Package evaluation of RetentionParameterEstimator on Julia 1.13.0-DEV.427 (855bef3b06*) started at 2025-04-24T08:31:09.549 ################################################################################ # Set-up # Set-up completed after 0.23s ################################################################################ # Installation # Installing RetentionParameterEstimator... Resolving package versions... Updating `~/.julia/environments/v1.13/Project.toml` [0afdae40] + RetentionParameterEstimator v0.2.0 Updating `~/.julia/environments/v1.13/Manifest.toml` [47edcb42] + ADTypes v1.14.0 [621f4979] + AbstractFFTs v1.5.0 [6e696c72] + AbstractPlutoDingetjes v1.3.2 [1520ce14] + AbstractTrees v0.4.5 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.3.0 [66dad0bd] + AliasTables v1.1.3 [ec485272] + ArnoldiMethod v0.4.0 [7d9fca2a] + Arpack v0.5.4 [4fba245c] + ArrayInterface v7.18.0 [4c555306] + ArrayLayouts v1.11.1 [69666777] + Arrow v2.8.0 [31f734f8] + ArrowTypes v2.3.0 [13072b0f] + AxisAlgorithms v1.1.0 [e2ed5e7c] + Bijections v0.1.9 [d1d4a3ce] + BitFlags v0.1.9 [c3b6d118] + BitIntegers v0.3.5 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [a134a8b2] + BlackBoxOptim v0.6.3 [70df07ce] + BracketingNonlinearSolve v1.2.0 [8d3b24bd] + CMAEvolutionStrategy v0.2.6 [2a0fbf3d] + CPUSummary v0.2.6 [a9c8d775] + CPUTime v1.0.0 [336ed68f] + CSV v0.10.15 [49dc2e85] + Calculus v0.5.2 [d360d2e6] + 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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 [deac9b47] + LibCURL_jll v8.12.1+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 v7.10.1+0 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.12.0+0 [8e850ede] + nghttp2_jll v1.65.0+0 [3f19e933] + p7zip_jll v17.5.0+2 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 To see why use `status --outdated -m` Installation completed after 11.85s ################################################################################ # Precompilation # Precompiling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... ✗ MatrixEquations 7988.3 ms ✓ ForwardDiffOverMeasurements ✗ Manifolds GasChromatographySimulator Waiting for background task / IO / timer. [pid 458] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 458] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 458] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 458] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 458] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 458] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 458] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. 2.0522375e6 ms ✓ GasChromatographySimulator ✗ Manifolds → ManifoldsTestExt ✗ Manifolds → ManifoldsRecipesBaseExt ✗ Manifolds → ManifoldsOrdinaryDiffEqExt ✗ SymbolicAnalysis ✗ OptimizationBase ✗ OptimizationBase → OptimizationFiniteDiffExt ✗ OptimizationBase → OptimizationForwardDiffExt ✗ Optimization ✗ OptimizationCMAEvolutionStrategy ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 8 running 0 of 2 signal (10): User defined signal 1 unknown function (ip: 0x7a66fa281f14) at /lib/x86_64-linux-gnu/libc.so.6 pthread_cond_wait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv_cond_wait at /workspace/srcdir/libuv/src/unix/thread.c:822 ijl_task_get_next at /source/src/scheduler.c:520 wait at ./task.jl:1216 wait_forever at ./task.jl:1150 jfptr_wait_forever_30085.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3498 [inlined] ijl_apply_generic at /source/src/gf.c:3698 jl_apply at /source/src/julia.h:2353 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) 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:454 wait at ./task.jl:1216 wait_forever at ./task.jl:1150 jfptr_wait_forever_30085.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3498 [inlined] ijl_apply_generic at /source/src/gf.c:3698 jl_apply at /source/src/julia.h:2353 [inlined] start_task at /source/src/task.c:1249 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/v1.13/Profile/src/Profile.jl:1362 Overhead ╎ [+additional indent] Count File:Line Function ========================================================= Thread 1 (interactive) Task 0x00007a66cc398100 Total snapshots: 450. Utilization: 0% ╎450 @Base/task.jl:1150 wait_forever() 449╎ 450 @Base/task.jl:1216 wait() Thread 2 (default) Task 0x00007a66f01fc100 Total snapshots: 450. Utilization: 0% ╎450 @Base/task.jl:1150 wait_forever() 449╎ 450 @Base/task.jl:1216 wait() ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 1 running 0 of 2 signal (10): User defined signal 1 unknown function (ip: 0x766d6e143f14) at /lib/x86_64-linux-gnu/libc.so.6 pthread_cond_wait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv_cond_wait at /workspace/srcdir/libuv/src/unix/thread.c:822 ijl_task_get_next at /source/src/scheduler.c:520 wait at ./task.jl:1216 wait_forever at ./task.jl:1150 jfptr_wait_forever_30085.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3498 [inlined] ijl_apply_generic at /source/src/gf.c:3698 jl_apply at /source/src/julia.h:2353 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) 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:454 wait at ./task.jl:1216 wait_forever at ./task.jl:1150 jfptr_wait_forever_30085.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3498 [inlined] ijl_apply_generic at /source/src/gf.c:3698 jl_apply at /source/src/julia.h:2353 [inlined] start_task at /source/src/task.c:1249 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/v1.13/Profile/src/Profile.jl:1362 Overhead ╎ [+additional indent] Count File:Line Function ========================================================= Thread 1 (interactive) Task 0x0000766d415a2770 Total snapshots: 449. Utilization: 0% ╎449 @Base/task.jl:1150 wait_forever() 448╎ 449 @Base/task.jl:1216 wait() Thread 2 (default) Task 0x0000766d63ffc100 Total snapshots: 449. Utilization: 0% ╎449 @Base/task.jl:1150 wait_forever() 448╎ 449 @Base/task.jl:1216 wait() [1] signal 15: Terminated in expression starting at /PkgEval.jl/scripts/evaluate.jl:152 unknown function (ip: 0x766d6e143f14) at /lib/x86_64-linux-gnu/libc.so.6 pthread_cond_wait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv_cond_wait at /workspace/srcdir/libuv/src/unix/thread.c:822 ijl_task_get_next at /source/src/scheduler.c:520 [8] signal 15: Terminated in expression starting at /PkgEval.jl/scripts/precompile.jl:37 unknown function (ip: 0x7a66fa281f14) at /lib/x86_64-linux-gnu/libc.so.6 pthread_cond_wait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv_cond_wait at /workspace/srcdir/libuv/src/unix/thread.c:822 ijl_task_get_next at /source/src/scheduler.c:520 wait at ./task.jl:1216 wait at ./task.jl:1216 wait_forever at ./task.jl:1150 wait_forever at ./task.jl:1150 jfptr_wait_forever_30085.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3498 [inlined] ijl_apply_generic at /source/src/gf.c:3698 jfptr_wait_forever_30085.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3498 [inlined] ijl_apply_generic at /source/src/gf.c:3698 jl_apply at /source/src/julia.h:2353 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) epoll_pwait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) jl_apply at /source/src/julia.h:2353 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) 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:454 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:454 wait at ./task.jl:1216 wait at ./task.jl:1216 wait_forever at ./task.jl:1150 wait_forever at ./task.jl:1150 jfptr_wait_forever_30085.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3498 [inlined] ijl_apply_generic at /source/src/gf.c:3698 jfptr_wait_forever_30085.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3498 [inlined] ijl_apply_generic at /source/src/gf.c:3698 jl_apply at /source/src/julia.h:2353 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) Allocations: 25240085 (Pool: 25239619; Big: 466); GC: 45 jl_apply at /source/src/julia.h:2353 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) Allocations: 23588147 (Pool: 23587534; Big: 613); GC: 13 val already in a list atexit hook threw an error: ErrorException("schedule: Task not runnable") error at ./error.jl:44 #schedule#597 at ./task.jl:1035 schedule at ./task.jl:1027 [inlined] uv_writecb_task at ./stream.jl:1200 jlcapi_YY.uv_writecb_task_21216.1 at /opt/julia/lib/julia/sys.so (unknown line) uv__write_callbacks at /workspace/srcdir/libuv/src/unix/stream.c:926 uv__stream_io at /workspace/srcdir/libuv/src/unix/stream.c:1227 uv__run_pending at /workspace/srcdir/libuv/src/unix/core.c:824 uv_run at /workspace/srcdir/libuv/src/unix/core.c:420 ijl_process_events at /source/src/jl_uv.c:393 process_events at ./libuv.jl:125 [inlined] wait at ./task.jl:1201 uv_write at ./stream.jl:1081 unsafe_write at ./stream.jl:1154 write at ./strings/io.jl:242 [inlined] print at ./strings/io.jl:244 jfptr_print_68649.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3498 [inlined] ijl_apply_generic at /source/src/gf.c:3698 showerror at ./errorshow.jl:161 unknown function (ip: 0x7a66f083a966) at (unknown file) _jl_invoke at /source/src/gf.c:3498 [inlined] ijl_apply_generic at /source/src/gf.c:3698 _atexit at ./initdefs.jl:467 unknown function (ip: 0x7a66f083a8d4) at (unknown file) _jl_invoke at /source/src/gf.c:3498 [inlined] ijl_apply_generic at /source/src/gf.c:3698 jl_apply at /source/src/julia.h:2353 [inlined] ijl_atexit_hook at /source/src/init.c:262 jl_exit_thread0_cb at /source/src/signals-unix.c:564 PkgEval terminated after 2769.73s: test duration exceeded the time limit