Package evaluation of MetidaBioeq on Julia 1.10.9 (96dc2d8c45*) started at 2025-06-06T22:26:53.737 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 4.07s ################################################################################ # Installation # Installing MetidaBioeq... Resolving package versions... Updating `~/.julia/environments/v1.10/Project.toml` [00e1d80e] + MetidaBioeq v0.2.9 Updating `~/.julia/environments/v1.10/Manifest.toml` [47edcb42] + ADTypes v1.14.0 [79e6a3ab] + Adapt v4.3.0 [66dad0bd] + AliasTables v1.1.3 [4fba245c] + ArrayInterface v7.19.0 [4c555306] + ArrayLayouts v1.11.1 [69666777] + Arrow v2.8.0 [31f734f8] + ArrowTypes v2.3.0 [093aae92] + BSplineKit v0.19.0 [aae01518] + BandedMatrices v1.9.4 [c3b6d118] + BitIntegers v0.3.5 [fa961155] + CEnum v0.5.0 [2a0fbf3d] + CPUSummary v0.2.6 [324d7699] + CategoricalArrays v0.10.8 [5ba52731] + CodecLz4 v0.4.6 [6b39b394] + CodecZstd v0.8.6 [bbf7d656] + CommonSubexpressions v0.3.1 [f70d9fcc] + CommonWorldInvalidations v1.0.0 [34da2185] + Compat v4.16.0 [f0e56b4a] + ConcurrentUtilities v2.5.0 [187b0558] + ConstructionBase v1.5.8 [adafc99b] + CpuId v0.3.1 [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 [85a47980] + Dictionaries v0.4.5 [163ba53b] + DiffResults v1.1.0 [b552c78f] + DiffRules v1.15.1 ⌅ [a0c0ee7d] + DifferentiationInterface v0.6.54 [31c24e10] + Distributions v0.25.120 [ffbed154] + DocStringExtensions v0.9.4 [4e289a0a] + EnumX v1.0.5 [e2ba6199] + ExprTools v0.1.10 [442a2c76] + FastGaussQuadrature v1.0.2 [1a297f60] + FillArrays v1.13.0 [6a86dc24] + FiniteDiff v2.27.0 ⌅ [f6369f11] + ForwardDiff v0.10.38 [38e38edf] + GLM v1.9.0 [34004b35] + HypergeometricFunctions v0.3.28 [615f187c] + IfElse v0.1.1 [313cdc1a] + Indexing v1.1.1 [842dd82b] + InlineStrings v1.4.3 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.0 [0f8b85d8] + JSON3 v1.14.3 [b964fa9f] + LaTeXStrings v1.4.0 [d3d80556] + LineSearches v7.3.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [1914dd2f] + MacroTools v0.5.16 ⌅ [a1dec852] + Metida v0.16.4 [075456b7] + MetidaBase v0.14.1 [00e1d80e] + MetidaBioeq v0.2.9 ⌅ [097c2839] + MetidaNCA 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marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 7.2s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 227.22s ################################################################################ # Testing # Testing MetidaBioeq Status `/tmp/jl_ggHLgW/Project.toml` [336ed68f] CSV v0.10.15 [324d7699] CategoricalArrays v0.10.8 [a93c6f00] DataFrames v1.7.0 [31c24e10] Distributions v0.25.120 [38e38edf] GLM v1.9.0 ⌅ [a1dec852] Metida v0.16.4 [075456b7] MetidaBase v0.14.1 [00e1d80e] MetidaBioeq v0.2.9 ⌅ [097c2839] MetidaNCA v0.5.18 [ff71e718] MixedModels v4.35.2 [2913bbd2] StatsBase v0.34.5 [3eaba693] StatsModels v0.7.4 [8dfed614] Test Status `/tmp/jl_ggHLgW/Manifest.toml` [47edcb42] ADTypes v1.14.0 [79e6a3ab] Adapt v4.3.0 [66dad0bd] AliasTables v1.1.3 [4fba245c] ArrayInterface v7.19.0 [4c555306] ArrayLayouts v1.11.1 [69666777] Arrow v2.8.0 [31f734f8] ArrowTypes v2.3.0 [093aae92] BSplineKit v0.19.0 [aae01518] BandedMatrices v1.9.4 [c3b6d118] BitIntegers v0.3.5 [fa961155] CEnum v0.5.0 [2a0fbf3d] CPUSummary v0.2.6 [336ed68f] CSV v0.10.15 [324d7699] CategoricalArrays 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v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.2+1 [14a3606d] MozillaCACerts_jll v2023.1.10 [4536629a] OpenBLAS_jll v0.3.23+4 [05823500] OpenLibm_jll v0.8.5+0 [bea87d4a] SuiteSparse_jll v7.2.1+1 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.52.0+1 [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... [ Info: autoseq is `true`, but sequence defined - sequence column used [ Info: Dropuot(s) found in dataframe! [ Info: Sequences looks correct... [ Info: Trying to find out the design... [ Info: Seems design type is: 2X2X4 ┌ Warning: x_tol is deprecated. Use x_abstol or x_reltol instead. The provided value (1.0e-10) will be used as x_abstol. └ @ Optim ~/.julia/packages/Optim/8dE7C/src/types.jl:110 ┌ Warning: x_tol is deprecated. Use x_abstol or x_reltol instead. The provided value (1.0e-10) will be used as x_abstol. └ @ Optim ~/.julia/packages/Optim/8dE7C/src/types.jl:110 Minimizing 2 Time: 0:00:00 ( 0.10 s/it) objective: 539.6041230960641   Minimizing 17 Time: 0:00:00 (18.76 ms/it) ┌ Warning: `confint(obj::LinearModel, level::Real)` is deprecated, use `confint(obj, level = level)` instead. │ caller = #confint#87 at statsmodel.jl:28 [inlined] └ @ Core ~/.julia/packages/StatsModels/mPD8T/src/statsmodel.jl:28 ┌ Warning: Method B used, estimator changed to MixedModels.jl! └ @ MetidaBioeq ~/.julia/packages/MetidaBioeq/iXqnI/src/bioequivalence.jl:500 ┌ Warning: Method C used, estimator changed to Metida.jl! └ @ MetidaBioeq ~/.julia/packages/MetidaBioeq/iXqnI/src/bioequivalence.jl:503 ┌ Warning: x_tol is deprecated. Use x_abstol or x_reltol instead. The provided value (1.0e-10) will be used as x_abstol. └ @ Optim ~/.julia/packages/Optim/8dE7C/src/types.jl:110 ┌ Warning: Method C used, estimator changed to Metida.jl! └ @ MetidaBioeq ~/.julia/packages/MetidaBioeq/iXqnI/src/bioequivalence.jl:506 ┌ Warning: x_tol is deprecated. Use x_abstol or x_reltol instead. The provided value (1.0e-10) will be used as x_abstol. └ @ Optim ~/.julia/packages/Optim/8dE7C/src/types.jl:110 ┌ Warning: Method P or unknown, method changed to "B"! └ @ MetidaBioeq ~/.julia/packages/MetidaBioeq/iXqnI/src/bioequivalence.jl:495 ┌ Warning: x_tol is deprecated. Use x_abstol or x_reltol instead. The provided value (1.0e-10) will be used as x_abstol. └ @ Optim ~/.julia/packages/Optim/8dE7C/src/types.jl:110 ┌ Warning: Method P or unknown, method changed to "B"! └ @ MetidaBioeq ~/.julia/packages/MetidaBioeq/iXqnI/src/bioequivalence.jl:495 [ Info: Reference formulation not specified. First used: "R". [ Info: autoseq is `true`, but sequence defined - sequence column used [ Info: No dropuot(s) found in dataframe! [ Info: Sequences looks correct... [ Info: Trying to find out the design... [ Info: Seems design type is: 2X2X2 ┌ Warning: x_tol is deprecated. Use x_abstol or x_reltol instead. The provided value (1.0e-10) will be used as x_abstol. └ @ Optim ~/.julia/packages/Optim/8dE7C/src/types.jl:110 [ Info: Reference formulation not specified. First used: "R". [ Info: Parallel desigh used. ┌ Warning: Method not P (parallel), for parallel simple GLM model will be used! └ @ MetidaBioeq ~/.julia/packages/MetidaBioeq/iXqnI/src/bioequivalence.jl:426 ┌ Warning: Design is parallel, but estimator not GLM, GLM will be used! └ @ MetidaBioeq ~/.julia/packages/MetidaBioeq/iXqnI/src/bioequivalence.jl:425 ┌ Warning: Design is parallel, but estimator not GLM, GLM will be used! └ @ MetidaBioeq ~/.julia/packages/MetidaBioeq/iXqnI/src/bioequivalence.jl:425 [ Info: Reference formulation not specified. First used: "R". [ Info: autoseq is `true`, but sequence defined - sequence column used [ Info: No dropuot(s) found in dataframe! [ Info: Sequences looks correct... [ Info: Design type seems fine... ┌ Warning: x_tol is deprecated. Use x_abstol or x_reltol instead. The provided value (1.0e-10) will be used as x_abstol. └ @ Optim ~/.julia/packages/Optim/8dE7C/src/types.jl:110 ┌ Warning: Method C can't be used with 2X2 design! └ @ MetidaBioeq ~/.julia/packages/MetidaBioeq/iXqnI/src/bioequivalence.jl:444 ┌ Warning: Method B will be used! └ @ MetidaBioeq ~/.julia/packages/MetidaBioeq/iXqnI/src/bioequivalence.jl:450 ┌ Warning: x_tol is deprecated. Use x_abstol or x_reltol instead. The provided value (1.0e-10) will be used as x_abstol. └ @ Optim ~/.julia/packages/Optim/8dE7C/src/types.jl:110 ┌ Warning: Method for parallel design can't be used with 2X2 design! └ @ MetidaBioeq ~/.julia/packages/MetidaBioeq/iXqnI/src/bioequivalence.jl:445 ┌ Warning: Method A will be used! └ @ MetidaBioeq ~/.julia/packages/MetidaBioeq/iXqnI/src/bioequivalence.jl:447 [ Info: No dropuot(s) found in dataframe! [ Info: Sequences looks correct... [ Info: Trying to find out the design... [ Info: Seems design type is: 2X2X2 ┌ Warning: x_tol is deprecated. Use x_abstol or x_reltol instead. The provided value (1.0e-10) will be used as x_abstol. └ @ Optim ~/.julia/packages/Optim/8dE7C/src/types.jl:110 ┌ Warning: x_tol is deprecated. Use x_abstol or x_reltol instead. The provided value (1.0e-10) will be used as x_abstol. └ @ Optim ~/.julia/packages/Optim/8dE7C/src/types.jl:110 Basic test: Test Failed at /source/usr/share/julia/stdlib/v1.10/Test/src/Test.jl:903 Expression: isempty(stderr_content) Evaluated: isempty("┌ Warning: x_tol is deprecated. Use x_abstol or x_reltol instead. The provided value (1.0e-10) will be used as x_abstol.\n└ @ Optim ~/.julia/packages/Optim/8dE7C/src/types.jl:110\n┌ Warning: x_tol is deprecated. Use x_abstol or x_reltol instead. The provided value (1.0e-10) will be used as x_abstol.\n└ @ Optim ~/.julia/packages/Optim/8dE7C/src/types.jl:110\n") Stacktrace: [1] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:672 [inlined] [2] macro expansion @ ~/.julia/packages/MetidaBioeq/iXqnI/test/tests.jl:176 [inlined] [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [4] top-level scope @ ~/.julia/packages/MetidaBioeq/iXqnI/test/tests.jl:30 [ Info: autoseq is `true`, but sequence defined - sequence column used [ Info: Dropuot(s) found in dataframe! [ Info: Sequences looks correct... [ Info: Trying to find out the design... [ Info: Seems design type is: 2X2X2 [ Info: autoseq is `true`, but sequence defined - sequence column used [ Info: Dropuot(s) found in dataframe! [ Info: Dropuot(s) removed! [ Info: Sequences looks correct... [ Info: Trying to find out the design... [ Info: Seems design type is: 2X2X2 Test Summary: | Pass Fail Total Time Basic test | 61 1 62 2m57.5s ERROR: LoadError: Some tests did not pass: 61 passed, 1 failed, 0 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/MetidaBioeq/iXqnI/test/tests.jl:28 in expression starting at /home/pkgeval/.julia/packages/MetidaBioeq/iXqnI/test/runtests.jl:3 Testing failed after 243.3s ERROR: LoadError: Package MetidaBioeq errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Types.jl:70 [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/v1.10/Pkg/src/Operations.jl:2034 [3] test @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1915 [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::Base.PipeEndpoint}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:444 [5] test(pkgs::Vector{Pkg.Types.PackageSpec}; io::Base.PipeEndpoint, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:159 [6] test @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:147 [inlined] [7] #test#74 @ /opt/julia/share/julia/stdlib/v1.10/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 512.87s: package has test failures