Package evaluation to test DiscoveryGraph on Julia 1.12.7-DEV.42 (6f510b6086*) started at 2026-06-20T00:44:40.749 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.12` Set-up completed after 7.64s ################################################################################ # Installation # Installing DiscoveryGraph... Resolving package versions... Updating `~/.julia/environments/v1.12/Project.toml` [6c26c9e7] + DiscoveryGraph v0.3.0 Updating `~/.julia/environments/v1.12/Manifest.toml` [66dad0bd] + AliasTables v1.1.3 [dce04be8] + ArgCheck v2.5.0 [ec485272] + ArnoldiMethod v0.4.0 [69666777] + Arrow v2.8.1 [31f734f8] + ArrowTypes v2.3.0 [c3b6d118] + BitIntegers v0.3.7 [6309b1aa] + CodecInflate64 v0.1.3 [5ba52731] + CodecLz4 v0.4.6 [944b1d66] + CodecZlib v0.7.8 [6b39b394] + CodecZstd v0.8.7 [34da2185] + Compat v4.18.1 [f0e56b4a] + ConcurrentUtilities v2.5.1 [992eb4ea] + CondaPkg v0.2.36 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.8.2 [864edb3b] + DataStructures v0.19.5 [e2d170a0] + DataValueInterfaces v1.0.0 [6c26c9e7] + DiscoveryGraph v0.3.0 [ffbed154] + DocStringExtensions v0.9.5 [4e289a0a] + EnumX v1.0.7 [e2ba6199] + ExprTools v0.1.10 [8f5d6c58] + EzXML v1.2.3 [86223c79] + Graphs v1.14.0 [d25df0c9] + Inflate v0.1.5 [842dd82b] + InlineStrings v1.4.5 [0c81fc1b] + InputBuffers v1.1.1 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.6 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.8.0 [682c06a0] + JSON v1.6.1 [b964fa9f] + LaTeXStrings v1.4.0 [2ab3a3ac] + LogExpFunctions v1.0.1 [1914dd2f] + MacroTools v0.5.16 [0b3b1443] + MicroMamba v0.1.15 [e1d29d7a] + Missings v1.2.0 [78c3b35d] + Mocking v0.8.1 ⌅ [bac558e1] + OrderedCollections v1.8.2 [69de0a69] + Parsers v2.8.6 [fa939f87] + Pidfile v1.3.0 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.3.4 [21216c6a] + Preferences v1.5.2 [08abe8d2] + PrettyTables v3.3.2 [43287f4e] + PtrArrays v1.4.0 [6099a3de] + PythonCall v0.9.35 [189a3867] + Reexport v1.2.2 [6c6a2e73] + Scratch v1.3.0 [91c51154] + SentinelArrays v1.4.10 [699a6c99] + SimpleTraits v0.9.6 [47aef6b3] + SimpleWeightedGraphs v1.5.1 [a2af1166] + SortingAlgorithms v1.2.2 [90137ffa] + StaticArrays v1.9.18 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.8.0 [2913bbd2] + StatsBase v0.34.12 [892a3eda] + StringManipulation v0.4.4 ⌅ [354b36f9] + StringViews v1.3.7 [ec057cc2] + StructUtils v2.8.2 [dc5dba14] + TZJData v1.5.0+2025b [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [f269a46b] + TimeZones v1.22.2 [3bb67fe8] + TranscodingStreams v0.11.3 [e17b2a0c] + UnsafePointers v1.0.0 ⌅ [fdbf4ff8] + XLSX v0.10.4 [49080126] + ZipArchives v2.6.0 [a5390f91] + ZipFile v0.10.1 [94ce4f54] + Libiconv_jll v1.18.0+0 [5ced341a] + Lz4_jll v1.10.1+0 [02c8fc9c] + XML2_jll v2.15.3+0 [3161d3a3] + Zstd_jll v1.5.7+1 [f8abcde7] + micromamba_jll v2.3.1+0 [4d7b5844] + pixi_jll v0.63.2+0 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [f43a241f] + Downloads v1.7.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.12.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.12.1 [de0858da] + Printf v1.11.0 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.12.0 [f489334b] + StyledStrings v1.11.0 [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.15.0+0 [e37daf67] + LibGit2_jll v1.9.0+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.11.4 [4536629a] + OpenBLAS_jll v0.3.29+0 [458c3c95] + OpenSSL_jll v3.5.6+0 [bea87d4a] + SuiteSparse_jll v7.8.3+2 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.15.0+0 [8e850ede] + nghttp2_jll v1.64.0+1 [3f19e933] + p7zip_jll v17.7.0+0 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 6.26s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... ┌ Warning: Could not use exact versions of packages in manifest, re-resolving └ @ TestEnv ~/.julia/packages/TestEnv/RUPmD/src/julia-1.12/activate_set.jl:78 ┌ Error: Failed to use TestEnv.jl; test dependencies will not be precompiled │ exception = │ expected package `Test [8dfed614]` to be registered │ Stacktrace: │ [1] pkgerror(msg::String) │ @ Pkg.Types /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Types.jl:68 │ [2] check_registered(registries::Vector{Pkg.Registry.RegistryInstance}, pkgs::Vector{PackageSpec}) │ @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:1672 │ [3] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}, level::UpgradeLevel; skip_writing_project::Bool, preserve::Nothing) │ @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:1999 │ [4] up │ @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:1977 [inlined] │ [5] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; level::UpgradeLevel, mode::PackageMode, preserve::Nothing, update_registry::Bool, skip_writing_project::Bool, workspace::Bool, kwargs::@Kwargs{io::Base.DevNull}) │ @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:450 │ [6] up │ @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:419 [inlined] │ [7] up │ @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:174 [inlined] │ [8] #resolve#171 │ @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:456 [inlined] │ [9] resolve │ @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:455 [inlined] │ [10] activate(pkg::String; allow_reresolve::Bool) │ @ TestEnv ~/.julia/packages/TestEnv/RUPmD/src/julia-1.12/activate_set.jl:83 │ [11] activate(pkg::String) │ @ TestEnv ~/.julia/packages/TestEnv/RUPmD/src/julia-1.12/activate_set.jl:9 │ [12] (::var"#10#11")() │ @ Main /PkgEval.jl/scripts/precompile.jl:21 │ [13] capture_pkg_output(f::var"#10#11"; suppress::Bool) │ @ Main /PkgEval.jl/scripts/common.jl:55 │ [14] suppress_pkg_output(f::Function) │ @ Main /PkgEval.jl/scripts/common.jl:35 │ [15] top-level scope │ @ /PkgEval.jl/scripts/precompile.jl:19 │ [16] include(mod::Module, _path::String) │ @ Base ./Base.jl:306 │ [17] exec_options(opts::Base.JLOptions) │ @ Base ./client.jl:317 │ [18] _start() │ @ Base ./client.jl:550 └ @ Main /PkgEval.jl/scripts/precompile.jl:24 Activating project at `~/.julia/environments/v1.12` Precompiling package dependencies... Precompiling packages... 127971.9 ms ✓ DiscoveryGraph 1 dependency successfully precompiled in 132 seconds. 119 already precompiled. 24 dependencies precompiled but different versions are currently loaded (ArgTools, Base64, Dates, Downloads, JuliaSyntaxHighlighting, LibCURL, LibCURL_jll, LibGit2, LibGit2_jll, LibSSH2_jll, Logging, Markdown, MozillaCACerts_jll, NetworkOptions, OpenSSL_jll, Pkg, Printf, StyledStrings, TOML, Tar, UUIDs, Zlib_jll, nghttp2_jll and p7zip_jll). Restart julia to access the new versions. Otherwise, 52 dependents of these packages may trigger further precompilation to work with the unexpected versions. 1 dependency had output during precompilation: ┌ DiscoveryGraph │ CondaPkg Found dependencies: /home/pkgeval/.julia/packages/PythonCall/5WGSP/CondaPkg.toml │ CondaPkg Found dependencies: /home/pkgeval/.julia/packages/DiscoveryGraph/lusKv/CondaPkg.toml │ CondaPkg Found dependencies: /home/pkgeval/.julia/packages/CondaPkg/lKlVY/CondaPkg.toml │ CondaPkg Resolving changes │ + leidenalg │ + libstdcxx │ + libstdcxx-ng │ + openssl │ + python │ + python-igraph │ CondaPkg Initialising pixi │ │ /home/pkgeval/.julia/artifacts/4ae17cee0bd922f66b2c72bf2f01c22481a5ec19/bin/pixi │ │ init │ │ --format pixi │ └ /home/pkgeval/.julia/environments/v1.12/.CondaPkg │ ✔ Created /home/pkgeval/.julia/environments/v1.12/.CondaPkg/pixi.toml │ CondaPkg Wrote /home/pkgeval/.julia/environments/v1.12/.CondaPkg/pixi.toml │ │ [dependencies] │ │ leidenalg = ">=0.10" │ │ libstdcxx = ">=3.4,<15.0" │ │ openssl = ">=3, <3.6" │ │ libstdcxx-ng = ">=3.4,<15.0" │ │ python-igraph = ">=0.10" │ │ │ │ [dependencies.python] │ │ channel = "conda-forge" │ │ build = "*cp*" │ │ version = ">=3.9, >=3.10,!=3.14.0,!=3.14.1,<4" │ │ │ │ [workspace] │ │ name = ".CondaPkg" │ │ platforms = ["linux-64"] │ │ channels = ["conda-forge"] │ │ channel-priority = "strict" │ └ description = "automatically generated by CondaPkg.jl" │ CondaPkg Installing packages │ │ /home/pkgeval/.julia/artifacts/4ae17cee0bd922f66b2c72bf2f01c22481a5ec19/bin/pixi │ │ install │ └ --manifest-path /home/pkgeval/.julia/environments/v1.12/.CondaPkg/pixi.toml │ ✔ The default environment has been installed. └ Precompilation completed after 139.2s ################################################################################ # Testing # Testing DiscoveryGraph Testing failed after 4.27s ERROR: LoadError: expected package `Test [8dfed614]` to be registered Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Types.jl:68 [2] check_registered(registries::Vector{Pkg.Registry.RegistryInstance}, pkgs::Vector{PackageSpec}) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:1672 [3] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}, level::UpgradeLevel; skip_writing_project::Bool, preserve::Nothing) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:1999 [4] up @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:1977 [inlined] [5] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; level::UpgradeLevel, mode::PackageMode, preserve::Nothing, update_registry::Bool, skip_writing_project::Bool, workspace::Bool, kwargs::@Kwargs{io::Base.DevNull}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:450 [6] up @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:419 [inlined] [7] up @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:174 [inlined] [8] #resolve#171 @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:456 [inlined] [9] resolve @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:455 [inlined] [10] (::Pkg.Operations.var"#190#191"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#205#206"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec})() @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2294 [11] with_temp_env(fn::Pkg.Operations.var"#190#191"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#205#206"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec}, temp_env::String) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2164 [12] (::Pkg.Operations.var"#186#187"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#205#206"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec, String, String})(tmp::String) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2278 [13] mktempdir(fn::Pkg.Operations.var"#186#187"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#205#206"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec, String, String}, parent::String; prefix::String) @ Base.Filesystem ./file.jl:936 [14] mktempdir(fn::Function, parent::String) @ Base.Filesystem ./file.jl:932 [15] #sandbox#182 @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2225 [inlined] [16] 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/v1.12/Pkg/src/Operations.jl:2481 [17] test @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2387 [inlined] [18] 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/v1.12/Pkg/src/API.jl:552 [19] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:169 [20] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:157 [21] test @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:157 [inlined] [22] #test#81 @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:156 [inlined] [23] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:223 [24] include(mod::Module, _path::String) @ Base ./Base.jl:306 [25] exec_options(opts::Base.JLOptions) @ Base ./client.jl:317 [26] _start() @ Base ./client.jl:550 in expression starting at /PkgEval.jl/scripts/evaluate.jl:214 PkgEval failed after 188.84s: there were unidentified errors