Package evaluation to test MicroscopePSFs on Julia 1.14.0-DEV.1352 (749bc618c5*) started at 2025-12-09T23:16:33.343 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.14` Set-up completed after 10.8s ################################################################################ # Installation # Installing MicroscopePSFs... Resolving package versions... Installed libaec_jll ──────────── v1.1.4+0 Installed MPICH_jll ───────────── v4.3.2+0 Installed MacroTools ──────────── v0.5.16 Installed CodecZlib ───────────── v0.7.8 Installed OrderedCollections ──── v1.8.1 Installed Adapt ───────────────── v4.4.0 Installed TranscodingStreams ──── v0.11.3 Installed JLD2 ────────────────── v0.5.15 Installed MicrosoftMPI_jll ────── v10.1.4+3 Installed HashArrayMappedTries ── v0.2.0 Installed Xorg_libpciaccess_jll ─ v0.18.1+0 Installed Statistics ──────────── v1.11.1 Installed Compat ──────────────── v4.18.1 Installed OffsetArrays ────────── v1.17.0 Installed PrecompileTools ─────── v1.3.3 Installed StaticArraysCore ────── v1.4.4 Installed IrrationalConstants ─── v0.2.6 Installed Ratios ──────────────── v0.4.5 Installed FileIO ──────────────── v1.17.1 Installed StaticArrays ────────── v1.9.15 Installed AxisAlgorithms ──────── v1.1.0 Installed ChainRulesCore ──────── v1.26.0 Installed OpenSpecFun_jll ─────── v0.5.6+0 Installed Requires ────────────── v1.3.1 Installed HDF5_jll ────────────── v1.14.6+0 Installed Hwloc_jll ───────────── v2.12.2+0 Installed OpenMPI_jll ─────────── v5.0.9+0 Installed LogExpFunctions ─────── v0.3.29 Installed BufferedStreams ─────── v1.2.2 Installed Interpolations ──────── v0.16.2 Installed ScopedValues ────────── v1.5.0 Installed XML2_jll ────────────── v2.13.9+0 Installed WoodburyMatrices ────── v1.0.0 Installed SpecialFunctions ────── v2.6.1 Installed Preferences ─────────── v1.5.0 Installed MPIPreferences ──────── v0.1.11 Installed Libiconv_jll ────────── v1.18.0+0 Installed JLLWrappers ─────────── v1.7.1 Installed SMLMData ────────────── v0.5.0 Installed MPItrampoline_jll ───── v5.5.4+0 Installed DocStringExtensions ─── v0.9.5 Installed MAT ─────────────────── v0.10.7 Installed MicroscopePSFs ──────── v0.5.3 Installed HDF5 ────────────────── v0.17.2 Installing 8 artifacts Installed artifact libaec 49.6 KiB Installed artifact Xorg_libpciaccess 24.8 KiB Installed artifact OpenSpecFun 194.9 KiB Installed artifact Libiconv 1.9 MiB Installed artifact XML2 2.5 MiB Installed artifact Hwloc 3.5 MiB Installed artifact MPICH 3.3 MiB Installed artifact HDF5 5.7 MiB Updating `~/.julia/environments/v1.14/Project.toml` [de9ac726] + MicroscopePSFs v0.5.3 Updating `~/.julia/environments/v1.14/Manifest.toml` [79e6a3ab] + Adapt v4.4.0 [13072b0f] + AxisAlgorithms v1.1.0 [e1450e63] + BufferedStreams v1.2.2 [d360d2e6] + ChainRulesCore v1.26.0 [944b1d66] + CodecZlib v0.7.8 [34da2185] + Compat v4.18.1 [ffbed154] + DocStringExtensions v0.9.5 [5789e2e9] + FileIO v1.17.1 [f67ccb44] + HDF5 v0.17.2 [076d061b] + HashArrayMappedTries v0.2.0 [a98d9a8b] + Interpolations v0.16.2 [92d709cd] + IrrationalConstants v0.2.6 ⌅ [033835bb] + JLD2 v0.5.15 [692b3bcd] + JLLWrappers v1.7.1 [2ab3a3ac] + LogExpFunctions v0.3.29 ⌅ [23992714] + MAT v0.10.7 [3da0fdf6] + MPIPreferences v0.1.11 [1914dd2f] + MacroTools v0.5.16 [de9ac726] + MicroscopePSFs v0.5.3 [6fe1bfb0] + OffsetArrays v1.17.0 [bac558e1] + OrderedCollections v1.8.1 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.0 [c84ed2f1] + Ratios v0.4.5 [ae029012] + Requires v1.3.1 [5488f106] + SMLMData v0.5.0 [7e506255] + ScopedValues v1.5.0 [276daf66] + SpecialFunctions v2.6.1 [90137ffa] + StaticArrays v1.9.15 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [3bb67fe8] + TranscodingStreams v0.11.3 [efce3f68] + WoodburyMatrices v1.0.0 ⌅ [0234f1f7] + HDF5_jll v1.14.6+0 [e33a78d0] + Hwloc_jll v2.12.2+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [7cb0a576] + MPICH_jll v4.3.2+0 [f1f71cc9] + MPItrampoline_jll v5.5.4+0 [9237b28f] + MicrosoftMPI_jll v10.1.4+3 [fe0851c0] + OpenMPI_jll v5.0.9+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 ⌅ [02c8fc9c] + XML2_jll v2.13.9+0 [a65dc6b1] + Xorg_libpciaccess_jll v0.18.1+0 [477f73a3] + libaec_jll v1.1.4+0 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [f43a241f] + Downloads v1.7.0 [7b1f6079] + FileWatching v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.13.0 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v1.0.0 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.13.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.14.0 [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 v1.13.0 [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 v8.17.0+0 [e37daf67] + LibGit2_jll v1.9.1+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.12.2 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.4+0 [efcefdf7] + PCRE2_jll v10.47.0+0 [bea87d4a] + SuiteSparse_jll v7.10.1+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 [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 14.02s ################################################################################ # Precompilation # ERROR: LoadError: MethodError: no method matching setindex!(::Base.ScopedValues.ScopedValue{IO}, ::Nothing) The function `setindex!` exists, but no method is defined for this combination of argument types. Stacktrace: [1] top-level scope @ /PkgEval.jl/scripts/precompile.jl:10 [2] include(mod::Module, _path::String) @ Base ./Base.jl:309 [3] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [4] _start() @ Base ./client.jl:577 in expression starting at /PkgEval.jl/scripts/precompile.jl:6 caused by: MethodError: no method matching setindex!(::Base.ScopedValues.ScopedValue{IO}, ::Base.DevNull) The function `setindex!` exists, but no method is defined for this combination of argument types. Stacktrace: [1] top-level scope @ /PkgEval.jl/scripts/precompile.jl:7 [2] include(mod::Module, _path::String) @ Base ./Base.jl:309 [3] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [4] _start() @ Base ./client.jl:577 Precompilation failed after 11.45s ################################################################################ # Testing # Testing MicroscopePSFs Status `/tmp/jl_KC1n5b/Project.toml` [f67ccb44] HDF5 v0.17.2 [a98d9a8b] Interpolations v0.16.2 ⌅ [033835bb] JLD2 v0.5.15 [de9ac726] MicroscopePSFs v0.5.3 [5488f106] SMLMData v0.5.0 [276daf66] SpecialFunctions v2.6.1 [10745b16] Statistics v1.11.1 [ade2ca70] Dates v1.11.0 [37e2e46d] LinearAlgebra v1.13.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_KC1n5b/Manifest.toml` [79e6a3ab] Adapt v4.4.0 [13072b0f] AxisAlgorithms v1.1.0 [e1450e63] BufferedStreams v1.2.2 [d360d2e6] ChainRulesCore v1.26.0 [944b1d66] CodecZlib v0.7.8 [34da2185] Compat v4.18.1 [ffbed154] DocStringExtensions v0.9.5 [5789e2e9] FileIO v1.17.1 [f67ccb44] HDF5 v0.17.2 [076d061b] HashArrayMappedTries v0.2.0 [a98d9a8b] Interpolations v0.16.2 [92d709cd] IrrationalConstants v0.2.6 ⌅ [033835bb] JLD2 v0.5.15 [692b3bcd] JLLWrappers v1.7.1 [2ab3a3ac] LogExpFunctions v0.3.29 ⌅ [23992714] MAT v0.10.7 [3da0fdf6] MPIPreferences v0.1.11 [1914dd2f] MacroTools v0.5.16 [de9ac726] MicroscopePSFs v0.5.3 [6fe1bfb0] OffsetArrays v1.17.0 [bac558e1] OrderedCollections v1.8.1 [aea7be01] PrecompileTools v1.3.3 [21216c6a] Preferences v1.5.0 [c84ed2f1] Ratios v0.4.5 [ae029012] Requires v1.3.1 [5488f106] SMLMData v0.5.0 [7e506255] ScopedValues v1.5.0 [276daf66] SpecialFunctions v2.6.1 [90137ffa] StaticArrays v1.9.15 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [3bb67fe8] TranscodingStreams v0.11.3 [efce3f68] WoodburyMatrices v1.0.0 ⌅ [0234f1f7] HDF5_jll v1.14.6+0 [e33a78d0] Hwloc_jll v2.12.2+0 [94ce4f54] Libiconv_jll v1.18.0+0 [7cb0a576] MPICH_jll v4.3.2+0 [f1f71cc9] MPItrampoline_jll v5.5.4+0 [9237b28f] MicrosoftMPI_jll v10.1.4+3 [fe0851c0] OpenMPI_jll v5.0.9+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 ⌅ [02c8fc9c] XML2_jll v2.13.9+0 [a65dc6b1] Xorg_libpciaccess_jll v0.18.1+0 [477f73a3] libaec_jll v1.1.4+0 [0dad84c5] ArgTools v1.1.2 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [8ba89e20] Distributed v1.11.0 [f43a241f] Downloads v1.7.0 [7b1f6079] FileWatching v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [ac6e5ff7] JuliaSyntaxHighlighting v1.13.0 [4af54fe1] LazyArtifacts v1.11.0 [b27032c2] LibCURL v1.0.0 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.13.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.3.0 [44cfe95a] Pkg v1.14.0 [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 v1.13.0 [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 v8.17.0+0 [e37daf67] LibGit2_jll v1.9.1+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.12.2 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.4+0 [efcefdf7] PCRE2_jll v10.47.0+0 [bea87d4a] SuiteSparse_jll v7.10.1+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 [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... ┌ Warning: Replacing docs for `MicroscopePSFs.ScalarPSF :: Tuple{Real, Real, Real}` in module `MicroscopePSFs` └ @ Base.Docs docs/Docs.jl:253 1 dependency had output during precompilation: ┌ MicroscopePSFs │ [Output was shown above] └ [ Info: Loading PSF of type GaussianPSF [ Info: Loading PSF of type AiryPSF [ Info: Loading PSF of type ScalarPSF [ Info: Loading PSF of type ScalarPSF [ Info: Saving 2D SplinePSF [ Info: Loading 2D SplinePSF [ Info: Loading PSF of type SplinePSF [ Info: Saving 3D SplinePSF from ScalarPSF [ Info: Loading 3D SplinePSF [ Info: Loading PSF of type SplinePSF [ Info: Loading PSF of type ZernikeCoefficients [ Info: Loading PSF of type PupilFunction [ Info: Loading PSF of type VectorPSF Test Summary: | Pass Total Time MicroscopePSFs | 315 315 2m15.0s Basic PSFs | 37 37 6.4s ScalarPSF | 16 16 2.5s VectorPSF | 29 29 15.6s Spline PSF | 45 45 24.8s Aberrations | 6 6 0.3s Multi Emitter | 22 22 18.2s Support Region | 32 32 5.7s Threading Options | 28 28 28.7s I/O Functions | 100 100 32.8s Testing MicroscopePSFs tests passed Testing completed after 354.4s PkgEval succeeded after 404.41s