Package evaluation to test PyCallJLD2 on Julia 1.12.4 (01a2eadb04*) started at 2026-01-09T01:52:36.393 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.99s ################################################################################ # Installation # Installing PyCallJLD2... Resolving package versions... Installed Parsers ───────────── v2.8.3 Installed Conda ─────────────── v1.10.3 Installed PyCall ────────────── v1.96.4 Installed Preferences ───────── v1.5.1 Installed JSON ──────────────── v1.3.0 Installed JLD2 ──────────────── v0.4.55 Installed PyCallJLD2 ────────── v0.1.2 Installed PrecompileTools ───── v1.3.3 Installed VersionParsing ────── v1.3.0 Installed OrderedCollections ── v1.8.1 Installed Requires ──────────── v1.3.1 Installed TranscodingStreams ── v0.11.3 Installed StructUtils ───────── v2.6.1 Installed MacroTools ────────── v0.5.16 Installed DocStringExtensions ─ v0.9.5 Installed FileIO ────────────── v1.17.1 Updating `~/.julia/environments/v1.12/Project.toml` [07b0ad8c] + PyCallJLD2 v0.1.2 Updating `~/.julia/environments/v1.12/Manifest.toml` [8f4d0f93] + Conda v1.10.3 [ffbed154] + DocStringExtensions v0.9.5 [5789e2e9] + FileIO v1.17.1 ⌅ [033835bb] + JLD2 v0.4.55 [682c06a0] + JSON v1.3.0 [1914dd2f] + MacroTools v0.5.16 [bac558e1] + OrderedCollections v1.8.1 [69de0a69] + Parsers v2.8.3 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.1 [438e738f] + PyCall v1.96.4 [07b0ad8c] + PyCallJLD2 v0.1.2 [ae029012] + Requires v1.3.1 [ec057cc2] + StructUtils v2.6.1 [3bb67fe8] + TranscodingStreams v0.11.3 [81def892] + VersionParsing v1.3.0 [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 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [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 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [f489334b] + StyledStrings v1.11.0 [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [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 v3.5.4+0 [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` Building Conda ─→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/8f06b0cfa4c514c7b9546756dbae91fcfbc92dc9/build.log` Building PyCall → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/9816a3826b0ebf49ab4926e2b18842ad8b5c8f04/build.log` Installation completed after 120.99s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 4435.3 ms ✓ TestEnv 1 dependency successfully precompiled in 5 seconds. 26 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/iseFl/src/julia-1.11/common.jl:75 │ [2] test_dir_has_project_file │ @ ~/.julia/packages/TestEnv/iseFl/src/julia-1.11/common.jl:52 [inlined] │ [3] maybe_gen_project_override! │ @ ~/.julia/packages/TestEnv/iseFl/src/julia-1.11/common.jl:83 [inlined] │ [4] activate(pkg::String; allow_reresolve::Bool) │ @ TestEnv ~/.julia/packages/TestEnv/iseFl/src/julia-1.11/activate_set.jl:12 │ [5] activate(pkg::String) │ @ TestEnv ~/.julia/packages/TestEnv/iseFl/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:306 │ [8] exec_options(opts::Base.JLOptions) │ @ Base ./client.jl:317 │ [9] _start() │ @ Base ./client.jl:550 └ @ Main /PkgEval.jl/scripts/precompile.jl:26 Precompiling package dependencies... Precompiling packages... 4191.3 ms ✓ OrderedCollections 1181.1 ms ✓ DocStringExtensions 7829.2 ms ✓ MacroTools 1070.5 ms ✓ VersionParsing 1302.3 ms ✓ TranscodingStreams 1179.0 ms ✓ Requires 4409.5 ms ✓ StructUtils 1291.7 ms ✓ Preferences 9561.2 ms ✓ FileIO 900.4 ms ✓ PrecompileTools 22422.7 ms ✓ Parsers 47185.9 ms ✓ JLD2 8642.8 ms ✓ JSON 1900.9 ms ✓ Conda 25048.1 ms ✓ PyCall 9797.3 ms ✓ PyCallJLD2 16 dependencies successfully precompiled in 148 seconds. 28 already precompiled. Precompilation completed after 164.24s ################################################################################ # Testing # Testing PyCallJLD2 Status `/tmp/jl_A7AIID/Project.toml` [ffbed154] DocStringExtensions v0.9.5 ⌅ [033835bb] JLD2 v0.4.55 [438e738f] PyCall v1.96.4 [07b0ad8c] PyCallJLD2 v0.1.2 [1bc83da4] SafeTestsets v0.1.0 [56ddb016] Logging v1.11.0 [44cfe95a] Pkg v1.12.1 [8dfed614] Test v1.11.0 Status `/tmp/jl_A7AIID/Manifest.toml` [8f4d0f93] Conda v1.10.3 [ffbed154] DocStringExtensions v0.9.5 [5789e2e9] FileIO v1.17.1 ⌅ [033835bb] JLD2 v0.4.55 [682c06a0] JSON v1.3.0 [1914dd2f] MacroTools v0.5.16 [bac558e1] OrderedCollections v1.8.1 [69de0a69] Parsers v2.8.3 [aea7be01] PrecompileTools v1.3.3 [21216c6a] Preferences v1.5.1 [438e738f] PyCall v1.96.4 [07b0ad8c] PyCallJLD2 v0.1.2 [ae029012] Requires v1.3.1 [1bc83da4] SafeTestsets v0.1.0 [ec057cc2] StructUtils v2.6.1 [3bb67fe8] TranscodingStreams v0.11.3 [81def892] VersionParsing v1.3.0 [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 [b77e0a4c] InteractiveUtils v1.11.0 [ac6e5ff7] JuliaSyntaxHighlighting v1.12.0 [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 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization v1.11.0 [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 v3.5.4+0 [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. Testing Running tests... Precompiling packages... 701.7 ms ✓ SafeTestsets 1 dependency successfully precompiled in 1 seconds [ Info: Installing sklearn.linear_model via the Conda scikit-learn package... [ Info: Running `conda install -q -y scikit-learn` in root environment Channels: - conda-forge Platform: linux-64 Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done ## Package Plan ## environment location: /home/pkgeval/.julia/conda/3/x86_64 added / updated specs: - scikit-learn The following packages will be downloaded: package | build ---------------------------|----------------- joblib-1.5.3 | pyhd8ed1ab_0 221 KB conda-forge scikit-learn-1.8.0 |np2py312h3226591_1 9.3 MB conda-forge scipy-1.16.3 | py312h54fa4ab_2 15.9 MB conda-forge threadpoolctl-3.6.0 | pyhecae5ae_0 23 KB conda-forge ------------------------------------------------------------ Total: 25.4 MB The following NEW packages will be INSTALLED: joblib conda-forge/noarch::joblib-1.5.3-pyhd8ed1ab_0 scikit-learn conda-forge/linux-64::scikit-learn-1.8.0-np2py312h3226591_1 scipy conda-forge/linux-64::scipy-1.16.3-py312h54fa4ab_2 threadpoolctl conda-forge/noarch::threadpoolctl-3.6.0-pyhecae5ae_0 Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done Error encountered while load FileIO.File{FileIO.DataFormat{:JLD2}, String}("models.jld2"). Fatal error: PyCall Save and Load: Error During Test at /home/pkgeval/.julia/packages/PyCallJLD2/G3ntZ/test/test_sets.jl:41 Got exception outside of a @test TypeError: in ccall: first argument not a pointer or valid constant expression, expected Ptr, got a value of type Tuple{Symbol, String} Stacktrace: [1] macro expansion @ ~/.julia/packages/PyCall/1gn3u/src/exception.jl:108 [inlined] [2] #8 @ ~/.julia/packages/PyCallJLD2/G3ntZ/src/lib/pycalljld2.jl:107 [inlined] [3] lock(f::PyCallJLD2.var"#8#9"{PyCallJLD2.PyObjectSerialization}, l::ReentrantLock) @ Base ./lock.jl:335 [4] pylock @ ~/.julia/packages/PyCallJLD2/G3ntZ/src/lib/pycalljld2.jl:67 [inlined] [5] rconvert @ ~/.julia/packages/PyCallJLD2/G3ntZ/src/lib/pycalljld2.jl:106 [inlined] [6] jlconvert(::JLD2.ReadRepresentation{PyCall.PyObject, JLD2.CustomSerialization{PyCallJLD2.PyObjectSerialization, JLD2.OnDiskRepresentation{(0,), Tuple{Vector{UInt8}}, Tuple{JLD2.RelOffset}, 8}()}}, f::JLD2.JLDFile{JLD2.MmapIO}, ptr::Ptr{Nothing}, header_offset::JLD2.RelOffset) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/data/custom_serialization.jl:73 [7] read_scalar(f::JLD2.JLDFile{JLD2.MmapIO}, rr::Any, header_offset::JLD2.RelOffset) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/dataio.jl:37 [8] read_data(f::JLD2.JLDFile{JLD2.MmapIO}, rr::Any, read_dataspace::Tuple{JLD2.ReadDataspace, JLD2.RelOffset, JLD2.DataLayout, JLD2.FilterPipeline}, attributes::Vector{JLD2.ReadAttribute}) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/datasets.jl:98 [9] read_data(f::JLD2.JLDFile{JLD2.MmapIO}, dataspace::JLD2.ReadDataspace, dt::JLD2.H5Datatype, layout::JLD2.DataLayout, filters::JLD2.FilterPipeline, header_offset::JLD2.RelOffset, attributes::Vector{JLD2.ReadAttribute}) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/datasets.jl:86 [10] load_dataset(f::JLD2.JLDFile{JLD2.MmapIO}, offset::JLD2.RelOffset) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/datasets.jl:50 [11] jlconvert(::JLD2.ReadRepresentation{PyCall.PyObject, JLD2.RelOffset}, f::JLD2.JLDFile{JLD2.MmapIO}, ptr::Ptr{Nothing}, ::JLD2.RelOffset) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/data/writing_datatypes.jl:320 [12] macro expansion @ ~/.julia/packages/JLD2/ws7Qu/src/dataio.jl:70 [inlined] [13] macro expansion @ ./simdloop.jl:77 [inlined] [14] read_array!(v::Vector{PyCall.PyObject}, f::JLD2.JLDFile{JLD2.MmapIO}, rr::JLD2.ReadRepresentation{PyCall.PyObject, JLD2.RelOffset}) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/dataio.jl:68 [15] read_array(f::JLD2.JLDFile{JLD2.MmapIO}, dataspace::JLD2.ReadDataspace, rr::JLD2.ReadRepresentation, layout::JLD2.DataLayout, filters::JLD2.FilterPipeline, header_offset::JLD2.RelOffset, attributes::Vector{JLD2.ReadAttribute}) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/datasets.jl:250 [16] read_data(f::JLD2.JLDFile{JLD2.MmapIO}, rr::JLD2.ReadRepresentation{Any, JLD2.RelOffset}, read_dataspace::Tuple{JLD2.ReadDataspace, JLD2.RelOffset, JLD2.DataLayout, JLD2.FilterPipeline}, attributes::Vector{JLD2.ReadAttribute}) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/datasets.jl:136 [17] read_data(f::JLD2.JLDFile{JLD2.MmapIO}, dataspace::JLD2.ReadDataspace, dt::JLD2.H5Datatype, layout::JLD2.DataLayout, filters::JLD2.FilterPipeline, header_offset::JLD2.RelOffset, attributes::Vector{JLD2.ReadAttribute}) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/datasets.jl:86 [18] load_dataset(f::JLD2.JLDFile{JLD2.MmapIO}, offset::JLD2.RelOffset) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/datasets.jl:50 [19] getindex(g::JLD2.Group{JLD2.JLDFile{JLD2.MmapIO}}, name::String) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/groups.jl:99 [20] getindex @ ~/.julia/packages/JLD2/ws7Qu/src/JLD2.jl:372 [inlined] [21] load_data_or_dict(g::JLD2.JLDFile{JLD2.MmapIO}, varname::String) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/loadsave.jl:191 [22] fileio_load(f::FileIO.File{FileIO.DataFormat{:JLD2}, String}, varname::String; kwargs::@Kwargs{}) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/fileio.jl:54 [23] fileio_load(f::FileIO.File{FileIO.DataFormat{:JLD2}, String}, varname::String) @ JLD2 ~/.julia/packages/JLD2/ws7Qu/src/fileio.jl:51 [24] action(call::Symbol, libraries::Vector{Union{Base.PkgId, Module}}, file::FileIO.Formatted, args::String; options::@Kwargs{}) @ FileIO ~/.julia/packages/FileIO/EI2b8/src/loadsave.jl:219 [25] action @ ~/.julia/packages/FileIO/EI2b8/src/loadsave.jl:196 [inlined] [26] action @ ~/.julia/packages/FileIO/EI2b8/src/loadsave.jl:185 [inlined] [27] load(file::String, args::String; options::@Kwargs{}) @ FileIO ~/.julia/packages/FileIO/EI2b8/src/loadsave.jl:113 [28] load(file::String, args::String) @ FileIO ~/.julia/packages/FileIO/EI2b8/src/loadsave.jl:109 [29] top-level scope @ ~/.julia/packages/PyCallJLD2/G3ntZ/test/test_sets.jl:43 Stacktrace: [1] handle_error(e::TypeError, q::Base.PkgId, bt::Vector{Union{Ptr{Nothing}, Base.InterpreterIP}}) @ FileIO ~/.julia/packages/FileIO/EI2b8/src/error_handling.jl:75 [2] handle_exceptions(exceptions::Vector{Tuple{Any, Union{Base.PkgId, Module}, Vector}}, action::String) @ FileIO ~/.julia/packages/FileIO/EI2b8/src/error_handling.jl:66 [3] action(call::Symbol, libraries::Vector{Union{Base.PkgId, Module}}, file::FileIO.Formatted, args::String; options::@Kwargs{}) @ FileIO ~/.julia/packages/FileIO/EI2b8/src/loadsave.jl:228 [4] action @ ~/.julia/packages/FileIO/EI2b8/src/loadsave.jl:196 [inlined] [5] action @ ~/.julia/packages/FileIO/EI2b8/src/loadsave.jl:185 [inlined] [6] load(file::String, args::String; options::@Kwargs{}) @ FileIO ~/.julia/packages/FileIO/EI2b8/src/loadsave.jl:113 [7] load(file::String, args::String) @ FileIO ~/.julia/packages/FileIO/EI2b8/src/loadsave.jl:109 [8] top-level scope @ ~/.julia/packages/PyCallJLD2/G3ntZ/test/test_sets.jl:43 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined] [10] macro expansion @ ~/.julia/packages/PyCallJLD2/G3ntZ/test/test_sets.jl:55 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:307 [12] top-level scope @ ~/.julia/packages/SafeTestsets/raUNr/src/SafeTestsets.jl:30 [13] macro expansion @ ~/.julia/packages/PyCallJLD2/G3ntZ/test/runtests.jl:19 [inlined] [14] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined] [15] macro expansion @ ~/.julia/packages/PyCallJLD2/G3ntZ/test/runtests.jl:19 [inlined] [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] top-level scope @ ~/.julia/packages/PyCallJLD2/G3ntZ/test/runtests.jl:28 [18] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:307 [19] top-level scope @ none:6 [20] eval(m::Module, e::Any) @ Core ./boot.jl:489 [21] exec_options(opts::Base.JLOptions) @ Base ./client.jl:283 [22] _start() @ Base ./client.jl:550 Test Summary: | Error Total Time All Test Sets | 1 1 11m31.1s PyCall Save and Load | 1 1 10m48.2s RNG of the outermost testset: Random.Xoshiro(0x5695329aae17ea49, 0x60653e506e5f51de, 0xad5c350c76298e6e, 0x16362a6b8077b9f6, 0x760d1fbacb4bbdc3) ERROR: LoadError: Some tests did not pass: 0 passed, 0 failed, 1 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/PyCallJLD2/G3ntZ/test/runtests.jl:18 Testing failed after 696.83s ERROR: LoadError: Package PyCallJLD2 errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.12/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/v1.12/Pkg/src/Operations.jl:2535 [3] test @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2384 [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/v1.12/Pkg/src/API.jl:538 [5] 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 [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:157 [7] test @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:157 [inlined] [8] #test#81 @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:156 [inlined] [9] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:237 [10] include(mod::Module, _path::String) @ Base ./Base.jl:306 [11] exec_options(opts::Base.JLOptions) @ Base ./client.jl:317 [12] _start() @ Base ./client.jl:550 in expression starting at /PkgEval.jl/scripts/evaluate.jl:228 PkgEval failed after 1028.53s: package tests unexpectedly errored