ╎ 6 …src/Operations.jl:1841; kwcall(::@NamedTuple{preferences::… ╎ ╎ ╎ ╎ 6 …src/Operations.jl:1849; #sandbox#115 ╎ ╎ ╎ ╎ 6 @Base/file.jl:815; mktempdir ╎ ╎ ╎ ╎ 6 @Base/file.jl:815; mktempdir(fn::Function, parent::Strin… ╎ ╎ ╎ ╎ 6 @Base/file.jl:819; mktempdir(fn::Pkg.Operations.var"#11… ╎ ╎ ╎ ╎ ╎ 6 …c/Operations.jl:1902; (::Pkg.Operations.var"#116#121"… ╎ ╎ ╎ ╎ ╎ 6 …c/Operations.jl:1793; with_temp_env(fn::Pkg.Operatio… ╎ ╎ ╎ ╎ ╎ 6 …/Operations.jl:1935; (::Pkg.Operations.var"#118#123… ╎ ╎ ╎ ╎ ╎ 6 @Base/env.jl:265; withenv(::Pkg.Operations.var"#131… ╎ ╎ ╎ ╎ ╎ 6 …Operations.jl:2086; (::Pkg.Operations.var"#131#13… ╎ ╎ ╎ ╎ ╎ ╎ 6 …Operations.jl:2146; subprocess_handler(cmd::Cmd,… ╎ ╎ ╎ ╎ ╎ ╎ 6 …se/process.jl:687; wait(x::Base.Process) ╎ ╎ ╎ ╎ ╎ ╎ 6 …se/process.jl:694; wait(x::Base.Process, syncd… ╎ ╎ ╎ ╎ ╎ ╎ 6 …condition.jl:125; wait ╎ ╎ ╎ ╎ ╎ ╎ 6 …condition.jl:130; wait(c::Base.GenericCondit… ╎ ╎ ╎ ╎ ╎ ╎ ╎ 6 …ase/task.jl:1021; wait() 5╎ ╎ ╎ ╎ ╎ ╎ ╎ 6 …ase/task.jl:1012; poptask(W::Base.Intrusiv… [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:522 [159] signal 15: Terminated in expression starting at /home/pkgeval/.julia/packages/OnlinePCA/UhOUu/test/test_exact_ooc_pca.jl:64 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:522 [522] signal 15: Terminated in expression starting at /home/pkgeval/.julia/packages/OnlinePCA/UhOUu/bin/exact_ooc_pca:1 jl_is_concrete_type at /source/src/julia.h:1716 [inlined] jl_type_equality_is_identity at /source/src/jltypes.c:1309 obviously_unequal at /source/src/subtype.c:461 ijl_types_equal at /source/src/subtype.c:2314 poptask at ./task.jl:1012 poptask at ./task.jl:1012 jl_specializations_get_linfo_ at /source/src/gf.c:222 jl_restore_system_image_from_stream_ at /source/src/staticdata.c:3469 jl_restore_package_image_from_stream at /source/src/staticdata.c:3670 jl_restore_incremental_from_buf at /source/src/staticdata.c:3729 ijl_restore_package_image_from_file at /source/src/staticdata.c:3820 wait at ./task.jl:1021 wait at ./task.jl:1021 #wait#733 at ./condition.jl:130 #wait#733 at ./condition.jl:130 wait at ./condition.jl:125 [inlined] _trywait at ./asyncevent.jl:145 wait at ./condition.jl:125 [inlined] wait at ./process.jl:694 wait at ./process.jl:687 [inlined] success at ./process.jl:556 [inlined] #run#899 at ./process.jl:513 run at ./process.jl:510 unknown function (ip: 0x76f9968d1472) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 #_include_from_serialized#1082 at ./loading.jl:1245 profile_printing_listener at ./Base.jl:582 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 _include_from_serialized at ./loading.jl:1210 [inlined] _include_from_serialized at ./loading.jl:1210 [inlined] #_require_search_from_serialized#1105 at ./loading.jl:2041 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2734 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 #1190 at ./Base.jl:622 _require_search_from_serialized at ./loading.jl:1969 _include at ./loading.jl:2794 include at ./sysimg.jl:38 unknown function (ip: 0x76f996894082) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jfptr_YY.1190_76268.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 jl_apply at /source/src/julia.h:2157 [inlined] start_task at /source/src/task.c:1202 unknown function (ip: (nil)) Allocations: 21495334 (Pool: 21492940; Big: 2394); GC: 25 val already in a list atexit hook threw an error: ErrorException("schedule: Task not runnable") eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2734 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 error at ./error.jl:35 _include at ./loading.jl:2794 include at ./sysimg.jl:38 unknown function (ip: 0x76f996894082) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 #schedule#763 at ./task.jl:884 eval at ./boot.jl:430 [inlined] exec_options at ./client.jl:296 schedule at ./task.jl:876 [inlined] uv_writecb_task at ./stream.jl:1200 _start at ./client.jl:531 jfptr_uv_writecb_task_67144.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jfptr__require_search_from_serialized_45080.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jfptr__start_73694.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jlcapi_uv_writecb_task_67607.1 at /opt/julia/lib/julia/sys.so (unknown line) uv__write_callbacks at /workspace/srcdir/libuv/src/unix/stream.c:926 jl_apply at /source/src/julia.h:2157 [inlined] true_main at /source/src/jlapi.c:900 jl_repl_entrypoint at /source/src/jlapi.c:1059 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x76f997b89249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) unknown function (ip: (nil)) Allocations: 120614068 (Pool: 120611054; Big: 3014); GC: 107 uv__stream_io at /workspace/srcdir/libuv/src/unix/stream.c:1227 uv__run_pending at /workspace/srcdir/libuv/src/unix/core.c:824 uv_run at /workspace/srcdir/libuv/src/unix/core.c:420 ijl_task_get_next at /source/src/scheduler.c:522 _require at ./loading.jl:2527 val already in a list atexit hook threw an error: ErrorException("schedule: Task not runnable") poptask at ./task.jl:1012 __require_prelocked at ./loading.jl:2388 error at ./error.jl:35 wait at ./task.jl:1021 jfptr___require_prelocked_71357.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] jl_f__call_in_world at /source/src/builtins.c:894 #schedule#763 at ./task.jl:884 uv_write at ./stream.jl:1081 #invoke_in_world#3 at ./essentials.jl:1089 [inlined] schedule at ./task.jl:876 [inlined] uv_writecb_task at ./stream.jl:1200 invoke_in_world at ./essentials.jl:1086 [inlined] _require_prelocked at ./loading.jl:2375 unsafe_write at ./stream.jl:1154 macro expansion at ./loading.jl:2314 [inlined] macro expansion at ./lock.jl:273 [inlined] __require at ./loading.jl:2271 jfptr_uv_writecb_task_67144.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 write at ./strings/io.jl:248 [inlined] print at ./strings/io.jl:250 jfptr___require_71288.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] jl_f__call_in_world at /source/src/builtins.c:894 jlcapi_uv_writecb_task_67607.1 at /opt/julia/lib/julia/sys.so (unknown line) uv__write_callbacks at /workspace/srcdir/libuv/src/unix/stream.c:926 uv__stream_io at /workspace/srcdir/libuv/src/unix/stream.c:1227 uv__run_pending at /workspace/srcdir/libuv/src/unix/core.c:824 uv_run at /workspace/srcdir/libuv/src/unix/core.c:420 ijl_task_get_next at /source/src/scheduler.c:522 jfptr_print_48490.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 showerror at ./errorshow.jl:152 unknown function (ip: 0x738a14b73486) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 #invoke_in_world#3 at ./essentials.jl:1089 [inlined] invoke_in_world at ./essentials.jl:1086 [inlined] require at ./loading.jl:2260 poptask at ./task.jl:1012 _atexit at ./initdefs.jl:454 jfptr_require_71285.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] call_require at /source/src/toplevel.c:486 [inlined] eval_import_path at /source/src/toplevel.c:523 jl_toplevel_eval_flex at /source/src/toplevel.c:759 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 wait at ./task.jl:1021 jfptr__atexit_69651.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] ijl_atexit_hook at /source/src/init.c:271 jl_exit_thread0_cb at /source/src/signals-unix.c:517 eval at ./boot.jl:430 [inlined] uv_write at ./stream.jl:1081 include_string at ./loading.jl:2734 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 unsafe_write at ./stream.jl:1154 _include at ./loading.jl:2794 include at ./Base.jl:562 write at ./strings/io.jl:248 [inlined] print at ./strings/io.jl:250 jfptr_include_47034.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jfptr_print_48490.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 showerror at ./errorshow.jl:152 unknown function (ip: 0x76f97e520c06) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 exec_options at ./client.jl:323 _atexit at ./initdefs.jl:454 _start at ./client.jl:531 jfptr__atexit_69651.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] ijl_atexit_hook at /source/src/init.c:271 jl_exit_thread0_cb at /source/src/signals-unix.c:517 PkgEval terminated after 2740.09s: test duration exceeded the time limit