Package evaluation to test SGtSNEpi on Julia 1.14.0-DEV.14 (ec5cf08762*) started at 2025-10-30T15:37:59.965 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 10.67s ################################################################################ # Installation # Installing SGtSNEpi... Resolving package versions... Installed MacroTools ──────────── v0.5.16 Installed Hwloc ───────────────── v3.3.0 Installed OrderedCollections ──── v1.8.1 Installed ArnoldiMethod ───────── v0.4.0 Installed Statistics ──────────── v1.11.1 Installed DataStructures ──────── v0.19.1 Installed NearestNeighbors ────── v0.4.22 Installed Xorg_libpciaccess_jll ─ v0.18.1+0 Installed StatsAPI ────────────── v1.7.1 Installed SGtSNEpi ────────────── v0.4.0 Installed CEnum ───────────────── v0.5.0 Installed StaticArraysCore ────── v1.4.4 Installed Colors ──────────────── v0.12.11 Installed PrecompileTools ─────── v1.3.3 Installed StaticArrays ────────── v1.9.15 Installed Distances ───────────── v0.10.12 Installed SimpleTraits ────────── v0.9.5 Installed Hwloc_jll ───────────── v2.12.2+0 Installed ColorTypes ──────────── v0.11.5 Installed Requires ────────────── v1.3.1 Installed XML2_jll ────────────── v2.13.9+0 Installed Reexport ────────────── v1.2.2 Installed FFTW_jll ────────────── v3.3.11+0 Installed FixedPointNumbers ───── v0.8.5 Installed Libiconv_jll ────────── v1.18.0+0 Installed Preferences ─────────── v1.5.0 Installed JLLWrappers ─────────── v1.7.1 Installed sgtsnepi_jll ────────── v3.0.0+0 Installed Inflate ─────────────── v0.1.5 Installed Graphs ──────────────── v1.13.1 Installing 6 artifacts Installed artifact Xorg_libpciaccess 24.8 KiB Installed artifact sgtsnepi 157.9 KiB Installed artifact FFTW 2.2 MiB Installed artifact XML2 2.5 MiB Installed artifact Hwloc 3.5 MiB Installed artifact Libiconv 1.9 MiB Updating `~/.julia/environments/v1.14/Project.toml` [e6c19c8d] + SGtSNEpi v0.4.0 Updating `~/.julia/environments/v1.14/Manifest.toml` [ec485272] + ArnoldiMethod v0.4.0 [fa961155] + CEnum v0.5.0 ⌅ [3da002f7] + ColorTypes v0.11.5 ⌅ [5ae59095] + Colors v0.12.11 [864edb3b] + DataStructures v0.19.1 [b4f34e82] + Distances v0.10.12 [53c48c17] + FixedPointNumbers v0.8.5 [86223c79] + Graphs v1.13.1 [0e44f5e4] + Hwloc v3.3.0 [d25df0c9] + Inflate v0.1.5 [692b3bcd] + JLLWrappers v1.7.1 [1914dd2f] + MacroTools v0.5.16 [b8a86587] + NearestNeighbors v0.4.22 [bac558e1] + OrderedCollections v1.8.1 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.0 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [e6c19c8d] + SGtSNEpi v0.4.0 [699a6c99] + SimpleTraits v0.9.5 [90137ffa] + StaticArrays v1.9.15 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 [f5851436] + FFTW_jll v3.3.11+0 [e33a78d0] + Hwloc_jll v2.12.2+0 [94ce4f54] + Libiconv_jll v1.18.0+0 ⌅ [02c8fc9c] + XML2_jll v2.13.9+0 [a65dc6b1] + Xorg_libpciaccess_jll v0.18.1+0 [c2c51ba6] + sgtsnepi_jll v3.0.0+0 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.13.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v1.0.0 [9e88b42a] + Serialization v1.11.0 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.13.0 [f489334b] + StyledStrings v1.11.0 [fa267f1f] + TOML v1.0.3 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [4536629a] + OpenBLAS_jll v0.3.29+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.15.0+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 9.24s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 3239.4 ms ✓ TestEnv 1 dependency successfully precompiled in 3 seconds. 27 already precompiled. 1 dependency had output during precompilation: ┌ TestEnv │ WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv. └ ┌ Error: Failed to use TestEnv.jl; test dependencies will not be precompiled │ exception = │ UndefVarError: `project_rel_path` not defined in `TestEnv` │ Suggestion: this global was defined as `Pkg.Operations.project_rel_path` but not assigned a value. │ Stacktrace: │ [1] get_test_dir(ctx::Pkg.Types.Context, pkgspec::PackageSpec) │ @ TestEnv ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/common.jl:75 │ [2] test_dir_has_project_file │ @ ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/common.jl:52 [inlined] │ [3] maybe_gen_project_override! │ @ ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/common.jl:83 [inlined] │ [4] activate(pkg::String; allow_reresolve::Bool) │ @ TestEnv ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/activate_set.jl:12 │ [5] activate(pkg::String) │ @ TestEnv ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/activate_set.jl:9 │ [6] top-level scope │ @ /PkgEval.jl/scripts/precompile.jl:24 │ [7] include(mod::Module, _path::String) │ @ Base ./Base.jl:309 │ [8] exec_options(opts::Base.JLOptions) │ @ Base ./client.jl:344 │ [9] _start() │ @ Base ./client.jl:577 └ @ Main /PkgEval.jl/scripts/precompile.jl:26 Precompiling package dependencies... Precompiling packages... 3183.0 ms ✓ MacroTools 620.8 ms ✓ Reexport 897.6 ms ✓ Statistics 764.6 ms ✓ StaticArraysCore 681.5 ms ✓ StatsAPI 930.5 ms ✓ Requires 977.0 ms ✓ OrderedCollections 669.0 ms ✓ CEnum 788.8 ms ✓ Inflate 895.3 ms ✓ Preferences 2509.7 ms ✓ SimpleTraits 2914.4 ms ✓ FixedPointNumbers 1156.0 ms ✓ Statistics → SparseArraysExt 1146.2 ms ✓ Distances 2738.7 ms ✓ DataStructures 912.5 ms ✓ JLLWrappers 765.9 ms ✓ PrecompileTools 3295.0 ms ✓ ColorTypes 961.4 ms ✓ Distances → DistancesSparseArraysExt 1106.8 ms ✓ Xorg_libpciaccess_jll 1038.5 ms ✓ Libiconv_jll 1038.2 ms ✓ FFTW_jll 12020.7 ms ✓ StaticArrays 6529.8 ms ✓ Colors 1402.6 ms ✓ XML2_jll 1413.9 ms ✓ sgtsnepi_jll 1340.6 ms ✓ StaticArrays → StaticArraysStatisticsExt 3297.9 ms ✓ ArnoldiMethod 1445.2 ms ✓ Hwloc_jll 4153.1 ms ✓ NearestNeighbors 9374.0 ms ✓ Graphs 3554.7 ms ✓ Hwloc 4326.4 ms ✓ SGtSNEpi 33 dependencies successfully precompiled in 79 seconds. 17 already precompiled. Precompilation completed after 89.98s ################################################################################ # Testing # Testing SGtSNEpi Testing failed after 47.91s ERROR: LoadError: Error building `FLANN`: % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 474k 0 474k 0 0 912k 0 --:--:-- --:--:-- --:--:-- 912k [ Info: Attempting to create directory /home/pkgeval/.julia/packages/FLANN/a7m6V/deps/downloads [ Info: Downloading file https://github.com/mariusmuja/flann/archive/1.9.1.tar.gz [ Info: Done downloading file https://github.com/mariusmuja/flann/archive/1.9.1.tar.gz [ Info: Attempting to create directory /home/pkgeval/.julia/packages/FLANN/a7m6V/deps/src [ Info: Attempting to create directory /home/pkgeval/.julia/packages/FLANN/a7m6V/deps [ Info: Directory /home/pkgeval/.julia/packages/FLANN/a7m6V/deps already exists [ Info: Attempting to create directory /home/pkgeval/.julia/packages/FLANN/a7m6V/deps/builds/1.9.1 ERROR: LoadError: IOError: could not spawn `patch src/flann-1.9.1/src/cpp/CMakeLists.txt patch-flann-1.9.1.txt`: no such file or directory (ENOENT) Stacktrace: [1] _spawn_primitive(file::String, cmd::Cmd, stdio::Memory{Union{RawFD, Base.IOServer, Base.SyncCloseFD, IO}}) @ Base ./process.jl:149 [2] _spawn @ ./process.jl:166 [inlined] [3] #_spawn##0 @ ./process.jl:158 [inlined] [4] setup_stdios(f::Base.var"#_spawn##0#_spawn##1"{Cmd}, stdios::Vector{Union{RawFD, Base.FileRedirect, Base.IOServer, IO}}) @ Base ./process.jl:245 [5] _spawn @ ./process.jl:157 [inlined] [6] run(::Cmd; wait::Bool) @ Base ./process.jl:525 [7] run(::Cmd) @ Base ./process.jl:523 [8] run(s::BinDeps.SynchronousStepCollection) @ BinDeps ~/.julia/packages/BinDeps/5xsHU/src/BinDeps.jl:524 [9] satisfy!(dep::BinDeps.LibraryDependency, methods::Vector{DataType}) @ BinDeps ~/.julia/packages/BinDeps/5xsHU/src/dependencies.jl:951 [10] satisfy!(dep::BinDeps.LibraryDependency) @ BinDeps ~/.julia/packages/BinDeps/5xsHU/src/dependencies.jl:929 [11] top-level scope @ ~/.julia/packages/FLANN/a7m6V/deps/build.jl:982 [12] macro expansion @ ~/.julia/packages/BinDeps/5xsHU/src/dependencies.jl:984 [inlined] [13] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [14] top-level scope @ none:5 [15] eval(m::Module, e::Any) @ Core ./boot.jl:489 [16] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [17] _start() @ Base ./client.jl:577 in expression starting at /home/pkgeval/.julia/packages/FLANN/a7m6V/deps/build.jl:49 Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Types.jl:68 [2] (::Pkg.Operations.var"#146#147"{Bool, Pkg.Types.Context, String, PackageSpec, String})() @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:1797 [3] withenv(::Pkg.Operations.var"#146#147"{Bool, Pkg.Types.Context, String, PackageSpec, String}, ::Pair{String, String}, ::Vararg{Pair{String}}) @ Base ./env.jl:265 [4] (::Pkg.Operations.var"#215#216"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#146#147"{Bool, Pkg.Types.Context, String, PackageSpec, String}, Pkg.Types.Context, PackageSpec})() @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2709 [5] with_temp_env(fn::Pkg.Operations.var"#215#216"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#146#147"{Bool, Pkg.Types.Context, String, PackageSpec, String}, Pkg.Types.Context, PackageSpec}, temp_env::String) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2554 [6] (::Pkg.Operations.var"#211#212"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#146#147"{Bool, Pkg.Types.Context, String, PackageSpec, String}, Pkg.Types.Context, PackageSpec, String, String})(tmp::String) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2668 [7] mktempdir(fn::Pkg.Operations.var"#211#212"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#146#147"{Bool, Pkg.Types.Context, String, PackageSpec, String}, Pkg.Types.Context, PackageSpec, String, String}, parent::String; prefix::String) @ Base.Filesystem ./file.jl:936 [8] mktempdir(fn::Function, parent::String) @ Base.Filesystem ./file.jl:932 [9] #sandbox#207 @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2615 [inlined] [10] kwcall(::@NamedTuple{preferences::Dict{String, Any}, allow_reresolve::Bool}, ::typeof(Pkg.Operations.sandbox), fn::Function, ctx::Pkg.Types.Context, target::PackageSpec, sandbox_path::String, sandbox_project_override::Pkg.Types.Project) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2605 [11] build_versions(ctx::Pkg.Types.Context, uuids::Set{UUID}; verbose::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:1774 [12] build_versions @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:1685 [inlined] [13] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}, level::UpgradeLevel; skip_writing_project::Bool, preserve::Nothing) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2395 [14] up @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2334 [inlined] [15] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; level::UpgradeLevel, mode::PackageMode, preserve::Nothing, update_registry::Bool, skip_writing_project::Bool, kwargs::@Kwargs{io::Base.DevNull}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:465 [16] up @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:433 [inlined] [17] up @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:177 [inlined] [18] #resolve#170 @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:471 [inlined] [19] resolve @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:470 [inlined] [20] (::Pkg.Operations.var"#215#216"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#230#231"{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/v1.14/Pkg/src/Operations.jl:2684 [21] with_temp_env(fn::Pkg.Operations.var"#215#216"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#230#231"{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/v1.14/Pkg/src/Operations.jl:2554 [22] (::Pkg.Operations.var"#211#212"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#230#231"{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/v1.14/Pkg/src/Operations.jl:2668 [23] mktempdir(fn::Pkg.Operations.var"#211#212"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#230#231"{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 [24] mktempdir(fn::Function, parent::String) @ Base.Filesystem ./file.jl:932 [25] #sandbox#207 @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2615 [inlined] [26] kwcall(::@NamedTuple{preferences::Dict{String, Any}, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool}, ::typeof(Pkg.Operations.sandbox), fn::Function, ctx::Pkg.Types.Context, target::PackageSpec, sandbox_path::String, sandbox_project_override::Pkg.Types.Project) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2605 [27] 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/v1.14/Pkg/src/Operations.jl:2879 [28] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2785 [inlined] [29] 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/v1.14/Pkg/src/API.jl:572 [30] kwcall(::@NamedTuple{julia_args::Cmd, io::IOContext{IO}}, ::typeof(Pkg.API.test), ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:548 [31] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:172 [32] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:161 [33] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [34] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [inlined] [35] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:159 [36] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [37] include(mod::Module, _path::String) @ Base ./Base.jl:309 [38] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [39] _start() @ Base ./client.jl:577 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 233.14s: there were unidentified errors