Package evaluation to test PALEOaqchem on Julia 1.12.4 (0f21d93eaa*) started at 2026-01-27T07:01:36.738 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.12` Set-up completed after 7.9s ################################################################################ # Installation # Installing PALEOaqchem... Resolving package versions... Updating `~/.julia/environments/v1.12/Project.toml` [673cec3b] + PALEOaqchem v0.3.19 Updating `~/.julia/environments/v1.12/Manifest.toml` [79e6a3ab] + Adapt v4.4.0 [ec485272] + ArnoldiMethod v0.4.0 [a9b6321e] + Atomix v1.1.2 [13072b0f] + AxisAlgorithms v1.1.0 [6e4b80f9] + BenchmarkTools v1.6.3 [e1450e63] + BufferedStreams v1.2.2 [179af706] + CFTime v0.2.5 [d360d2e6] + ChainRulesCore v1.26.0 [da1fd8a2] + CodeTracking v3.0.0 [944b1d66] + CodecZlib v0.7.8 [1fbeeb36] + CommonDataModel v0.4.2 [34da2185] + Compat v4.18.1 [807dbc54] + Compiler v0.1.1 [187b0558] + ConstructionBase v1.6.0 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.8.1 [864edb3b] + DataStructures v0.19.3 [e2d170a0] + DataValueInterfaces v1.0.0 [3c3547ce] + DiskArrays v0.4.19 [ffbed154] + DocStringExtensions v0.9.5 [e2ba6199] + ExprTools v0.1.10 [86223c79] + Graphs v1.13.4 [f67ccb44] + HDF5 v0.17.2 [5903a43b] + Infiltrator v1.9.7 [d25df0c9] + Inflate v0.1.5 [842dd82b] + InlineStrings v1.4.5 ⌅ [a98d9a8b] + Interpolations v0.15.1 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.6 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.1 [682c06a0] + JSON v1.4.0 [aa1ae85d] + JuliaInterpreter v0.10.9 [8ac3fa9e] + LRUCache v1.6.2 [b964fa9f] + LaTeXStrings v1.4.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [6f1432cf] + LoweredCodeUtils v3.5.0 ⌅ [23992714] + MAT v0.10.7 [3da0fdf6] + MPIPreferences v0.1.11 [1914dd2f] + MacroTools v0.5.16 [e1d29d7a] + Missings v1.2.0 [85f8d34a] + NCDatasets v0.14.10 [6fe1bfb0] + OffsetArrays v1.17.0 [bac558e1] + OrderedCollections v1.8.1 [673cec3b] + PALEOaqchem v0.3.19 ⌃ [804b410e] + PALEOboxes v0.22.3 [69de0a69] + Parsers v2.8.3 [2dfb63ee] + PooledArrays v1.4.3 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.1 [08abe8d2] + PrettyTables v3.1.2 [c84ed2f1] + Ratios v0.4.5 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [295af30f] + Revise v3.13.2 [fdea26ae] + SIMD v3.7.2 [91c51154] + SentinelArrays v1.4.9 [699a6c99] + SimpleTraits v0.9.5 [a2af1166] + SortingAlgorithms v1.2.2 [276daf66] + SpecialFunctions v2.6.1 [90137ffa] + StaticArrays v1.9.16 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [69024149] + StringEncodings v0.3.7 [892a3eda] + StringManipulation v0.4.2 [09ab397b] + StructArrays v0.7.2 [ec057cc2] + StructUtils v2.6.2 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [1e6cf692] + TestEnv v1.103.2 [a759f4b9] + TimerOutputs v0.5.29 [3bb67fe8] + TranscodingStreams v0.11.3 [013be700] + UnsafeAtomics v0.3.0 [efce3f68] + WoodburyMatrices v1.1.0 [ddb6d928] + YAML v0.4.16 [0b7ba130] + Blosc_jll v1.21.7+0 [6e34b625] + Bzip2_jll v1.0.9+0 ⌅ [0234f1f7] + HDF5_jll v1.14.6+0 [e33a78d0] + Hwloc_jll v2.12.2+0 [1d63c593] + LLVMOpenMP_jll v18.1.8+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [5ced341a] + Lz4_jll v1.10.1+0 [7cb0a576] + MPICH_jll v4.3.2+0 [f1f71cc9] + MPItrampoline_jll v5.5.4+0 [9237b28f] + MicrosoftMPI_jll v10.1.4+3 [7243133f] + NetCDF_jll v401.900.300+0 [fe0851c0] + OpenMPI_jll v5.0.9+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [63e82ce6] + SLEEF_jll v3.9.0+0 ⌅ [02c8fc9c] + XML2_jll v2.13.9+0 [ffd25f8a] + XZ_jll v5.8.2+0 [a65dc6b1] + Xorg_libpciaccess_jll v0.18.1+0 [3161d3a3] + Zstd_jll v1.5.7+1 [477f73a3] + libaec_jll v1.1.5+0 [337d8026] + libzip_jll v1.11.3+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 [9fa8497b] + Future 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 v1.12.1 [de0858da] + Printf v1.11.0 [9abbd945] + Profile 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 [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 [05823500] + OpenLibm_jll v0.8.7+0 [458c3c95] + OpenSSL_jll v3.5.4+0 [bea87d4a] + SuiteSparse_jll v7.8.3+2 [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 ⌃ 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` Installation completed after 11.71s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... ┌ Warning: Could not use exact versions of packages in manifest, re-resolving └ @ TestEnv ~/.julia/packages/TestEnv/h9a3r/src/julia-1.12/activate_set.jl:78 Precompiling package dependencies... Precompiling packages... 71945.8 ms ✓ NonlinearSolveBase → NonlinearSolveBaseSparseMatrixColoringsExt 96029.4 ms ✓ NonlinearSolveBase → NonlinearSolveBaseForwardDiffExt 4677.9 ms ✓ NonlinearSolveBase → NonlinearSolveBaseSparseArraysExt 4315.6 ms ✓ NonlinearSolveBase → NonlinearSolveBaseLineSearchExt 126378.8 ms ✓ NonlinearSolveBase → NonlinearSolveBaseLinearSolveExt 28639.2 ms ✓ SparseDiffTools → SparseDiffToolsPolyesterExt 12545.5 ms ✓ LinearSolve → LinearSolveForwardDiffExt 109019.5 ms ✓ BracketingNonlinearSolve → BracketingNonlinearSolveForwardDiffExt 98718.7 ms ✓ LineSearch → LineSearchLineSearchesExt 25666.6 ms ✓ LinearSolve → LinearSolveSparspakExt ✗ PALEOboxes 24585.4 ms ✓ DiffEqBase → DiffEqBaseForwardDiffExt 51089.8 ms ✓ Sundials 12767.7 ms ✓ OrdinaryDiffEqStabilizedRK 11324.4 ms ✓ OrdinaryDiffEqSSPRK 16701.4 ms ✓ OrdinaryDiffEqLinear 11865.0 ms ✓ OrdinaryDiffEqLowStorageRK 52280.6 ms ✓ NonlinearSolveSpectralMethods 127501.2 ms ✓ NonlinearSolveQuasiNewton 12301.6 ms ✓ BracketingNonlinearSolve → BracketingNonlinearSolveChainRulesCoreExt 56646.8 ms ✓ SimpleNonlinearSolve ✗ PALEOaqchem 90773.1 ms ✓ NonlinearSolveFirstOrder 37756.0 ms ✓ OrdinaryDiffEqDifferentiation ✗ PALEOmodel 5655.1 ms ✓ NonlinearSolveSpectralMethods → NonlinearSolveSpectralMethodsForwardDiffExt 10070.2 ms ✓ NonlinearSolveQuasiNewton → NonlinearSolveQuasiNewtonForwardDiffExt 6168.9 ms ✓ SimpleNonlinearSolve → SimpleNonlinearSolveDiffEqBaseExt 51303.0 ms ✓ SimpleNonlinearSolve → SimpleNonlinearSolveChainRulesCoreExt ✗ PALEOocean 53391.6 ms ✓ OrdinaryDiffEqExponentialRK 19300.6 ms ✓ OrdinaryDiffEqExtrapolation 55600.2 ms ✓ OrdinaryDiffEqRosenbrock 496022.7 ms ✓ NonlinearSolve ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 47 running 0 of 1 signal (10): User defined signal 1 epoll_pwait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv__io_poll at /workspace/srcdir/libuv/src/unix/linux.c:1404 uv_run at /workspace/srcdir/libuv/src/unix/core.c:430 ijl_task_get_next at /source/src/scheduler.c:457 poptask at ./task.jl:1216 wait at ./task.jl:1228 #wait#398 at ./condition.jl:141 _trywait at ./asyncevent.jl:163 #634 at ./asyncevent.jl:359 jfptr_YY.634_17279.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4010 [inlined] ijl_apply_generic at /source/src/gf.c:4210 jl_apply at /source/src/julia.h:2391 [inlined] start_task at /source/src/task.c:1252 unknown function (ip: (nil)) at (unknown file) ============================================================== Profile collected. A report will print at the next yield point ============================================================== ┌ Warning: There were no samples collected in one or more groups. │ This may be due to idle threads, or you may need to run your │ program longer (perhaps by running it multiple times), │ or adjust the delay between samples with `Profile.init()`. └ @ Profile /opt/julia/share/julia/stdlib/v1.12/Profile/src/Profile.jl:1361 Overhead ╎ [+additional indent] Count File:Line Function ========================================================= Thread 1 (default) Task 0x00007f2402094d30 Total snapshots: 439. Utilization: 0% ╎439 @Base/asyncevent.jl:359 (::Base.var"#634#635"{FileWatching.Pidfile.var… ╎ 439 @Base/asyncevent.jl:163 _trywait(t::Timer) ╎ 439 @Base/condition.jl:141 wait(c::Base.GenericCondition{Base.Threads.Sp… ╎ 439 @Base/task.jl:1228 wait() 438╎ 439 @Base/task.jl:1216 poptask(W::Base.IntrusiveLinkedListSynchronized… ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 1 running 0 of 1 signal (10): User defined signal 1 epoll_pwait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv__io_poll at /workspace/srcdir/libuv/src/unix/linux.c:1404 uv_run at /workspace/srcdir/libuv/src/unix/core.c:430 ijl_task_get_next at /source/src/scheduler.c:457 poptask at ./task.jl:1216 wait at ./task.jl:1228 task_done_hook at ./task.jl:868 jfptr_task_done_hook_59255.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4010 [inlined] ijl_apply_generic at /source/src/gf.c:4210 jl_apply at /source/src/julia.h:2391 [inlined] jl_finish_task at /source/src/task.c:341 start_task at /source/src/task.c:1263 unknown function (ip: (nil)) at (unknown file) ============================================================== Profile collected. A report will print at the next yield point ============================================================== ┌ Warning: There were no samples collected in one or more groups. │ This may be due to idle threads, or you may need to run your │ program longer (perhaps by running it multiple times), │ or adjust the delay between samples with `Profile.init()`. └ @ Profile /opt/julia/share/julia/stdlib/v1.12/Profile/src/Profile.jl:1361 Overhead ╎ [+additional indent] Count File:Line Function ========================================================= Thread 1 (default) Task 0x00007e2d9897e2c0 Total snapshots: 393. Utilization: 0% ╎393 @Base/task.jl:868 task_done_hook(t::Task) ╎ 393 @Base/task.jl:1228 wait() 392╎ 393 @Base/task.jl:1216 poptask(W::Base.IntrusiveLinkedListSynchronized{T… [47] signal 15: Terminated in expression starting at /PkgEval.jl/scripts/precompile.jl:34 epoll_pwait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv__io_poll at /workspace/srcdir/libuv/src/unix/linux.c:1404 uv_run at /workspace/srcdir/libuv/src/unix/core.c:430 ijl_task_get_next at /source/src/scheduler.c:457 poptask at ./task.jl:1216 wait at ./task.jl:1228 #wait#398 at ./condition.jl:141 _trywait at ./asyncevent.jl:163 #634 at ./asyncevent.jl:359 jfptr_YY.634_17279.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4010 [inlined] ijl_apply_generic at /source/src/gf.c:4210 jl_apply at /source/src/julia.h:2391 [inlined] start_task at /source/src/task.c:1252 unknown function (ip: (nil)) at (unknown file) Allocations: 43405626 (Pool: 43404674; Big: 952); GC: 34 PkgEval terminated after 2752.16s: test duration exceeded the time limit