Package evaluation of SymbolicQuartetNetworkCoal on Julia 1.11.4 (a71dd056e0*) started at 2025-04-08T17:28:05.197 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.74s ################################################################################ # Installation # Installing SymbolicQuartetNetworkCoal... Resolving package versions... Updating `~/.julia/environments/v1.11/Project.toml` [4201568c] + SymbolicQuartetNetworkCoal v0.1.6 Updating `~/.julia/environments/v1.11/Manifest.toml` [66dad0bd] + AliasTables v1.1.3 [67c07d97] + Automa v1.1.0 [47718e42] + BioGenerics v0.1.5 [7e6ae17a] + BioSequences v3.4.1 [3c28c6f8] + BioSymbols v5.1.3 [fa961155] + CEnum v0.5.0 [336ed68f] + CSV v0.10.15 [944b1d66] + CodecZlib v0.7.8 [861a8166] + Combinatorics v1.0.2 [34da2185] + Compat v4.16.0 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.7.0 [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [31c24e10] + Distributions v0.25.118 [ffbed154] + DocStringExtensions v0.9.4 [c2308a5c] + FASTX v2.1.7 [343a5541] + FileCmp v1.0.0 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.13.0 ⌅ [d9f16b24] + Functors v0.4.12 [38e38edf] + GLM v1.9.0 [34004b35] + HypergeometricFunctions v0.3.28 [842dd82b] + InlineStrings v1.4.3 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.0 [b964fa9f] + LaTeXStrings v1.4.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [e1d29d7a] + Missings v1.2.0 [76087f3c] + NLopt v1.1.3 [bac558e1] + OrderedCollections v1.8.0 [90014a1f] + PDMats v0.11.33 [69de0a69] + Parsers v2.8.1 ⌅ [33ad39ac] + PhyloNetworks v0.16.4 [2dfb63ee] + PooledArrays v1.4.3 ⌅ [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.4.3 [08abe8d2] + PrettyTables v2.4.0 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [189a3867] + Reexport v1.2.2 [79098fc4] + Rmath v0.8.0 [fdea26ae] + SIMD v3.7.1 [91c51154] + SentinelArrays v1.4.8 [1277b4bf] + ShiftedArrays v2.0.0 [a2af1166] + SortingAlgorithms v1.2.1 [276daf66] + SpecialFunctions v2.5.0 [90137ffa] + StaticArrays v1.9.13 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.0 [2913bbd2] + StatsBase v0.34.4 [4c63d2b9] + StatsFuns v1.4.0 [3eaba693] + StatsModels v0.7.4 [892a3eda] + StringManipulation v0.4.1 [354b36f9] + StringViews v1.3.4 [4201568c] + SymbolicQuartetNetworkCoal v0.1.6 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.0 [3bb67fe8] + TranscodingStreams v0.11.3 [7200193e] + Twiddle v1.1.2 [ea10d353] + WeakRefStrings v1.4.2 [76eceee3] + WorkerUtilities v1.6.1 [079eb43e] + NLopt_jll v2.10.0+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.11.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [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 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.11.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0 [4536629a] + OpenBLAS_jll v0.3.27+1 [05823500] + OpenLibm_jll v0.8.5+0 [bea87d4a] + SuiteSparse_jll v7.7.0+0 [83775a58] + Zlib_jll v1.2.13+1 [8e850b90] + libblastrampoline_jll v5.11.0+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 4.36s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 66.08s ################################################################################ # Testing # Testing SymbolicQuartetNetworkCoal Status `/tmp/jl_FTLWoe/Project.toml` [336ed68f] CSV v0.10.15 [861a8166] Combinatorics v1.0.2 [a93c6f00] DataFrames v1.7.0 [343a5541] FileCmp v1.0.0 ⌅ [33ad39ac] PhyloNetworks v0.16.4 [90137ffa] StaticArrays v1.9.13 [4201568c] SymbolicQuartetNetworkCoal v0.1.6 [ade2ca70] Dates v1.11.0 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_FTLWoe/Manifest.toml` [66dad0bd] AliasTables v1.1.3 [67c07d97] Automa v1.1.0 [47718e42] BioGenerics v0.1.5 [7e6ae17a] BioSequences v3.4.1 [3c28c6f8] BioSymbols v5.1.3 [fa961155] CEnum v0.5.0 [336ed68f] CSV v0.10.15 [944b1d66] CodecZlib v0.7.8 [861a8166] Combinatorics v1.0.2 [34da2185] Compat v4.16.0 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.7.0 [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [31c24e10] Distributions v0.25.118 [ffbed154] DocStringExtensions v0.9.4 [c2308a5c] FASTX v2.1.7 [343a5541] FileCmp v1.0.0 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.13.0 ⌅ [d9f16b24] Functors v0.4.12 [38e38edf] GLM v1.9.0 [34004b35] HypergeometricFunctions v0.3.28 [842dd82b] InlineStrings v1.4.3 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.4 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.0 [b964fa9f] LaTeXStrings v1.4.0 [2ab3a3ac] LogExpFunctions v0.3.29 [e1d29d7a] Missings v1.2.0 [76087f3c] NLopt v1.1.3 [bac558e1] OrderedCollections v1.8.0 [90014a1f] PDMats v0.11.33 [69de0a69] Parsers v2.8.1 ⌅ [33ad39ac] PhyloNetworks v0.16.4 [2dfb63ee] PooledArrays v1.4.3 ⌅ [aea7be01] PrecompileTools v1.2.1 [21216c6a] Preferences v1.4.3 [08abe8d2] PrettyTables v2.4.0 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [189a3867] Reexport v1.2.2 [79098fc4] Rmath v0.8.0 [fdea26ae] SIMD v3.7.1 [91c51154] SentinelArrays v1.4.8 [1277b4bf] ShiftedArrays v2.0.0 [a2af1166] SortingAlgorithms v1.2.1 [276daf66] SpecialFunctions v2.5.0 [90137ffa] StaticArrays v1.9.13 [1e83bf80] StaticArraysCore v1.4.3 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.0 [2913bbd2] StatsBase v0.34.4 [4c63d2b9] StatsFuns v1.4.0 [3eaba693] StatsModels v0.7.4 [892a3eda] StringManipulation v0.4.1 [354b36f9] StringViews v1.3.4 [4201568c] SymbolicQuartetNetworkCoal v0.1.6 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.0 [3bb67fe8] TranscodingStreams v0.11.3 [7200193e] Twiddle v1.1.2 [ea10d353] WeakRefStrings v1.4.2 [76eceee3] WorkerUtilities v1.6.1 [079eb43e] NLopt_jll v2.10.0+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [8ba89e20] Distributed v1.11.0 [9fa8497b] Future v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.11.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [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 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.11.0 [f489334b] StyledStrings v1.11.0 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.1.1+0 [4536629a] OpenBLAS_jll v0.3.27+1 [05823500] OpenLibm_jll v0.8.5+0 [bea87d4a] SuiteSparse_jll v7.7.0+0 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... Working on case 1... Currenet tree: (((((l5:0.1664783496,l6:0.1664783496):0.6767074817,((l4:0.4130312655,#H22:0::0.4947198884):0.4118184007,#H20:0::0.2133819044):0.01833616505):0.1278079439,(l3:0.8248496662,(t23:0.5885991022)#H20:0::0.7866180956):0.146144109):0.5492092465,(((l7:0.1407353436,(l9:0.1407353436)#H27:0::0.8116102164):0.2684427227,(l8:0.1407353436,#H27:0::0.1883897836):0.2684427227):0.003853199247,((t20:0.1347850139,(l10:0.001118898918,l11:0.001118898918):0.133666115):0.2782462516)#H22:0::0.5052801116):1.107171756):1.332726873); Working on case 2... Currenet tree: (((t30:0.7285032652,(t18:0.1515375008,(l9:0.5208846401)#H27:0::0.5211941639):0.2076186251):0.8657305732,((((l10:0.3137597026,(((t1:0.03496535523,l14:0.03496535523):0.08835764542,#H31:0::0.268729411):0.03158838592,(l12:0.07008192259,l13:0.07008192259):0.08482946399):0.1588483161):0.2800449035,(t27:0.05187460618,t35:0.03030241156):0.4485666195):0.04627082576,t15:0.02770807543):0.398654218,((l8:0.5208846401,#H27:0::0.4788058361):0.1359950156,(t19:0.1233230007,(l11:0.1233230007)#H31:0::0.731270589):0.533556655):0.3818499942):0.5555041885):0.054269346); Working on case 3... Currenet tree: ((((l3:0.1373377443,((l7:0.06320871795,#H26:0::0.4110993032):0.07412902633)#H22:0::0.6650384533):0.03867861343,((l9:0.01625268411,l10:0.01625268411):0.1210850602,#H22:0::0.3349615467):0.03867861343):0.9241116282,(((t26:0.06320871795,(l8:0.06320871795)#H26:0::0.5889006968):0.5955321661,(l5:0.108066245,#H25:0::0.1506998961):0.5506746391):0.1674148779,((l4:0.108066245,(l6:0.108066245)#H25:0::0.8493001039):0.5249340864,l2:0.6330003313):0.1931554306):0.2739722239):1.432401947); Working on case 4... Currenet tree: ((((t15:0.07040537485,#H24:0::0.4504448932):0.01150989867,(t7:0.07040537485,(l8:0.07040537485)#H24:0::0.5495551068):0.01150989867):1.230948336,((((l10:0.01504175646,l11:0.01504175646):0.005468897682,#H25:0::0.3940135538):0.464959238,(((t16:0.02051065414,(l9:0.02051065414)#H25:0::0.6059864462):0.2449682468,(l6:0.1415032875,l7:0.1415032875):0.1239756134):0.1789068335,t2:0.4443857344):0.04108415777):0.1643644881,t26:0.08810509799):0.6630292296):0.00638155518); Working on case 5... Currenet tree: ((((((l4:0.5123412698,((l6:0.2595034549,(l7:0.2595034549)#H23:0::0.8084039739):0.09910063443,l5:0.3586040893):0.1537371804):0.06965039062,l3:0.5819916604):0.07664865877,((l10:0.002493009485,l11:0.002493009485):0.00183224544,l9:0.004325254925):0.6543150642):0.04273592269,(t24:0.1103063258,l8:0.2557647145):0.4456115273):0.7054260543,(t16:0.2595034549,#H23:0::0.1915960261):1.147298841):0.1291120394); Working on case 6... Currenet tree: (((((((l8:0.2064866414,l9:0.2064866414):0.07514545388,l2:0.2816320953):0.04466309714,#H21:0::0.1897444153):0.2942146056,((((l5:0.2108277559,#H28:0::0.4929642424):0.01662910271,(l4:0.2274568586)#H26:0::0.7461824327):0.09883833378,((l6:0.2108277559,(l7:0.2108277559)#H28:0::0.5070357576):0.1154674365)#H21:0::0.8102555847):0.03898303431,(l3:0.2274568586,#H26:0::0.2538175673):0.1378213681):0.2552315713):0.102514717,(l10:0.09798787901,l11:0.09798787901):0.625036636):1.273426331,t13:0.07568788125):0.6432124533); ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile ====================================================================================== cmd: /opt/julia/bin/julia 23 running 1 of 1 signal (10): User defined signal 1 #133 at ./array.jl:1116 _growend! at ./array.jl:1116 [inlined] push! at ./array.jl:1261 [inlined] _collect at ./array.jl:654 collect at ./array.jl:647 [inlined] vectorfilter at ./array.jl:3053 [inlined] _shrink at ./array.jl:3058 intersect at ./array.jl:3061 [inlined] #parameterDictionary#2 at /home/pkgeval/.julia/packages/SymbolicQuartetNetworkCoal/n4813/src/symbolicQNC.jl:135 parameterDictionary at /home/pkgeval/.julia/packages/SymbolicQuartetNetworkCoal/n4813/src/symbolicQNC.jl:120 [inlined] #network_expectedCF_formulas#23 at /home/pkgeval/.julia/packages/SymbolicQuartetNetworkCoal/n4813/src/symbolicQNC.jl:493 network_expectedCF_formulas at /home/pkgeval/.julia/packages/SymbolicQuartetNetworkCoal/n4813/src/symbolicQNC.jl:435 [inlined] #1 at /home/pkgeval/.julia/packages/SymbolicQuartetNetworkCoal/n4813/test/test_symbolicQNC.jl:73 #open#463 at ./io.jl:410 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 open at ./io.jl:407 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 eval_body at /source/src/interpreter.c:539 eval_body at /source/src/interpreter.c:539 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2734 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 _include at ./loading.jl:2794 include at ./sysimg.jl:38 unknown function (ip: 0x73e93de94082) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 eval_body at /source/src/interpreter.c:539 eval_body at /source/src/interpreter.c:539 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2734 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 _include at ./loading.jl:2794 include at ./sysimg.jl:38 unknown function (ip: 0x73e93de94082) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] exec_options at ./client.jl:296 _start at ./client.jl:531 jfptr__start_73523.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] true_main at /source/src/jlapi.c:900 jl_repl_entrypoint at /source/src/jlapi.c:1059 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x73e93f186249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) unknown function (ip: (nil)) ============================================================== 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 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:522 poptask at ./task.jl:1012 wait at ./task.jl:1021 #wait#731 at ./condition.jl:130 wait at ./condition.jl:125 [inlined] wait at ./process.jl:694 wait at ./process.jl:687 unknown function (ip: 0x740d0d963412) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 subprocess_handler at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2142 #131 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2082 withenv at ./env.jl:265 #118 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1931 with_temp_env at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1789 #116 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1898 #mktempdir#28 at ./file.jl:819 unknown function (ip: 0x740d0d95bbad) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 mktempdir at ./file.jl:815 mktempdir at ./file.jl:815 [inlined] #sandbox#115 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1845 [inlined] sandbox at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1837 unknown function (ip: 0x740d0d95016a) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 #test#128 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2063 test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2007 [inlined] #test#146 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:481 test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:460 unknown function (ip: 0x740d0d94fe6d) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 #test#77 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:159 unknown function (ip: 0x740d0d94f85d) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:148 #test#75 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:147 [inlined] test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:147 [inlined] #test#74 at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:146 [inlined] test at /source/usr/share/julia/stdlib/v1.11/Pkg/src/API.jl:146 unknown function (ip: 0x740d0d94bd06) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 eval_body at /source/src/interpreter.c:539 eval_body at /source/src/interpreter.c:539 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2734 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 _include at ./loading.jl:2794 include at ./Base.jl:557 jfptr_include_46977.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 exec_options at ./client.jl:323 _start at ./client.jl:531 jfptr__start_73523.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] true_main at /source/src/jlapi.c:900 jl_repl_entrypoint at /source/src/jlapi.c:1059 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x740d0eccc249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) unknown function (ip: (nil)) ============================================================== 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/v1.11/Profile/src/Profile.jl:1240 Overhead ╎ [+additional indent] Count File:Line; Function ========================================================= Thread 1 Task 0x0000740d01600010 Total snapshots: 37. Utilization: 0% ╎37 @Base/client.jl:531; _start() ╎ 37 @Base/client.jl:323; exec_options(opts::Base.JLOptions) ╎ 37 @Base/Base.jl:557; include(mod::Module, _path::String) ╎ 37 @Base/loading.jl:2794; _include(mapexpr::Function, mod::Module, _path:… ╎ 37 @Base/loading.jl:2734; include_string(mapexpr::typeof(identity), mod:… ╎ 37 @Base/boot.jl:430; eval ╎ ╎ 37 @Pkg/src/API.jl:146; kwcall(::@NamedTuple{julia_args::Cmd}, ::typeo… ╎ ╎ 37 @Pkg/src/API.jl:146; #test#74 ╎ ╎ 37 @Pkg/src/API.jl:147; test ╎ ╎ 37 @Pkg/src/API.jl:147; #test#75 ╎ ╎ 37 @Pkg/src/API.jl:148; kwcall(::@NamedTuple{julia_args::Cmd}, ::t… ╎ ╎ ╎ 37 @Pkg/src/API.jl:159; test(pkgs::Vector{Pkg.Types.PackageSpec};… ╎ ╎ ╎ 37 @Pkg/src/API.jl:460; kwcall(::@NamedTuple{julia_args::Cmd, io… ╎ ╎ ╎ 37 @Pkg/src/API.jl:481; test(ctx::Pkg.Types.Context, pkgs::Vect… ╎ ╎ ╎ 37 …src/Operations.jl:2007; test ╎ ╎ ╎ 37 …src/Operations.jl:2063; test(ctx::Pkg.Types.Context, pkgs… ╎ ╎ ╎ ╎ 37 …rc/Operations.jl:1837; kwcall(::@NamedTuple{preferences:… ╎ ╎ ╎ ╎ 37 …rc/Operations.jl:1845; #sandbox#115 ╎ ╎ ╎ ╎ 37 @Base/file.jl:815; mktempdir ╎ ╎ ╎ ╎ 37 @Base/file.jl:815; mktempdir(fn::Function, parent::Str… ╎ ╎ ╎ ╎ 37 @Base/file.jl:819; mktempdir(fn::Pkg.Operations.var"#… ╎ ╎ ╎ ╎ ╎ 37 …/Operations.jl:1898; (::Pkg.Operations.var"#116#121… ╎ ╎ ╎ ╎ ╎ 37 …/Operations.jl:1789; with_temp_env(fn::Pkg.Operati… ╎ ╎ ╎ ╎ ╎ 37 …Operations.jl:1931; (::Pkg.Operations.var"#118#12… ╎ ╎ ╎ ╎ ╎ 37 @Base/env.jl:265; withenv(::Pkg.Operations.var"#1… ╎ ╎ ╎ ╎ ╎ 37 …Operations.jl:2082; (::Pkg.Operations.var"#131#… ╎ ╎ ╎ ╎ ╎ ╎ 37 …perations.jl:2142; subprocess_handler(cmd::Cmd… ╎ ╎ ╎ ╎ ╎ ╎ 37 …e/process.jl:687; wait(x::Base.Process) ╎ ╎ ╎ ╎ ╎ ╎ 37 …e/process.jl:694; wait(x::Base.Process, sync… ╎ ╎ ╎ ╎ ╎ ╎ 37 …ondition.jl:125; wait ╎ ╎ ╎ ╎ ╎ ╎ 37 …ondition.jl:130; wait(c::Base.GenericCondi… ╎ ╎ ╎ ╎ ╎ ╎ ╎ 37 …ase/task.jl:1021; wait() 36╎ ╎ ╎ ╎ ╎ ╎ ╎ 37 …ase/task.jl:1012; poptask(W::Base.Intrus… [1] signal 15: Terminated in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 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:522 [23] signal 15: Terminated in expression starting at /home/pkgeval/.julia/packages/SymbolicQuartetNetworkCoal/n4813/test/test_symbolicQNC.jl:3 - at ./int.jl:86 [inlined] _delete! at ./dict.jl:645 [inlined] delete! at ./dict.jl:677 delete! at ./set.jl:164 [inlined] mapfilter at ./abstractset.jl:632 unsafe_filter! at ./abstractset.jl:627 [inlined] filter! at ./set.jl:668 [inlined] intersect! at ./abstractset.jl:196 [inlined] intersect! at ./abstractset.jl:197 [inlined] _shrink at ./array.jl:3057 intersect at ./array.jl:3061 [inlined] #parameterDictionary#2 at /home/pkgeval/.julia/packages/SymbolicQuartetNetworkCoal/n4813/src/symbolicQNC.jl:135 parameterDictionary at /home/pkgeval/.julia/packages/SymbolicQuartetNetworkCoal/n4813/src/symbolicQNC.jl:120 [inlined] #network_expectedCF_formulas#23 at /home/pkgeval/.julia/packages/SymbolicQuartetNetworkCoal/n4813/src/symbolicQNC.jl:493 network_expectedCF_formulas at /home/pkgeval/.julia/packages/SymbolicQuartetNetworkCoal/n4813/src/symbolicQNC.jl:435 [inlined] #1 at /home/pkgeval/.julia/packages/SymbolicQuartetNetworkCoal/n4813/test/test_symbolicQNC.jl:73 #open#463 at ./io.jl:410 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 open at ./io.jl:407 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 poptask at ./task.jl:1012 eval_body at /source/src/interpreter.c:539 eval_body at /source/src/interpreter.c:539 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 wait at ./task.jl:1021 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2734 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 #wait#731 at ./condition.jl:130 _include at ./loading.jl:2794 include at ./sysimg.jl:38 unknown function (ip: 0x73e93de94082) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 wait at ./condition.jl:125 [inlined] _trywait at ./asyncevent.jl:145 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 eval_body at /source/src/interpreter.c:539 eval_body at /source/src/interpreter.c:539 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 profile_printing_listener at ./Base.jl:577 eval at ./boot.jl:430 [inlined] include_string at ./loading.jl:2734 _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 #1190 at ./Base.jl:617 _include at ./loading.jl:2794 include at ./sysimg.jl:38 unknown function (ip: 0x73e93de94082) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] do_call at /source/src/interpreter.c:126 eval_value at /source/src/interpreter.c:223 eval_stmt_value at /source/src/interpreter.c:174 [inlined] eval_body at /source/src/interpreter.c:670 jl_interpret_toplevel_thunk at /source/src/interpreter.c:824 jl_toplevel_eval_flex at /source/src/toplevel.c:943 jfptr_YY.1190_76096.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_toplevel_eval_flex at /source/src/toplevel.c:886 ijl_toplevel_eval_in at /source/src/toplevel.c:994 jl_apply at /source/src/julia.h:2157 [inlined] start_task at /source/src/task.c:1202 unknown function (ip: (nil)) Allocations: 18689488 (Pool: 18688835; Big: 653); GC: 17 val already in a list atexit hook threw an error: ErrorException("schedule: Task not runnable") eval at ./boot.jl:430 [inlined] exec_options at ./client.jl:296 error at ./error.jl:35 _start at ./client.jl:531 #schedule#761 at ./task.jl:884 jfptr__start_73523.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] true_main at /source/src/jlapi.c:900 jl_repl_entrypoint at /source/src/jlapi.c:1059 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x73e93f186249) __libc_start_main at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) unknown function (ip: 0x4010b8) unknown function (ip: (nil)) Allocations: 10017737256 (Pool: 10017690457; Big: 46799); GC: 1642 schedule at ./task.jl:876 [inlined] uv_writecb_task at ./stream.jl:1200 jfptr_uv_writecb_task_67080.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jlcapi_uv_writecb_task_67543.1 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_task_get_next at /source/src/scheduler.c:522 poptask at ./task.jl:1012 wait at ./task.jl:1021 uv_write at ./stream.jl:1081 unsafe_write at ./stream.jl:1154 write at ./strings/io.jl:248 [inlined] print at ./strings/io.jl:250 jfptr_print_48429.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 showerror at ./errorshow.jl:152 unknown function (ip: 0x740d0d96fa46) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 _atexit at ./initdefs.jl:462 jfptr__atexit_69596.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:2948 [inlined] ijl_apply_generic at /source/src/gf.c:3125 jl_apply at /source/src/julia.h:2157 [inlined] ijl_atexit_hook at /source/src/init.c:271 jl_exit_thread0_cb at /source/src/signals-unix.c:517 PkgEval terminated after 2723.28s: test duration exceeded the time limit