Package evaluation to test BioformatsLoader on Julia 1.14.0-DEV.1260 (89243d1cdf*) started at 2025-11-16T18:08:31.600 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 9.8s ################################################################################ # Installation # Installing BioformatsLoader... Resolving package versions... Installed StackViews ────────── v0.1.2 Installed LightXML ──────────── v0.9.3 Installed PaddedViews ───────── v0.5.12 Installed MosaicViews ───────── v0.3.4 Installed URIs ──────────────── v1.6.1 Installed MacroTools ────────── v0.5.16 Installed DataStructures ────── v0.19.3 Installed JavaCall ──────────── v0.8.1 Installed BioformatsLoader ──── v0.4.1 Installed TensorCore ────────── v0.1.1 Installed OrderedCollections ── v1.8.1 Installed Statistics ────────── v1.11.1 Installed ImageBase ─────────── v0.1.5 Installed ImageAxes ─────────── v0.6.11 Installed OffsetArrays ──────── v1.17.0 Installed Colors ────────────── v0.12.11 Installed WinReg ────────────── v1.0.0 Installed IrrationalConstants ─ v0.2.6 Installed NaNMath ───────────── v1.1.3 Installed AbstractFFTs ──────── v1.5.0 Installed ColorTypes ────────── v0.11.5 Installed ColorVectorSpace ──── v0.9.10 Installed Graphics ──────────── v1.1.3 Installed SimpleTraits ──────── v0.9.5 Installed ImageMetadata ─────── v0.9.9 Installed OpenSpecFun_jll ───── v0.5.6+0 Installed XML2_jll ──────────── v2.15.1+0 Installed Reexport ──────────── v1.2.2 Installed LogExpFunctions ───── v0.3.29 Installed SpecialFunctions ──── v2.6.1 Installed IntervalSets ──────── v0.7.12 Installed FixedPointNumbers ─── v0.8.5 Installed JLLWrappers ───────── v1.7.1 Installed Preferences ───────── v1.5.0 Installed Libiconv_jll ──────── v1.18.0+0 Installed MappedArrays ──────── v0.4.2 Installed RangeArrays ───────── v0.3.2 Installed IterTools ─────────── v1.10.0 Installed AxisArrays ────────── v0.4.8 Installed ImageCore ─────────── v0.9.4 Installed DocStringExtensions ─ v0.9.5 Installing 3 artifacts Installed artifact OpenSpecFun 194.9 KiB Installed artifact XML2 2.2 MiB Installed artifact Libiconv 1.9 MiB Updating `~/.julia/environments/v1.14/Project.toml` [d1f74bce] + BioformatsLoader v0.4.1 Updating `~/.julia/environments/v1.14/Manifest.toml` [621f4979] + AbstractFFTs v1.5.0 [39de3d68] + AxisArrays v0.4.8 [d1f74bce] + BioformatsLoader v0.4.1 ⌅ [3da002f7] + ColorTypes v0.11.5 ⌅ [c3611d14] + ColorVectorSpace v0.9.10 ⌅ [5ae59095] + Colors v0.12.11 [864edb3b] + DataStructures v0.19.3 [ffbed154] + DocStringExtensions v0.9.5 [53c48c17] + FixedPointNumbers v0.8.5 [a2bd30eb] + Graphics v1.1.3 ⌃ [2803e5a7] + ImageAxes v0.6.11 ⌃ [c817782e] + ImageBase v0.1.5 ⌅ [a09fc81d] + ImageCore v0.9.4 ⌃ [bc367c6b] + ImageMetadata v0.9.9 [8197267c] + IntervalSets v0.7.12 [92d709cd] + IrrationalConstants v0.2.6 [c8e1da08] + IterTools v1.10.0 [692b3bcd] + JLLWrappers v1.7.1 [494afd89] + JavaCall v0.8.1 [9c8b4983] + LightXML v0.9.3 [2ab3a3ac] + LogExpFunctions v0.3.29 [1914dd2f] + MacroTools v0.5.16 [dbb5928d] + MappedArrays v0.4.2 [e94cdb99] + MosaicViews v0.3.4 [77ba4419] + NaNMath v1.1.3 [6fe1bfb0] + OffsetArrays v1.17.0 [bac558e1] + OrderedCollections v1.8.1 [5432bcbf] + PaddedViews v0.5.12 [21216c6a] + Preferences v1.5.0 [b3c3ace0] + RangeArrays v0.3.2 [189a3867] + Reexport v1.2.2 [699a6c99] + SimpleTraits v0.9.5 [276daf66] + SpecialFunctions v2.6.1 [cae243ae] + StackViews v0.1.2 [10745b16] + Statistics v1.11.1 [62fd8b95] + TensorCore v0.1.1 [5c2747f8] + URIs v1.6.1 [1b915085] + WinReg v1.0.0 [94ce4f54] + Libiconv_jll v1.18.0+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [02c8fc9c] + XML2_jll v2.15.1+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 v1.0.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.13.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [ca575930] + NetworkOptions v1.3.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v1.0.0 [f489334b] + StyledStrings v1.11.0 [fa267f1f] + TOML v1.0.3 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.16.0+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.11.4 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.4+0 [83775a58] + Zlib_jll v1.3.1+2 [3161d3a3] + Zstd_jll v1.5.7+1 [8e850b90] + libblastrampoline_jll v5.15.0+0 [8e850ede] + nghttp2_jll v1.68.0+1 Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. To see why use `status --outdated -m` Building BioformatsLoader → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/dc95605e0d54ae16d38a1fcc6d4ec740dc6ddaac/build.log` Installation completed after 14.76s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv. 4565.3 ms ✓ TestEnv 1 dependency successfully precompiled in 5 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/i9lgt/src/julia-1.11/common.jl:75 │ [2] test_dir_has_project_file │ @ ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:52 [inlined] │ [3] maybe_gen_project_override! │ @ ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:83 [inlined] │ [4] activate(pkg::String; allow_reresolve::Bool) │ @ TestEnv ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/activate_set.jl:12 │ [5] activate(pkg::String) │ @ TestEnv ~/.julia/packages/TestEnv/i9lgt/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... 4279.4 ms ✓ MacroTools 744.8 ms ✓ Reexport 894.1 ms ✓ MappedArrays 1055.6 ms ✓ Statistics 848.4 ms ✓ TensorCore 1953.2 ms ✓ IrrationalConstants 1137.6 ms ✓ URIs 937.8 ms ✓ RangeArrays 1219.9 ms ✓ OrderedCollections 1049.4 ms ✓ DocStringExtensions 1211.5 ms ✓ IterTools 835.8 ms ✓ WinReg 1016.6 ms ✓ IntervalSets 1022.0 ms ✓ AbstractFFTs 1578.0 ms ✓ OffsetArrays 1006.4 ms ✓ NaNMath 1095.7 ms ✓ Preferences 3263.6 ms ✓ SimpleTraits 3458.8 ms ✓ FixedPointNumbers 3409.1 ms ✓ DataStructures 1338.2 ms ✓ LogExpFunctions 732.3 ms ✓ IntervalSets → IntervalSetsStatisticsExt 766.5 ms ✓ IntervalSets → IntervalSetsPrintfExt 745.7 ms ✓ IntervalSets → IntervalSetsRandomExt 803.9 ms ✓ StackViews 876.8 ms ✓ PaddedViews 1146.6 ms ✓ JLLWrappers 4394.2 ms ✓ ColorTypes 3514.8 ms ✓ JavaCall 1509.6 ms ✓ AxisArrays 987.1 ms ✓ MosaicViews 1399.9 ms ✓ Libiconv_jll 1390.7 ms ✓ OpenSpecFun_jll 6787.5 ms ✓ Colors 1444.8 ms ✓ XML2_jll 4980.5 ms ✓ SpecialFunctions 1329.5 ms ✓ Graphics 1045.6 ms ✓ LightXML 4316.6 ms ✓ ColorVectorSpace 53406.9 ms ✓ ImageCore 5881.8 ms ✓ ImageBase 7298.1 ms ✓ ImageAxes 5490.2 ms ✓ ImageMetadata ┌ Warning: JavaCall needs the environment variable `JULIA_COPY_STACKS` to be `1` or `yes`. │ Calling the JVM may result in undefined behavior. └ @ JavaCall ~/.julia/packages/JavaCall/sPJJR/src/JavaCall.jl:57 8236.3 ms ✓ BioformatsLoader 44 dependencies successfully precompiled in 152 seconds. 22 already precompiled. 1 dependency had output during precompilation: ┌ BioformatsLoader │ ┌ Warning: JavaCall needs the environment variable `JULIA_COPY_STACKS` to be `1` or `yes`. │ │ Calling the JVM may result in undefined behavior. │ └ @ JavaCall ~/.julia/packages/JavaCall/sPJJR/src/JavaCall.jl:57 └ Precompilation completed after 168.64s ################################################################################ # Testing # Testing BioformatsLoader ┌ Warning: could not download https://pkg.julialang.org/registries │ exception = RequestError: Could not resolve host: pkg.julialang.org while requesting https://pkg.julialang.org/registries └ @ Pkg.Registry /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Registry/Registry.jl:121 Status `/tmp/jl_3khL7M/Project.toml` [39de3d68] AxisArrays v0.4.8 [d1f74bce] BioformatsLoader v0.4.1 ⌅ [a09fc81d] ImageCore v0.9.4 ⌃ [bc367c6b] ImageMetadata v0.9.9 [494afd89] JavaCall v0.8.1 [9c8b4983] LightXML v0.9.3 [5c2747f8] URIs v1.6.1 [f43a241f] Downloads v1.7.0 [56ddb016] Logging v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_3khL7M/Manifest.toml` [621f4979] AbstractFFTs v1.5.0 [39de3d68] AxisArrays v0.4.8 [d1f74bce] BioformatsLoader v0.4.1 ⌅ [3da002f7] ColorTypes v0.11.5 ⌅ [c3611d14] ColorVectorSpace v0.9.10 ⌅ [5ae59095] Colors v0.12.11 [864edb3b] DataStructures v0.19.3 [ffbed154] DocStringExtensions v0.9.5 [53c48c17] FixedPointNumbers v0.8.5 [a2bd30eb] Graphics v1.1.3 ⌃ [2803e5a7] ImageAxes v0.6.11 ⌃ [c817782e] ImageBase v0.1.5 ⌅ [a09fc81d] ImageCore v0.9.4 ⌃ [bc367c6b] ImageMetadata v0.9.9 [8197267c] IntervalSets v0.7.12 [92d709cd] IrrationalConstants v0.2.6 [c8e1da08] IterTools v1.10.0 [692b3bcd] JLLWrappers v1.7.1 [494afd89] JavaCall v0.8.1 [9c8b4983] LightXML v0.9.3 [2ab3a3ac] LogExpFunctions v0.3.29 [1914dd2f] MacroTools v0.5.16 [dbb5928d] MappedArrays v0.4.2 [e94cdb99] MosaicViews v0.3.4 [77ba4419] NaNMath v1.1.3 [6fe1bfb0] OffsetArrays v1.17.0 [bac558e1] OrderedCollections v1.8.1 [5432bcbf] PaddedViews v0.5.12 [21216c6a] Preferences v1.5.0 [b3c3ace0] RangeArrays v0.3.2 [189a3867] Reexport v1.2.2 [699a6c99] SimpleTraits v0.9.5 [276daf66] SpecialFunctions v2.6.1 [cae243ae] StackViews v0.1.2 [10745b16] Statistics v1.11.1 [62fd8b95] TensorCore v0.1.1 [5c2747f8] URIs v1.6.1 [1b915085] WinReg v1.0.0 [94ce4f54] Libiconv_jll v1.18.0+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [02c8fc9c] XML2_jll v2.15.1+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 v1.0.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.13.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [ca575930] NetworkOptions v1.3.0 [de0858da] Printf v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v1.0.0 [9e88b42a] Serialization v1.11.0 [f489334b] StyledStrings v1.11.0 [fa267f1f] TOML v1.0.3 [8dfed614] Test v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] LibCURL_jll v8.16.0+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.11.4 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.4+0 [83775a58] Zlib_jll v1.3.1+2 [3161d3a3] Zstd_jll v1.5.7+1 [8e850b90] libblastrampoline_jll v5.15.0+0 [8e850ede] nghttp2_jll v1.68.0+1 Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. Testing Running tests... ┌ Warning: JavaCall needs the environment variable `JULIA_COPY_STACKS` to be `1` or `yes`. │ Calling the JVM may result in undefined behavior. └ @ JavaCall ~/.julia/packages/JavaCall/sPJJR/src/JavaCall.jl:57 Error During Test at /home/pkgeval/.julia/packages/BioformatsLoader/ForiZ/test/runtests.jl:12 Test threw exception Expression: BioformatsLoader.ensure_init() === nothing JavaCall.JavaCallError("Cannot find java library libjvm.so\nSearch Path:\n /home/pkgeval/.julia/packages/BioformatsLoader/ForiZ/test") Stacktrace: [1] findjvm() @ JavaCall ~/.julia/packages/JavaCall/sPJJR/src/jvm.jl:108 [2] _init(opts::Vector{String}) @ JavaCall ~/.julia/packages/JavaCall/sPJJR/src/jvm.jl:291 [3] init() @ JavaCall ~/.julia/packages/JavaCall/sPJJR/src/jvm.jl:0 [4] init(; memory::Int64, log_level::String) @ BioformatsLoader ~/.julia/packages/BioformatsLoader/ForiZ/src/BioformatsLoader.jl:295 [5] init @ ~/.julia/packages/BioformatsLoader/ForiZ/src/BioformatsLoader.jl:291 [inlined] [6] ensure_init() @ BioformatsLoader ~/.julia/packages/BioformatsLoader/ForiZ/src/BioformatsLoader.jl:307 [7] top-level scope @ ~/.julia/packages/BioformatsLoader/ForiZ/test/runtests.jl:539 [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:750 [inlined] ERROR: LoadError: There was an error during testing in expression starting at /home/pkgeval/.julia/packages/BioformatsLoader/ForiZ/test/runtests.jl:12 Testing failed after 29.69s ERROR: LoadError: Package BioformatsLoader errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.14/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/v1.14/Pkg/src/Operations.jl:2946 [3] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2795 [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/v1.14/Pkg/src/API.jl:572 [5] 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 [6] 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 [7] 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 [8] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [9] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [inlined] [10] 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 [11] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [12] include(mod::Module, _path::String) @ Base ./Base.jl:309 [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [14] _start() @ Base ./client.jl:577 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 266.49s: networking-related issues were detected