Package evaluation of AbstractGPs on Julia 1.13.0-DEV.873 (be59b3b2f4*) started at 2025-07-17T21:28:43.110 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 9.69s ################################################################################ # Installation # Installing AbstractGPs... Resolving package versions... Updating `~/.julia/environments/v1.13/Project.toml` [99985d1d] + AbstractGPs v0.5.24 Updating `~/.julia/environments/v1.13/Manifest.toml` [99985d1d] + AbstractGPs v0.5.24 [66dad0bd] + AliasTables v1.1.3 [d360d2e6] + ChainRulesCore v1.25.2 [34da2185] + Compat v4.17.0 [a33af91c] + CompositionsBase v0.1.2 [187b0558] + ConstructionBase v1.6.0 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.18.22 [b4f34e82] + Distances v0.10.12 [31c24e10] + Distributions v0.25.120 [ffbed154] + DocStringExtensions v0.9.5 [1a297f60] + FillArrays v1.13.0 [d9f16b24] + Functors v0.5.2 [34004b35] + HypergeometricFunctions v0.3.28 [92d709cd] + IrrationalConstants v0.2.4 [692b3bcd] + JLLWrappers v1.7.0 [ec8451be] + KernelFunctions v0.10.65 [2ab3a3ac] + LogExpFunctions v0.3.29 [1914dd2f] + MacroTools v0.5.16 [e1d29d7a] + Missings v1.2.0 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.35 [aea7be01] + PrecompileTools v1.3.2 [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 [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 [62fd8b95] + TensorCore v0.1.1 [700de1a5] + ZygoteRules v0.2.7 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.12.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [2f01184e] + SparseArrays v1.12.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.5+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [8e850b90] + libblastrampoline_jll v5.13.1+0 Installation completed after 4.49s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 26.24s ################################################################################ # Testing # Testing AbstractGPs Status `/tmp/jl_LBGaPE/Project.toml` [99985d1d] AbstractGPs v0.5.24 [4c88cf16] Aqua v0.8.13 [31c24e10] Distributions v0.25.120 [e30172f5] Documenter v1.14.1 [1a297f60] FillArrays v1.13.0 [26cc04aa] FiniteDifferences v0.12.32 [90014a1f] PDMats v0.11.35 [91a5bcdd] Plots v1.40.17 [10745b16] Statistics v1.11.1 ⌅ [e88e6eb3] Zygote v0.6.77 [37e2e46d] LinearAlgebra v1.12.0 [44cfe95a] Pkg v1.13.0 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_LBGaPE/Manifest.toml` [a4c015fc] ANSIColoredPrinters v0.0.1 [621f4979] AbstractFFTs v1.5.0 [99985d1d] AbstractGPs v0.5.24 [1520ce14] AbstractTrees v0.4.5 [79e6a3ab] Adapt v4.3.0 [66dad0bd] AliasTables v1.1.3 [4c88cf16] Aqua v0.8.13 [a9b6321e] Atomix v1.1.1 [d1d4a3ce] BitFlags v0.1.9 [fa961155] CEnum v0.5.0 [082447d4] ChainRules v1.72.5 [d360d2e6] ChainRulesCore v1.25.2 [944b1d66] 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Testing Running tests... Precompiling packages... 5039.1 ms ✓ ColorVectorSpace 9031.1 ms ✓ ColorSchemes 19024.4 ms ✓ PlotUtils 10134.7 ms ✓ PlotThemes 9115.4 ms ✓ RecipesPipeline 111774.5 ms ✓ Plots 32650.1 ms ✓ Plots → UnitfulExt 7 dependencies successfully precompiled in 198 seconds. 173 already precompiled. Precompiling packages... 2152.9 ms ✓ ColorVectorSpace → SpecialFunctionsExt 1 dependency successfully precompiled in 2 seconds. 19 already precompiled. Precompiling packages... 12924.2 ms ✓ ChainRules 8221.3 ms ✓ KernelAbstractions 9142.5 ms ✓ ForwardDiff 3515.0 ms ✓ KernelAbstractions → SparseArraysExt 2996.0 ms ✓ KernelAbstractions → LinearAlgebraExt 3183.3 ms ✓ StructArrays → StructArraysGPUArraysCoreExt 4582.5 ms ✓ ForwardDiff → ForwardDiffStaticArraysExt 15881.1 ms ✓ GPUArrays 67114.5 ms ✓ Zygote 9 dependencies successfully precompiled in 129 seconds. 96 already precompiled. Precompiling packages... 1939.1 ms ✓ StructArrays → StructArraysStaticArraysExt 1 dependency successfully precompiled in 2 seconds. 19 already precompiled. Precompiling packages... 10314.1 ms ✓ Zygote → ZygoteDistancesExt 1 dependency successfully precompiled in 11 seconds. 109 already precompiled. Precompiling packages... 9285.2 ms ✓ Zygote → ZygoteColorsExt 1 dependency successfully precompiled in 10 seconds. 109 already precompiled. [ Info: Ran util tests [ Info: Ran abstract_gp tests ┌ Warning: implicit `obsdim=2` argument is deprecated and now has to be passed explicitly to specify that each column corresponds to one observation │ caller = _pullback(::Zygote.Context{false}, ::typeof(Core.kwcall), ::@NamedTuple{obsdim::Nothing}, ::typeof(KernelFunctions.vec_of_vecs), ::Matrix{Float64}) at interface2.jl:0 └ @ Core ~/.julia/packages/Zygote/zowwZ/src/compiler/interface2.jl:0 [ Info: Ran gp tests ┌ Warning: `elbo(dtc::DTC, fx, y)` is deprecated, use `_warn_elbo_called_with_DTC(dtc, fx, y)` instead. │ caller = macro expansion at Test.jl:738 [inlined] └ @ Core /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:738 ┌ Warning: `elbo` was called with an object of type `DTC`, but should only be called with the `VFE` type instead └ @ AbstractGPs ~/.julia/packages/AbstractGPs/lWdNB/src/deprecations.jl:12 ┌ Warning: `elbo` was called with an object of type `DTC`, but should only be called with the `VFE` type instead └ @ AbstractGPs ~/.julia/packages/AbstractGPs/lWdNB/src/deprecations.jl:12 [ Info: Ran posterior_gp tests [ Info: Ran latent_gp tests [ Info: Ran deprecation tests ┌ Warning: Unable to determine HTML(edit_link = ...) from remote HEAD branch, defaulting to "master". │ Calling `git remote` failed with an exception. Set JULIA_DEBUG=Documenter to see the error. │ Unless this is due to a configuration error, the relevant variable should be set explicitly. └ @ Documenter ~/.julia/packages/Documenter/eoWm2/src/utilities/utilities.jl:665 [ Info: SetupBuildDirectory: setting up build directory. [ Info: Doctest: running doctests. [ Info: Skipped ExpandTemplates step (doctest only). [ Info: Skipped CrossReferences step (doctest only). [ Info: Skipped CheckDocument step (doctest only). [ Info: Skipped Populate step (doctest only). [ Info: Skipped RenderDocument step (doctest only). Activating project at `~/.julia/packages/AbstractGPs/lWdNB/test/ppl` Resolving package versions... AbstractGPs: Error During Test at /home/pkgeval/.julia/packages/AbstractGPs/lWdNB/test/runtests.jl:41 Got exception outside of a @test SystemError: opening file "/home/pkgeval/.julia/packages/AbstractGPs/lWdNB/test/ppl/Project.toml": Permission denied Stacktrace: [1] systemerror(p::String, errno::Int32; extrainfo::Nothing) @ Base ./error.jl:186 [2] open(fname::String; lock::Bool, read::Nothing, write::Nothing, create::Nothing, truncate::Bool, append::Nothing) @ Base ./iostream.jl:327 [3] open @ ./iostream.jl:306 [inlined] [4] open(fname::String, mode::String; lock::Bool) @ Base ./iostream.jl:390 [5] open(fname::String, mode::String) @ Base ./iostream.jl:389 [6] #open#335 @ ./io.jl:418 [7] open @ ./io.jl:417 [inlined] [8] write @ ./io.jl:499 [inlined] [9] write_project(project::Dict{String, Any}, project_file::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.13/Pkg/src/project.jl:324 [10] write_project @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/project.jl:305 [inlined] [11] write_project @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/project.jl:303 [inlined] [12] write_env(env::Pkg.Types.EnvCache; update_undo::Bool, skip_writing_project::Bool) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Types.jl:1304 [13] write_env @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Types.jl:1266 [inlined] [14] develop(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}, new_git::Set{Base.UUID}; preserve::PreserveLevel, platform::Base.BinaryPlatforms.Platform) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:1940 [15] develop @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:1924 [inlined] [16] develop(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; shared::Bool, preserve::PreserveLevel, platform::Base.BinaryPlatforms.Platform, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:295 [17] develop(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:168 [18] develop(pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:157 [19] develop(pkg::PackageSpec) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:155 [20] top-level scope @ ~/.julia/packages/AbstractGPs/lWdNB/test/runtests.jl:42 [21] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1858 [inlined] [22] macro expansion @ ~/.julia/packages/AbstractGPs/lWdNB/test/runtests.jl:97 [inlined] [23] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [24] top-level scope @ none:6 [25] eval(m::Module, e::Any) @ Core ./boot.jl:489 [26] exec_options(opts::Base.JLOptions) @ Base ./client.jl:286 [27] _start() @ Base ./client.jl:553 Test Summary: | Pass Error Total Time AbstractGPs | 791 1 792 10m35.0s Code quality (Aqua.jl) | 11 11 1m31.5s util | 87 87 2m17.8s abstract_gp | 359 359 2m38.9s gp | 102 102 1m30.4s posterior_gp | 217 217 1m06.1s latent_gp | 8 8 0.7s deprecations | 6 6 0.5s doctests | 1 1 1m14.8s RNG of the outermost testset: Xoshiro(0xa955299f263fbf4c, 0xe41e63dd69613bfd, 0xccafc2b05d3efe53, 0x29ba97dfc437d960, 0x793949c792255c82) ERROR: LoadError: Some tests did not pass: 791 passed, 0 failed, 1 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/AbstractGPs/lWdNB/test/runtests.jl:41 Testing failed after 1052.72s ERROR: LoadError: Package AbstractGPs errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Types.jl:68 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{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/v1.13/Pkg/src/Operations.jl:2661 [3] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2510 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{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/v1.13/Pkg/src/API.jl:537 [5] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:168 [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156 [7] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156 [inlined] [8] #test#81 @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:155 [inlined] [9] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [10] include(mod::Module, _path::String) @ Base ./Base.jl:309 [11] exec_options(opts::Base.JLOptions) @ Base ./client.jl:320 [12] _start() @ Base ./client.jl:553 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 1126.32s: package tests unexpectedly errored