Package evaluation of BEAST on Julia 1.13.0-DEV.140 (fac1ce7906*) started at 2025-03-02T16:13:18.326 ################################################################################ # Set-up # Set-up completed after 0.25s ################################################################################ # Installation # Installing BEAST... Resolving package versions... Installed GmshTools ─ v0.5.2 Updating `~/.julia/environments/v1.13/Project.toml` [bb4162c7] + BEAST v2.5.0 Updating `~/.julia/environments/v1.13/Manifest.toml` [621f4979] + AbstractFFTs v1.5.0 [1520ce14] + AbstractTrees v0.4.5 [4c555306] + ArrayLayouts v1.11.1 [bb4162c7] + BEAST v2.5.0 ⌅ [8e7c35d0] + BlockArrays v0.16.43 [5100927d] + ClusterTrees v0.2.1 [2b5bf9a6] + CollisionDetection v0.1.6 [861a8166] + Combinatorics v1.0.2 [3e66a162] + CompScienceMeshes v0.8.3 [34da2185] + Compat v4.16.0 [15927181] + ConvolutionOperators v0.4.1 [864edb3b] + DataStructures v0.18.20 [8bb1440f] + DelimitedFiles v1.9.1 [ffbed154] + DocStringExtensions v0.9.3 [95c220a8] + ExtendableSparse v1.7.0 [7a1cc6ca] + FFTW v1.8.1 [442a2c76] + FastGaussQuadrature v1.0.2 [1a297f60] + FillArrays v1.13.0 [82e2f556] + GmshTools v0.5.2 [36aa67b7] + GrundmannMoeller v0.1.2 [88f59080] + ILUZero v0.2.0 [5903a43b] + Infiltrator v1.8.6 [92d709cd] + IrrationalConstants v0.2.4 [42fd0dbc] + IterativeSolvers v0.9.4 [692b3bcd] + JLLWrappers v1.7.0 [d22a30c1] + LiftedMaps v0.5.1 [7a12625a] + LinearMaps v3.11.4 [2ab3a3ac] + LogExpFunctions v0.3.29 [3da0fdf6] + MPIPreferences v0.1.11 [032820ab] + NestedUnitRanges v0.2.1 [6fe1bfb0] + OffsetArrays v1.15.0 [bac558e1] + OrderedCollections v1.8.0 [2ae35dd2] + Permutations v0.4.23 [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.4.3 [3cdcf5f2] + RecipesBase v1.3.4 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [0a13313b] + SauterSchwab3D v0.1.4 [535c7bfe] + SauterSchwabQuadrature v2.4.0 [164309f2] + ShunnHamQuadrature v0.1.0 [e56a9233] + Sparspak v0.3.9 [276daf66] + SpecialFunctions v2.5.0 [90137ffa] + StaticArrays v1.9.13 [1e83bf80] + StaticArraysCore v1.4.3 ⌅ [1c621080] + TestItems v0.1.1 [a3e2863e] + WiltonInts84 v0.2.8 [6e34b625] + Bzip2_jll v1.0.9+0 [83423d85] + Cairo_jll v1.18.2+1 [2e619515] + Expat_jll v2.6.5+0 [f5851436] + FFTW_jll v3.3.10+3 [4fce6fc7] + FLTK_jll v1.3.8+0 [a3f928ae] + Fontconfig_jll v2.15.0+0 [d7e528f0] + FreeType2_jll v2.13.3+1 [bd17208b] + GLU_jll v9.0.1+0 [78b55507] + Gettext_jll v0.21.0+0 [7746bdde] + Glib_jll v2.82.4+0 ⌅ [0234f1f7] + HDF5_jll v1.14.3+3 [e33a78d0] + Hwloc_jll v2.12.0+0 [1d5cc7b8] + IntelOpenMP_jll v2025.0.4+0 [aacddb02] + JpegTurbo_jll v3.1.1+0 [1d63c593] + LLVMOpenMP_jll v18.1.7+0 [dd4b983a] + LZO_jll v2.10.3+0 ⌅ [e9f186c6] + Libffi_jll v3.2.2+2 [d4300ac3] + Libgcrypt_jll v1.11.0+0 [7e76a0d4] + Libglvnd_jll v1.7.0+0 [7add5ba3] + Libgpg_error_jll v1.51.1+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [4b2f31a3] + Libmount_jll v2.40.3+0 [38a345b3] + Libuuid_jll v2.40.3+0 [18c40d15] + LinearElasticity_jll v5.0.0+0 [d00139f3] + METIS_jll v5.1.3+0 [856f044c] + MKL_jll v2025.0.1+1 [86086c02] + MMG_jll v5.6.0+0 [7cb0a576] + MPICH_jll v4.3.0+0 [f1f71cc9] + MPItrampoline_jll v5.5.2+0 [9237b28f] + MicrosoftMPI_jll v10.1.4+3 [baad4e97] + OCCT_jll v7.7.2+0 ⌅ [fe0851c0] + OpenMPI_jll v4.1.6+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 ⌅ [30392449] + Pixman_jll v0.43.4+0 ⌅ [a8d0f55d] + SCOTCH_jll v6.1.3+0 [02c8fc9c] + XML2_jll v2.13.6+1 [aed1982a] + XSLT_jll v1.1.42+0 [4f6342f7] + Xorg_libX11_jll v1.8.6+3 [0c0b7dd1] + Xorg_libXau_jll v1.0.12+0 [a3789734] + Xorg_libXdmcp_jll v1.1.5+0 [1082639a] + Xorg_libXext_jll v1.3.6+3 [d091e8ba] + Xorg_libXfixes_jll v6.0.0+0 [2c808117] + Xorg_libXft_jll v2.3.3+1 [d1454406] + Xorg_libXinerama_jll v1.1.5+0 [ea2f1a96] + Xorg_libXrender_jll v0.9.11+1 [14d82f49] + Xorg_libpthread_stubs_jll v0.1.2+0 [c7cfdc94] + Xorg_libxcb_jll v1.17.0+3 [c5fb5394] + Xorg_xtrans_jll v1.5.1+0 [630162c2] + gmsh_jll v4.13.1+0 [477f73a3] + libaec_jll v1.1.3+0 [b53b4c65] + libpng_jll v1.6.46+0 [1317d2d5] + oneTBB_jll v2022.0.0+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 v1.12.0 [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 v1.12.0 [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 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.12.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [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 [781609d7] + GMP_jll v6.3.0+2 [deac9b47] + LibCURL_jll v8.11.1+1 [e37daf67] + LibGit2_jll v1.9.0+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2024.12.31 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.5+0 [458c3c95] + OpenSSL_jll v3.0.16+0 [efcefdf7] + PCRE2_jll v10.44.0+1 [bea87d4a] + SuiteSparse_jll v7.8.3+2 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.12.0+0 [8e850ede] + nghttp2_jll v1.64.0+1 [3f19e933] + p7zip_jll v17.5.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Building GmshTools → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/299aa66053646db77f8aa7fafcebe0f9e5c0d1dc/build.log` Installation completed after 22.57s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... No packages added to or removed from `~/.julia/environments/pkgeval/Project.toml` No packages added to or removed from `~/.julia/environments/pkgeval/Manifest.toml` Precompiling package dependencies... Precompiling packages... ✗ BEAST 0 dependencies successfully precompiled in 20 seconds. 144 already precompiled. ERROR: LoadError: The following 1 direct dependency failed to precompile: BEAST Failed to precompile BEAST [bb4162c7-ba94-5a20-af32-d8ec4428bdd1] to "/home/pkgeval/.julia/compiled/v1.13/BEAST/jl_ey672u" (ProcessExited(1)). ERROR: LoadError: InitError: Creating a new global in closed module `anonymous` (`anonymous`) breaks incremental compilation because the side effects will not be permanent. Stacktrace: [1] Module (repeats 2 times) @ ./boot.jl:574 [inlined] [2] clear_store!(s::Infiltrator.Session) @ Infiltrator ~/.julia/packages/Infiltrator/k8R3E/src/Infiltrator.jl:302 [3] __init__() @ Infiltrator ~/.julia/packages/Infiltrator/k8R3E/src/Infiltrator.jl:19 [4] run_module_init(mod::Module, i::Int64) @ Base ./loading.jl:1424 [5] register_restored_modules(sv::Core.SimpleVector, pkg::Base.PkgId, path::String) @ Base ./loading.jl:1412 [6] _include_from_serialized(pkg::Base.PkgId, path::String, ocachepath::Nothing, depmods::Vector{Any}, ignore_native::Nothing; register::Bool) @ Base ./loading.jl:1300 [7] _include_from_serialized (repeats 2 times) @ ./loading.jl:1246 [inlined] [8] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String, build_id::UInt128, stalecheck::Bool; reasons::Dict{String, Int64}, DEPOT_PATH::Vector{String}) @ Base ./loading.jl:2126 [9] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2630 [10] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2493 [11] macro expansion @ ./loading.jl:2421 [inlined] [12] macro expansion @ ./lock.jl:376 [inlined] [13] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2386 [14] #invoke_in_world#2 @ ./essentials.jl:1125 [inlined] [15] invoke_in_world @ ./essentials.jl:1121 [inlined] [16] require(into::Module, mod::Symbol) @ Base ./loading.jl:2366 [17] top-level scope @ ~/.julia/packages/BEAST/0V7WZ/src/BEAST.jl:21 [18] include(mod::Module, _path::String) @ Base ./Base.jl:306 [19] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing) @ Base ./loading.jl:3004 [20] top-level scope @ stdin:6 [21] eval(m::Module, e::Any) @ Core ./boot.jl:488 [22] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2855 [23] include_string @ ./loading.jl:2865 [inlined] [24] exec_options(opts::Base.JLOptions) @ Base ./client.jl:326 [25] _start() @ Base ./client.jl:560 during initialization of module Infiltrator in expression starting at /home/pkgeval/.julia/packages/BEAST/0V7WZ/src/BEAST.jl:1 in expression starting at stdin: in expression starting at /PkgEval.jl/scripts/precompile.jl:37 Precompilation failed after 35.59s ################################################################################ # Loading # Loading BEAST... Precompiling packages... Info Given BEAST was explicitly requested, output will be shown live  ERROR: LoadError: InitError: Creating a new global in closed module `anonymous` (`anonymous`) breaks incremental compilation because the side effects will not be permanent. Stacktrace:  [1] Module (repeats 2 times)  @ ./boot.jl:574 [inlined]  [2] clear_store!(s::Infiltrator.Session)  @ Infiltrator ~/.julia/packages/Infiltrator/k8R3E/src/Infiltrator.jl:302  [3] __init__()  @ Infiltrator ~/.julia/packages/Infiltrator/k8R3E/src/Infiltrator.jl:19  [4] run_module_init(mod::Module, i::Int64)  @ Base ./loading.jl:1424  [5] register_restored_modules(sv::Core.SimpleVector, pkg::Base.PkgId, path::String)  @ Base ./loading.jl:1412  [6] _include_from_serialized(pkg::Base.PkgId, path::String, ocachepath::Nothing, depmods::Vector{Any}, ignore_native::Nothing; register::Bool)  @ Base ./loading.jl:1300  [7] _include_from_serialized (repeats 2 times)  @ ./loading.jl:1246 [inlined]  [8] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String, build_id::UInt128, stalecheck::Bool; reasons::Dict{String, Int64}, DEPOT_PATH::Vector{String})  @ Base ./loading.jl:2126  [9] __require_prelocked(pkg::Base.PkgId, env::String)  @ Base ./loading.jl:2630  [10] _require_prelocked(uuidkey::Base.PkgId, env::String)  @ Base ./loading.jl:2493  [11] macro expansion  @ ./loading.jl:2421 [inlined]  [12] macro expansion  @ ./lock.jl:376 [inlined]  [13] __require(into::Module, mod::Symbol)  @ Base ./loading.jl:2386  [14] #invoke_in_world#2  @ ./essentials.jl:1125 [inlined]  [15] invoke_in_world  @ ./essentials.jl:1121 [inlined]  [16] require(into::Module, mod::Symbol)  @ Base ./loading.jl:2366  [17] top-level scope  @ ~/.julia/packages/BEAST/0V7WZ/src/BEAST.jl:21  [18] include(mod::Module, _path::String)  @ Base ./Base.jl:306  [19] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)  @ Base ./loading.jl:3004  [20] top-level scope  @ stdin:6  [21] eval(m::Module, e::Any)  @ Core ./boot.jl:488  [22] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:2855  [23] include_string  @ ./loading.jl:2865 [inlined]  [24] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:326  [25] _start()  @ Base ./client.jl:560 during initialization of module Infiltrator in expression starting at /home/pkgeval/.julia/packages/BEAST/0V7WZ/src/BEAST.jl:1 in expression starting at stdin:6 ✗ BEAST 0 dependencies successfully precompiled in 11 seconds. 144 already precompiled. ERROR: The following 1 direct dependency failed to precompile: BEAST Failed to precompile BEAST [bb4162c7-ba94-5a20-af32-d8ec4428bdd1] to "/home/pkgeval/.julia/compiled/v1.13/BEAST/jl_0oNTut" (ProcessExited(1)). ERROR: LoadError: InitError: Creating a new global in closed module `anonymous` (`anonymous`) breaks incremental compilation because the side effects will not be permanent. Stacktrace: [1] Module (repeats 2 times) @ ./boot.jl:574 [inlined] [2] clear_store!(s::Infiltrator.Session) @ Infiltrator ~/.julia/packages/Infiltrator/k8R3E/src/Infiltrator.jl:302 [3] __init__() @ Infiltrator ~/.julia/packages/Infiltrator/k8R3E/src/Infiltrator.jl:19 [4] run_module_init(mod::Module, i::Int64) @ Base ./loading.jl:1424 [5] register_restored_modules(sv::Core.SimpleVector, pkg::Base.PkgId, path::String) @ Base ./loading.jl:1412 [6] _include_from_serialized(pkg::Base.PkgId, path::String, ocachepath::Nothing, depmods::Vector{Any}, ignore_native::Nothing; register::Bool) @ Base ./loading.jl:1300 [7] _include_from_serialized (repeats 2 times) @ ./loading.jl:1246 [inlined] [8] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String, build_id::UInt128, stalecheck::Bool; reasons::Dict{String, Int64}, DEPOT_PATH::Vector{String}) @ Base ./loading.jl:2126 [9] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2630 [10] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2493 [11] macro expansion @ ./loading.jl:2421 [inlined] [12] macro expansion @ ./lock.jl:376 [inlined] [13] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2386 [14] #invoke_in_world#2 @ ./essentials.jl:1125 [inlined] [15] invoke_in_world @ ./essentials.jl:1121 [inlined] [16] require(into::Module, mod::Symbol) @ Base ./loading.jl:2366 [17] top-level scope @ ~/.julia/packages/BEAST/0V7WZ/src/BEAST.jl:21 [18] include(mod::Module, _path::String) @ Base ./Base.jl:306 [19] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing) @ Base ./loading.jl:3004 [20] top-level scope @ stdin:6 [21] eval(m::Module, e::Any) @ Core ./boot.jl:488 [22] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2855 [23] include_string @ ./loading.jl:2865 [inlined] [24] exec_options(opts::Base.JLOptions) @ Base ./client.jl:326 [25] _start() @ Base ./client.jl:560 during initialization of module Infiltrator in expression starting at /home/pkgeval/.julia/packages/BEAST/0V7WZ/src/BEAST.jl:1 in expression starting at stdin: Loading failed after 13.53s ERROR: LoadError: failed process: Process(`/opt/julia/bin/julia -C native -J/opt/julia/lib/julia/sys.so -g1 --check-bounds=yes --inline=yes --pkgimages=existing -e 'using BEAST'`, ProcessExited(1)) [1] Stacktrace: [1] pipeline_error @ ./process.jl:598 [inlined] [2] run(::Cmd; wait::Bool) @ Base ./process.jl:513 [3] run(::Cmd) @ Base ./process.jl:510 [4] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:193 [5] include(mod::Module, _path::String) @ Base ./Base.jl:306 [6] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [7] _start() @ Base ./client.jl:560 in expression starting at /PkgEval.jl/scripts/evaluate.jl:184 PkgEval failed after 91.73s: package fails to precompile