Package evaluation of HurdleDMR on Julia 1.11.4 (a71dd056e0*) started at 2025-04-08T15:15:58.670 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.73s ################################################################################ # Installation # Installing HurdleDMR... Resolving package versions... Updating `~/.julia/environments/v1.11/Project.toml` [f9e53bcf] + HurdleDMR v1.4.0 Updating `~/.julia/environments/v1.11/Manifest.toml` [621f4979] + AbstractFFTs v1.5.0 [66dad0bd] + AliasTables v1.1.3 [34da2185] + Compat v4.16.0 [187b0558] + ConstructionBase v1.5.8 ⌅ [717857b8] + DSP v0.7.10 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [31c24e10] + Distributions v0.25.118 [ffbed154] + DocStringExtensions v0.9.4 [7a1cc6ca] + FFTW v1.8.1 [1a297f60] + FillArrays v1.13.0 [38e38edf] + GLM v1.9.0 [f9e53bcf] + HurdleDMR v1.4.0 [34004b35] + HypergeometricFunctions v0.3.28 [92d709cd] + IrrationalConstants v0.2.4 [c8e1da08] + IterTools v1.10.0 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.0 ⌅ [984bce1d] + LambertW v0.4.6 [b4fcebef] + Lasso v0.7.2 [2ab3a3ac] + LogExpFunctions v0.3.29 [e6f89c97] + LoggingExtras v1.1.0 [f0e99cf1] + MLBase v0.9.2 [1914dd2f] + MacroTools v0.5.15 [e1d29d7a] + Missings v1.2.0 [bac558e1] + OrderedCollections v1.8.0 [90014a1f] + PDMats v0.11.33 [f27b6e38] + Polynomials v4.0.19 ⌅ [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.4.3 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [3cdcf5f2] + RecipesBase v1.3.4 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [79098fc4] + Rmath v0.8.0 [efcf1570] + Setfield v1.1.2 [1277b4bf] + ShiftedArrays v2.0.0 [a2af1166] + SortingAlgorithms v1.2.1 [276daf66] + SpecialFunctions v2.5.0 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.0 [2913bbd2] + StatsBase v0.34.4 [4c63d2b9] + StatsFuns v1.4.0 [3eaba693] + StatsModels v0.7.4 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.0 [f5851436] + FFTW_jll v3.3.11+0 [1d5cc7b8] + IntelOpenMP_jll v2025.0.4+0 [856f044c] + MKL_jll v2025.0.1+1 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [1317d2d5] + oneTBB_jll v2022.0.0+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 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.11.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [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 4.43s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 29.21s ################################################################################ # Testing # Testing HurdleDMR Status `/tmp/jl_J4CdvE/Project.toml` [336ed68f] CSV v0.10.15 [324d7699] CategoricalArrays v0.10.8 [a93c6f00] DataFrames v1.7.0 [31c24e10] Distributions v0.25.118 [38e38edf] GLM v1.9.0 [f9e53bcf] HurdleDMR v1.4.0 ⌅ [984bce1d] LambertW v0.4.6 [b4fcebef] Lasso v0.7.2 [e6f89c97] LoggingExtras v1.1.0 [f0e99cf1] MLBase v0.9.2 [e1d29d7a] Missings v1.2.0 [2913bbd2] StatsBase v0.34.4 [3eaba693] StatsModels v0.7.4 [bd369af6] Tables v1.12.0 [8ba89e20] Distributed v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [37e2e46d] LinearAlgebra v1.11.0 [56ddb016] Logging v1.11.0 [9a3f8284] Random v1.11.0 [1a1011a3] SharedArrays v1.11.0 [2f01184e] SparseArrays v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_J4CdvE/Manifest.toml` [621f4979] AbstractFFTs v1.5.0 [66dad0bd] AliasTables v1.1.3 [336ed68f] CSV v0.10.15 [324d7699] CategoricalArrays v0.10.8 [944b1d66] CodecZlib v0.7.8 [34da2185] Compat v4.16.0 [187b0558] ConstructionBase v1.5.8 [a8cc5b0e] Crayons v4.1.1 ⌅ [717857b8] DSP v0.7.10 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.7.0 [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [31c24e10] Distributions v0.25.118 [ffbed154] DocStringExtensions v0.9.4 [7a1cc6ca] FFTW v1.8.1 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.13.0 [38e38edf] GLM v1.9.0 [f9e53bcf] HurdleDMR v1.4.0 [34004b35] HypergeometricFunctions v0.3.28 [842dd82b] InlineStrings v1.4.3 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.4 [c8e1da08] IterTools v1.10.0 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.0 [b964fa9f] LaTeXStrings v1.4.0 ⌅ [984bce1d] LambertW v0.4.6 [b4fcebef] Lasso v0.7.2 [2ab3a3ac] LogExpFunctions v0.3.29 [e6f89c97] LoggingExtras v1.1.0 [f0e99cf1] MLBase v0.9.2 [1914dd2f] MacroTools v0.5.15 [e1d29d7a] Missings v1.2.0 [bac558e1] OrderedCollections v1.8.0 [90014a1f] PDMats v0.11.33 [69de0a69] Parsers v2.8.1 [f27b6e38] Polynomials v4.0.19 [2dfb63ee] PooledArrays v1.4.3 ⌅ [aea7be01] PrecompileTools v1.2.1 [21216c6a] Preferences v1.4.3 [08abe8d2] PrettyTables v2.4.0 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [3cdcf5f2] RecipesBase v1.3.4 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [79098fc4] Rmath v0.8.0 [91c51154] SentinelArrays v1.4.8 [efcf1570] Setfield v1.1.2 [1277b4bf] ShiftedArrays v2.0.0 [a2af1166] SortingAlgorithms v1.2.1 [276daf66] SpecialFunctions v2.5.0 [1e83bf80] StaticArraysCore v1.4.3 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.0 [2913bbd2] StatsBase v0.34.4 [4c63d2b9] StatsFuns v1.4.0 [3eaba693] StatsModels v0.7.4 [892a3eda] StringManipulation v0.4.1 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.0 [3bb67fe8] TranscodingStreams v0.11.3 [ea10d353] WeakRefStrings v1.4.2 [76eceee3] WorkerUtilities v1.6.1 [f5851436] FFTW_jll v3.3.11+0 [1d5cc7b8] IntelOpenMP_jll v2025.0.4+0 [856f044c] MKL_jll v2025.0.1+1 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [1317d2d5] oneTBB_jll v2022.0.0+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 [1a1011a3] SharedArrays v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.11.0 [f489334b] StyledStrings v1.11.0 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] LibCURL_jll v8.6.0+0 [e37daf67] LibGit2_jll v1.7.2+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.6+0 [14a3606d] MozillaCACerts_jll v2023.12.12 [4536629a] OpenBLAS_jll v0.3.27+1 [05823500] OpenLibm_jll v0.8.5+0 [bea87d4a] SuiteSparse_jll v7.7.0+0 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.59.0+0 [3f19e933] p7zip_jll v17.4.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... Precompiling GLM... 6968.0 ms ✓ StatsModels 8284.3 ms ✓ GLM 2 dependencies successfully precompiled in 17 seconds. 53 already precompiled. Precompiling Lasso... 2781.3 ms ✓ MLBase 12500.3 ms ✓ Lasso 2 dependencies successfully precompiled in 17 seconds. 92 already precompiled. Precompiling CategoricalArraysRecipesBaseExt... 2100.5 ms ✓ CategoricalArrays → CategoricalArraysRecipesBaseExt 1 dependency successfully precompiled in 2 seconds. 14 already precompiled. [ Info: Starting 4 parallel workers for tests... [ Info: 4 parallel workers started Precompiling HurdleDMR... 6260.4 ms ✓ HurdleDMR 1 dependency successfully precompiled in 11 seconds. 99 already precompiled. [ Info: Testing hurdle degenerate cases. The following warnings about step-halving are expected ... 1: λ=0.00038673257138011573, pct_dev=6.492077396003104e-6 2: λ=0.0003523763156183366, pct_dev=0.004137275736295076 step-halving because obj=0.004873710484356223 > 0.004873710484276498 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 3: λ=0.0003210721749286252, pct_dev=0.007781659125528639 4: λ=0.0002925490078199604, pct_dev=0.011000893859096417 5: λ=0.0002665597602640868, pct_dev=0.01384672460768055 step-halving because obj=0.004859664113354906 > 0.004859664113334481 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 6: λ=0.00024287932583170972, pct_dev=0.016363288434031453 7: λ=0.00022130259592829243, pct_dev=0.018588564380618844 8: λ=0.00020164268324153527, pct_dev=0.020555494036668898 step-halving because obj=0.00484058929094665 > 0.004840589290904885 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 9: λ=0.00018372930301288008, pct_dev=0.022292855736463668 step-halving because obj=0.004833835609117975 > 0.004833835609018443 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 10: λ=0.00016740729811239358, pct_dev=0.023825953109334774 11: λ=0.0001525352951419358, pct_dev=0.02517716077049348 step-halving because obj=0.004820334385601045 > 0.004820334385522395 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 12: λ=0.00013898447992641573, pct_dev=0.02636636031448425 step-halving because obj=0.004813724666667698 > 0.004813724666575518 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 13: λ=0.000126637481787031, pct_dev=0.02741129008642673 14: λ=0.00011538735693259619, pct_dev=0.028327827589144983 15: λ=0.00010513666216358598, pct_dev=0.029130219623041742 step-halving because obj=0.004795017639267127 > 0.004795017639083698 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 16: λ=9.57966108657562e-5, pct_dev=0.02983127028032362 17: λ=8.728630398296539e-5, pct_dev=0.03044249700363011 18: λ=7.953202930825311e-5, pct_dev=0.03097426120257829 step-halving because obj=0.004778528110542374 > 0.004778528110423469 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 19: λ=7.246662302396587e-5, pct_dev=0.03143587922143365 20: λ=6.602888796089887e-5, pct_dev=0.031835717977692024 21: λ=6.0163063537693424e-5, pct_dev=0.03218127933983761 step-halving because obj=0.004764518494766554 > 0.0047645184947269015 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 22: λ=5.481834278935611e-5, pct_dev=0.032479275647204875 step-halving because obj=0.004760395795543883 > 0.004760395795365394 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 23: λ=4.994843230163334e-5, pct_dev=0.03273569750375982 step-halving because obj=0.0047565364006500735 > 0.004756536400600615 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 24: λ=4.551115123960414e-5, pct_dev=0.03295587686494039 step-halving because obj=0.004752931559240314 > 0.00475293155913302 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 25: λ=4.146806599746662e-5, pct_dev=0.033144545690594995 step-halving because obj=0.004749571370493423 > 0.004749571370273698 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 26: λ=3.778415730503067e-5, pct_dev=0.03330588963688408 step-halving because obj=0.004746445110526839 > 0.004746445110176589 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 27: λ=3.442751690755292e-5, pct_dev=0.03344359959274301 28: λ=3.136907119169851e-5, pct_dev=0.033560919438967995 29: λ=2.858232936381104e-5, pct_dev=0.03366069158233009 30: λ=2.6043153999330735e-5, pct_dev=0.033745397171997316 31: λ=2.3729551975970305e-5, pct_dev=0.03381719632045577 32: λ=2.162148397981088e-5, pct_dev=0.033877963206124684 33: λ=1.970069093435137e-5, pct_dev=0.03392931957151202 34: λ=1.7950535849123017e-5, pct_dev=0.03397266455840098 35: λ=1.635585971803684e-5, pct_dev=0.03400920183984424 36: λ=1.4902850219324749e-5, pct_dev=0.03403996427853195 step-halving because obj=0.004725537513849674 > 0.004725537513634887 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 37: λ=1.3578922079816255e-5, pct_dev=0.03406583602879121 38: λ=1.2372608067322866e-5, pct_dev=0.03408757253590611 39: λ=1.1273459666958633e-5, pct_dev=0.03410581714275296 step-halving because obj=0.004721965461444661 > 0.004721965461206611 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 40: λ=1.0271956581102827e-5, pct_dev=0.034121117332138184 step-halving because obj=0.004720966447671709 > 0.00472096644702147 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 41: λ=9.359424269136302e-6, pct_dev=0.03413393781573515 step-halving because obj=0.004720051136301409 > 0.004720051135960075 + 5.348152476436496e-15 = length(scratchmu)*eps(objold) 42: λ=8.527958812720426e-6, pct_dev=0.034144672329013304 Iteration: 1, deviance: 204.03803961035834, diff.dev.:284.05429274207955 Iteration: 2, deviance: 103.01893015603085, diff.dev.:101.01910945432749 Iteration: 3, deviance: 69.83490468997287, diff.dev.:33.184025466057975 Iteration: 4, deviance: 60.60747250524524, diff.dev.:9.227432184727633 Iteration: 5, deviance: 58.582063189783575, diff.dev.:2.0254093154616655 Iteration: 6, deviance: 58.15370098772976, diff.dev.:0.4283622020538118 Iteration: 7, deviance: 58.09051068832265, diff.dev.:0.06319029940711118 Iteration: 8, deviance: 58.08834853496279, diff.dev.:0.002162153359861918 Iteration: 9, deviance: 58.08834523345644, diff.dev.:3.301506353636796e-6 hurdle degenerate cases: Log Test Failed at /home/pkgeval/.julia/packages/HurdleDMR/i6kx1/test/hurdle.jl:372 Expression: fit(Hurdle, GammaLassoPath, X, y; showwarnings = true) Log Pattern: (:warn, r"not enough variation in ypos") Captured Logs: Stacktrace: [1] record(ts::Test.DefaultTestSet, t::Test.LogTestFailure) @ Test /opt/julia/share/julia/stdlib/v1.11/Test/src/logging.jl:166 [2] macro expansion @ ~/.julia/packages/HurdleDMR/i6kx1/test/hurdle.jl:372 [inlined] [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:1704 [inlined] [4] top-level scope @ ~/.julia/packages/HurdleDMR/i6kx1/test/hurdle.jl:331 hurdle degenerate cases: Test Failed at /home/pkgeval/.julia/packages/HurdleDMR/i6kx1/test/hurdle.jl:374 Expression: ≈(vec(coefsJ), [0.0, 0.0, -5.30128195796556, 0.1854148891565171], rtol = 0.0001) Evaluated: sparsevec([1, 3, 4], [-3.486329211429658, -5.301295689479863, 0.18541813271450003], 4) ≈ [0.0, 0.0, -5.30128195796556, 0.1854148891565171] (rtol=0.0001) Stacktrace: [1] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:679 [inlined] [2] macro expansion @ ~/.julia/packages/HurdleDMR/i6kx1/test/hurdle.jl:374 [inlined] [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:1704 [inlined] [4] top-level scope @ ~/.julia/packages/HurdleDMR/i6kx1/test/hurdle.jl:331 hurdle degenerate cases: Test Failed at /home/pkgeval/.julia/packages/HurdleDMR/i6kx1/test/hurdle.jl:377 Expression: coefsJpos == zero(coefsJpos) Evaluated: sparse([1, 1, 2, 1, 2, 1, 2, 1, 2, 1 … 1, 2, 1, 2, 1, 2, 1, 2, 1, 2], [1, 2, 2, 3, 3, 4, 4, 5, 5, 6 … 24, 24, 25, 25, 26, 26, 27, 27, 28, 28], [-3.486329211429658, -3.385693308928041, -0.02367949549647075, -3.2968717861771584, -0.04468947895724217, -3.218172524197137, -0.06339517288019034, -3.1482100580771, -0.08009788283725426, -3.0858366706016147 … -2.60954299659566, -0.21127925964335903, -2.600491876240558, -0.21352634770542803, -2.5922665278859007, -0.21556976011779894, -2.5847897909088666, -0.2174283036782477, -2.577992034214524, -0.21911898716285907], 2, 28) == sparse(Int64[], Int64[], Float64[], 2, 28) Stacktrace: [1] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:679 [inlined] [2] macro expansion @ ~/.julia/packages/HurdleDMR/i6kx1/test/hurdle.jl:377 [inlined] [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.11/Test/src/Test.jl:1704 [inlined] [4] top-level scope @ ~/.julia/packages/HurdleDMR/i6kx1/test/hurdle.jl:331 1: λ=0.00038674044876033174, pct_dev=5.408929668049289e-6 2: λ=0.00035238349319380514, pct_dev=0.004046376329987278 3: λ=0.0003210787148680711, pct_dev=0.007611478289575646 4: λ=0.0002925549667692108, pct_dev=0.010760649203056305 5: λ=0.0002665651898367098, pct_dev=0.013544519504357977 6: λ=0.00024288427305606497, pct_dev=0.01600627430427981 7: λ=0.0002213071036548711, pct_dev=0.018183072505615683 8: λ=0.00020164679051410886, pct_dev=0.020107143270952532 9: λ=0.000183733045406678, pct_dev=0.02180664182506864 10: λ=0.00016741070804224097, pct_dev=0.02330632318576442 11: λ=0.00015253840214301398, pct_dev=0.02462807646590437 12: λ=0.0001389873109100814, pct_dev=0.0257913513302247 13: λ=0.0001266400612739101, pct_dev=0.02681350039988284 14: λ=0.0001153897072649705, pct_dev=0.02771005582004893 15: λ=0.00010513880369890995, pct_dev=0.02849495413713743 16: λ=9.579856215298414e-5, pct_dev=0.029180720603384058 17: λ=8.728808192321398e-5, pct_dev=0.029778621716848974 18: λ=7.953364930119035e-5, pct_dev=0.03029879300332572 19: λ=7.246809910119532e-5, pct_dev=0.030750347604278083 20: λ=6.60302329074955e-5, pct_dev=0.03114147006152479 21: λ=6.016428900294135e-5, pct_dev=0.031479498718957166 22: λ=5.481945938764883e-5, pct_dev=0.03177099935996219 23: λ=4.994944970441121e-5, pct_dev=0.03202183203740949 24: λ=4.5512078259123385e-5, pct_dev=0.03223721251054101 25: λ=4.146891066312668e-5, pct_dev=0.032421769277770074 26: λ=3.778492693292148e-5, pct_dev=0.0325795968587862 27: λ=3.442821816382316e-5, pct_dev=0.03271430573293421 28: λ=3.136971015029444e-5, pct_dev=0.03282906890544568 29: λ=2.8582911559086306e-5, pct_dev=0.03292666687415846 30: λ=2.604368447398234e-5, pct_dev=0.03300952668132995 31: λ=2.3730035324715953e-5, pct_dev=0.03307976125086942 32: λ=2.1621924389186096e-5, pct_dev=0.0331392040936499 33: λ=1.9701092218971507e-5, pct_dev=0.033189441530380503 34: λ=1.795090148472352e-5, pct_dev=0.033231842104257336 35: λ=1.63561928715783e-5, pct_dev=0.03326758326625212 36: λ=1.4903153776423796e-5, pct_dev=0.0332976754390627 37: λ=1.3579198669739283e-5, pct_dev=0.033322983590565736 38: λ=1.2372860085759425e-5, pct_dev=0.033344246466075256 39: λ=1.127368929677188e-5, pct_dev=0.03336209364138376 40: λ=1.027216581123637e-5, pct_dev=0.033377060567131966 41: λ=9.359614911841426e-6, pct_dev=0.03338960177820571 42: λ=8.528132519253062e-6, pct_dev=0.033400102439516854 Iteration: 1, deviance: 202.88392988622184, diff.dev.:283.3306289536344 Iteration: 2, deviance: 103.34453979599401, diff.dev.:99.53939009022783 Iteration: 3, deviance: 70.86056777142231, diff.dev.:32.4839720245717 Iteration: 4, deviance: 61.882395743805034, diff.dev.:8.978172027617276 Iteration: 5, deviance: 59.91832501231315, diff.dev.:1.964070731491887 Iteration: 6, deviance: 59.50191184255864, diff.dev.:0.41641316975450593 Iteration: 7, deviance: 59.441417118304805, diff.dev.:0.06049472425383584 Iteration: 8, deviance: 59.43942365499244, diff.dev.:0.0019934633123668277 Iteration: 9, deviance: 59.43942083864344, diff.dev.:2.8163489957933052e-6 [ Info: Testing dmr degenerate cases. The 2 following warnings by workers are expected ... From worker 3: ┌ Warning: fitgl! failed on count dimension 2 with frequencies [0=>200] and will return zero coefs (ErrorException("IRLS failed to converge in 30 iterations at λ = 4.3709033880452197e-7")) From worker 3: └ @ HurdleDMR ~/.julia/packages/HurdleDMR/i6kx1/src/dmr.jl:412 From worker 3: ┌ Warning: fitgl failed for countsj with frequencies [0=>200] and will return missing path (ErrorException("IRLS failed to converge in 30 iterations at λ = 4.3709033880452197e-7")) From worker 3: └ @ HurdleDMR ~/.julia/packages/HurdleDMR/i6kx1/src/dmr.jl:375 WARNING: using deprecated binding Distributions.MatrixReshaped in Lasso. , use Distributions.ReshapedDistribution{2, S, D} where D<:Distributions.Distribution{Distributions.ArrayLikeVariate{1}, S} where S<:Distributions.ValueSupport instead. [ Info: Testing hdmr degenerate cases. The 2 following warnings by workers are expected ... From worker 3: ┌ Warning: hurdle_regression! failed on count dimension 2 with frequencies [0=>200] and will return zero coefs (ErrorException("y is all zeros! There is nothing to explain.")) From worker 3: └ @ HurdleDMR ~/.julia/packages/HurdleDMR/i6kx1/src/hdmr.jl:456 From worker 3: ┌ Warning: fit(InclusionRepetition...) failed for countsj with frequencies [0=>200] and will return missing path (ErrorException("y is all zeros! There is nothing to explain.")) From worker 3: └ @ HurdleDMR ~/.julia/packages/HurdleDMR/i6kx1/src/hdmr.jl:332 [ Info: Testing hdmr degenerate cases. The 2 following warnings by workers are expected ... From worker 3: ┌ Warning: hurdle_regression! failed on count dimension 2 with frequencies [0=>200] and will return zero coefs (ErrorException("y is all zeros! There is nothing to explain.")) From worker 3: └ @ HurdleDMR ~/.julia/packages/HurdleDMR/i6kx1/src/hdmr.jl:456 From worker 3: ┌ Warning: fit(Hurdle...) failed for countsj with frequencies [0=>200] and will return missing path (ErrorException("y is all zeros! There is nothing to explain.")) From worker 3: └ @ HurdleDMR ~/.julia/packages/HurdleDMR/i6kx1/src/hdmr.jl:332 Test Summary: | Pass Fail Total Time HurdleDMR | 1762 3 1765 15m26.6s PositivePoisson | 37 37 1m45.8s hurdle with Xpos == Xzero | 29 29 1m43.3s hurdle with Xpos ≠ Xzero | 21 21 10.7s hurdle with Xpos ≠ Xzero AND offset specified | 21 21 6.8s hurdle degenerate cases | 28 3 31 33.6s inrep with Xpos == Xzero | 29 29 15.2s inrep with Xpos ≠ Xzero | 21 21 2.2s inrep with Xpos ≠ Xzero AND offset specified | 21 21 1.1s inrep degenerate cases | 30 30 3.7s helpers | 87 87 30.6s logging | 2 2 1.0s dmr | 97 97 6m08.6s dmr degenerate cases | 19 19 10.2s hdmr | 1314 1314 3m25.5s mcdmr | 6 6 0.0s ERROR: LoadError: Some tests did not pass: 1762 passed, 3 failed, 0 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/HurdleDMR/i6kx1/test/runtests.jl:10 Testing failed after 817.91s ERROR: LoadError: Package HurdleDMR errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Types.jl:68 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2124 [3] test @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2007 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:481 [5] test(pkgs::Vector{Pkg.Types.PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:159 [6] test @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:147 [inlined] [7] #test#74 @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:146 [inlined] [8] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 1169.53s: package has test failures