Package evaluation of NetworkDynamicsInspector on Julia 1.13.0-DEV.582 (c0a1728d50*) started at 2025-05-14T22:41:03.010 ################################################################################ # Set-up # Set-up completed after 0.27s ################################################################################ # Installation # Installing NetworkDynamicsInspector... Resolving package versions... Updating `~/.julia/environments/v1.13/Project.toml` [0a4713f2] + NetworkDynamicsInspector v0.1.6 Updating `~/.julia/environments/v1.13/Manifest.toml` [47edcb42] + ADTypes v1.14.0 [621f4979] + AbstractFFTs v1.5.0 [1520ce14] + AbstractTrees v0.4.5 [7d9f7c33] + Accessors v0.1.42 [79e6a3ab] + Adapt v4.3.0 [35492f91] + AdaptivePredicates v1.2.0 [66dad0bd] + AliasTables v1.1.3 [27a7e980] + Animations v0.4.2 [dce04be8] + ArgCheck v2.5.0 [ec485272] + ArnoldiMethod v0.4.0 [4fba245c] + ArrayInterface v7.19.0 [4c555306] + ArrayLayouts v1.11.1 [a9b6321e] + Atomix v1.1.1 [67c07d97] + Automa v1.1.0 [13072b0f] + AxisAlgorithms v1.1.0 [39de3d68] + AxisArrays v0.4.7 [d1d4a3ce] + BitFlags v0.1.9 [62783981] + BitTwiddlingConvenienceFunctions v0.1.6 [824d6782] + Bonito v4.0.3 [70df07ce] + BracketingNonlinearSolve v1.2.0 [fa961155] + CEnum v0.5.0 [2a0fbf3d] + CPUSummary v0.2.6 [96374032] + CRlibm v1.0.2 [d360d2e6] + ChainRulesCore v1.25.1 [fb6a15b2] + CloseOpenIntervals v0.1.13 [944b1d66] + CodecZlib 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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 To see why use `status --outdated -m` Installation completed after 7.86s ################################################################################ # Precompilation # Precompiling PkgEval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... 129403.6 ms ? SciMLBase → SciMLBaseMakieExt 378700.6 ms ? WGLMakie 314149.2 ms ? NetworkDynamics ✗ NetworkDynamicsInspector 0 dependencies successfully precompiled in 2641 seconds. 444 already precompiled. 3 dependencies failed but may be precompilable after restarting julia 3 dependencies had output during precompilation: ┌ NetworkDynamics │ WARNING: Method definition (::Type{SparseArrays.SparseMatrixCSC{Tv, Ti}})(FillArrays.Zeros{T, 2, Axes}) where {Tv, Ti<:Integer, T, Axes} in module FillArraysSparseArraysExt at /home/pkgeval/.julia/packages/FillArrays/lVl4c/ext/FillArraysSparseArraysExt.jl:23 overwritten in module FillArraysSparseArraysExt on the same line (check for duplicate calls to `include`). │ ERROR: Method overwriting is not permitted during Module precompilation. Use `__precompile__(false)` to opt-out of precompilation. └ ┌ WGLMakie │ WARNING: Method definition kwcall(NamedTuple{names, T} where T<:Tuple where names, typeof(Statistics.cov), SparseArrays.SparseMatrixCSC{Tv, Ti} where Ti<:Integer where Tv) in module SparseArraysExt at /home/pkgeval/.julia/packages/Statistics/gbcbG/ext/SparseArraysExt.jl:14 overwritten in module SparseArraysExt on the same line (check for duplicate calls to `include`). │ ERROR: Method overwriting is not permitted during Module precompilation. Use `__precompile__(false)` to opt-out of precompilation. └ ┌ SciMLBase → SciMLBaseMakieExt │ WARNING: Method definition (::Type{ChainRulesCore.ProjectTo{P, D} where D<:(NamedTuple{names, T} where T<:Tuple where names) where P})(SparseArrays.SparseVector{T, Ti} where Ti<:Integer) where {T<:Number} in module ChainRulesCoreSparseArraysExt at /home/pkgeval/.julia/packages/ChainRulesCore/U6wNx/ext/ChainRulesCoreSparseArraysExt.jl:14 overwritten in module ChainRulesCoreSparseArraysExt on the same line (check for duplicate calls to `include`). │ ERROR: Method overwriting is not permitted during Module precompilation. Use `__precompile__(false)` to opt-out of precompilation. └ ERROR: LoadError: The following 1 direct dependency failed to precompile: NetworkDynamicsInspector Failed to precompile NetworkDynamicsInspector [0a4713f2-d58f-43f2-b63b-1b5d5ee4e65a] to "/home/pkgeval/.julia/compiled/v1.13/NetworkDynamicsInspector/jl_Y23Ykn" (ProcessExited(1)). WARNING: Detected access to binding `NonlinearSolveFirstOrder.GeneralizedFirstOrderAlgorithm` in a world prior to its definition world. Julia 1.12 has introduced more strict world age semantics for global bindings. !!! This code may malfunction under Revise. !!! This code will error in future versions of Julia. Hint: Add an appropriate `invokelatest` around the access to this binding. To make this warning an error, and hence obtain a stack trace, use `julia --depwarn=error`. WARNING: Detected access to binding `SimpleNonlinearSolve.SimpleNewtonRaphson` in a world prior to its definition world. Julia 1.12 has introduced more strict world age semantics for global bindings. !!! This code may malfunction under Revise. !!! This code will error in future versions of Julia. Hint: Add an appropriate `invokelatest` around the access to this binding. To make this warning an error, and hence obtain a stack trace, use `julia --depwarn=error`. WARNING: Constructor for type "Pointf" was extended in `GraphMakie` without explicit qualification or import. NOTE: Assumed "Pointf" refers to `GeometryBasics.Pointf`. This behavior is deprecated and may differ in future versions. NOTE: This behavior may have differed in Julia versions prior to 1.12. Hint: If you intended to create a new generic function of the same name, use `function Pointf end`. Hint: To silence the warning, qualify `Pointf` as `GeometryBasics.Pointf` in the method signature or explicitly `import GeometryBasics: Pointf`. ERROR: LoadError: MethodError: no method matching length(::Observables.Observable{Float64}) The function `length` exists, but no method is defined for this combination of argument types. Closest candidates are: length(!Matched::StatsBase.CoefTable) @ StatsBase ~/.julia/packages/StatsBase/s2YJR/src/statmodels.jl:31 length(!Matched::DataStructures.SparseIntSet) @ DataStructures ~/.julia/packages/DataStructures/IrAJn/src/sparse_int_set.jl:61 length(!Matched::RecursiveArrayTools.Chain{Tuple{}}) @ RecursiveArrayTools ~/.julia/packages/RecursiveArrayTools/iAeBW/src/utils.jl:329 ... Stacktrace: [1] _zip_min_length(is::Tuple{Observables.Observable{Float64}}) @ Base.Iterators ./iterators.jl:375 [2] _zip_min_length(is::Tuple{Int64, Observables.Observable{Float64}}) @ Base.Iterators ./iterators.jl:371 [3] length(z::Base.Iterators.Zip{Tuple{Int64, Observables.Observable{Float64}}}) @ Base.Iterators ./iterators.jl:365 [4] length(g::Base.Generator{Base.Iterators.Zip{Tuple{Int64, Observables.Observable{Float64}}}, Base.var"#Generator##0#Generator##1"{NetworkDynamicsInspector.var"#28#29"}}) @ Base ./generator.jl:51 [5] _similar_shape(itr::Base.Generator{Base.Iterators.Zip{Tuple{Int64, Observables.Observable{Float64}}}, Base.var"#Generator##0#Generator##1"{NetworkDynamicsInspector.var"#28#29"}}, ::Base.HasLength) @ Base ./array.jl:657 [6] collect(itr::Base.Generator{Base.Iterators.Zip{Tuple{Int64, Observables.Observable{Float64}}}, Base.var"#Generator##0#Generator##1"{NetworkDynamicsInspector.var"#28#29"}}) @ Base ./array.jl:789 [7] map(f::Function, it::Int64, iters::Observables.Observable{Float64}) @ Base ./abstractarray.jl:3520 [8] RoundedLabel(value::Observables.Observable{Float64}; sigdigits::Int64, style::Bonito.Styles, attributes::@Kwargs{}) @ NetworkDynamicsInspector ~/.julia/packages/NetworkDynamicsInspector/PvsrG/src/widgets.jl:315 [9] RoundedLabel(value::Observables.Observable{Float64}) @ NetworkDynamicsInspector ~/.julia/packages/NetworkDynamicsInspector/PvsrG/src/widgets.jl:313 [10] timeslider_card(app::NetworkDynamicsInspector.AppState) @ NetworkDynamicsInspector ~/.julia/packages/NetworkDynamicsInspector/PvsrG/src/NetworkDynamicsInspector.jl:203 [11] timeseries_col(app::NetworkDynamicsInspector.AppState, session::Bonito.Session{Bonito.WebSocketConnection}) @ NetworkDynamicsInspector ~/.julia/packages/NetworkDynamicsInspector/PvsrG/src/timeseries.jl:34 [12] top-level scope @ ~/.julia/packages/NetworkDynamicsInspector/PvsrG/src/NetworkDynamicsInspector.jl:85 [13] macro expansion @ ~/.julia/packages/PrecompileTools/Z8SWe/src/workloads.jl:73 [inlined] [14] macro expansion @ ~/.julia/packages/NetworkDynamicsInspector/PvsrG/src/NetworkDynamicsInspector.jl:288 [inlined] [15] include(mod::Module, _path::String) @ Base ./Base.jl:309 [16] 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:2983 [17] top-level scope @ stdin:5 [18] eval(m::Module, e::Any) @ Core ./boot.jl:489 [19] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2829 [20] include_string @ ./loading.jl:2839 [inlined] [21] exec_options(opts::Base.JLOptions) @ Base ./client.jl:329 [22] _start() @ Base ./client.jl:564 in expression starting at /home/pkgeval/.julia/packages/NetworkDynamicsInspector/PvsrG/src/NetworkDynamicsInspector.jl:1 in expression starting at stdin: in expression starting at /PkgEval.jl/scripts/precompile.jl:37 Precompilation failed after 2640.79s ################################################################################ # Loading # Loading NetworkDynamicsInspector... Precompiling packages... Info Given NetworkDynamicsInspector was explicitly requested, output will be shown live   ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ======================================================================================  cmd: /opt/julia/bin/julia 580 running 1 of 1  signal (10): User defined signal 1 access at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) uv__fs_work at /workspace/srcdir/libuv/src/unix/fs.c:1633 uv_fs_access at /workspace/srcdir/libuv/src/unix/fs.c:1720 jl_fs_access at /source/src/jl_uv.c:628 ispath at ./stat.jl:377 resolve_depot at ./loading.jl:3366 parse_cache_header at ./loading.jl:3493 sort_by at ./loading.jl:1207 _broadcast_getindex_evalf at ./broadcast.jl:702 [inlined] _broadcast_getindex at ./broadcast.jl:675 [inlined] _getindex at ./broadcast.jl:623 [inlined] getindex at ./broadcast.jl:619 [inlined] macro expansion at ./broadcast.jl:998 [inlined] macro expansion at ./simdloop.jl:77 [inlined] copyto! at ./broadcast.jl:997 [inlined] copyto! at ./broadcast.jl:950 [inlined] copy at ./broadcast.jl:922 [inlined] materialize at ./broadcast.jl:897 [inlined] find_all_in_cache_path at ./loading.jl:1227 #_require_search_from_serialized#884 at ./loading.jl:2042 _require_search_from_serialized at ./loading.jl:1982 jfptr__require_search_from_serialized_74595.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 __require_prelocked at ./loading.jl:2600 _require_prelocked at ./loading.jl:2466 macro expansion at ./loading.jl:2394 [inlined] macro expansion at ./lock.jl:376 [inlined] __require at ./loading.jl:2359 jfptr___require_24513.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 jl_apply at /source/src/julia.h:2345 [inlined] jl_f_invoke_in_world at /source/src/builtins.c:896 require at ./loading.jl:2335 [inlined] eval_import_path at ./module.jl:36 [inlined] eval_import_path_all at ./module.jl:60 _eval_import at ./module.jl:101 _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 jl_apply at /source/src/julia.h:2345 [inlined] do_call at /source/src/interpreter.c:124 eval_value at /source/src/interpreter.c:242 eval_stmt_value at /source/src/interpreter.c:193 [inlined] eval_body at /source/src/interpreter.c:707 jl_interpret_toplevel_thunk at /source/src/interpreter.c:898 jl_toplevel_eval_flex at /source/src/toplevel.c:776 jl_eval_module_expr at /source/src/toplevel.c:200 [inlined] jl_toplevel_eval_flex at /source/src/toplevel.c:661 jl_toplevel_eval_flex at /source/src/toplevel.c:716 ijl_toplevel_eval at /source/src/toplevel.c:788 ijl_toplevel_eval_in at /source/src/toplevel.c:833 eval at ./boot.jl:489 include_string at ./loading.jl:2829 _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 _include at ./loading.jl:2889 include at ./Base.jl:309 include_package_for_output at ./loading.jl:2983 jfptr_include_package_for_output_22605.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 jl_apply at /source/src/julia.h:2345 [inlined] do_call at /source/src/interpreter.c:124 eval_value at /source/src/interpreter.c:242 eval_stmt_value at /source/src/interpreter.c:193 [inlined] eval_body at /source/src/interpreter.c:707 jl_interpret_toplevel_thunk at /source/src/interpreter.c:898 jl_toplevel_eval_flex at /source/src/toplevel.c:776 jl_toplevel_eval_flex at /source/src/toplevel.c:716 ijl_toplevel_eval at /source/src/toplevel.c:788 ijl_toplevel_eval_in at /source/src/toplevel.c:833 eval at ./boot.jl:489 include_string at ./loading.jl:2829 include_string at ./loading.jl:2839 [inlined] exec_options at ./client.jl:329 _start at ./client.jl:564 jfptr__start_20651.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 jl_apply at /source/src/julia.h:2345 [inlined] true_main at /source/src/jlapi.c:959 jl_repl_entrypoint at /source/src/jlapi.c:1126 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x7506e6585249) at /lib/x86_64-linux-gnu/libc.so.6 __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) at /workspace/srcdir/glibc-2.17/csu/../sysdeps/x86_64/start.S unknown function (ip: (nil)) at (unknown file)  ============================================================== Profile collected. A report will print at the next yield point ==============================================================  ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 575 running 0 of 2 signal (10): User defined signal 1 unknown function (ip: 0x756acb42cf14) 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_30607.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 jl_apply at /source/src/julia.h:2345 [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_30607.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 jl_apply at /source/src/julia.h:2345 [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 0x0000756ab4c48970 Total snapshots: 232. Utilization: 0% ╎232 @Base/task.jl:1150 wait_forever() 231╎ 232 @Base/task.jl:1216 wait() Thread 2 (default) Task 0x0000756ab59fc100 Total snapshots: 232. Utilization: 0% ╎232 @Base/task.jl:1150 wait_forever() 231╎ 232 @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: 0x779b2d279f14) 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_30607.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 jl_apply at /source/src/julia.h:2345 [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_30607.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 jl_apply at /source/src/julia.h:2345 [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 0x0000779b16a71c30 Total snapshots: 198. Utilization: 0% ╎198 @Base/task.jl:1150 wait_forever() 197╎ 198 @Base/task.jl:1216 wait() Thread 2 (default) Task 0x0000779b177fc100 Total snapshots: 198. Utilization: 0% ╎198 @Base/task.jl:1150 wait_forever() 197╎ 198 @Base/task.jl:1216 wait() [575] signal 15: Terminated in expression starting at none:1 unknown function (ip: 0x756acb42cf14) 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 [1] signal 15: Terminated in expression starting at /PkgEval.jl/scripts/evaluate.jl:184 unknown function (ip: 0x779b2d279f14) 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_30607.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 jfptr_wait_forever_30607.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 jl_apply at /source/src/julia.h:2345 [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:2345 [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_30607.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 jfptr_wait_forever_30607.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:3490 [inlined] ijl_apply_generic at /source/src/gf.c:3690 jl_apply at /source/src/julia.h:2345 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) Allocations: 11526824 (Pool: 11526613; Big: 211); GC: 24 jl_apply at /source/src/julia.h:2345 [inlined] start_task at /source/src/task.c:1249 unknown function (ip: (nil)) at (unknown file) Allocations: 14659680 (Pool: 14659104; Big: 576); GC: 13  PkgEval terminated after 2734.83s: test duration exceeded the time limit