Package evaluation to test CrystalNets on Julia 1.14.0-DEV.2028 (45a2de3f7a*) started at 2026-04-12T19:09:35.604 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... ┌ Warning: could not download https://pkg.julialang.org/registries │ exception = RequestError: Could not resolve host: pkg.julialang.org while requesting https://pkg.julialang.org/registries └ @ Pkg.Registry /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Registry/Registry.jl:121 ┌ Warning: could not download https://pkg.julialang.org/registries │ exception = RequestError: Could not resolve host: pkg.julialang.org while requesting https://pkg.julialang.org/registries └ @ Pkg.Registry /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Registry/Registry.jl:121 Activating project at `~/.julia/environments/v1.14` Set-up completed after 14.2s ################################################################################ # Installation # Installing CrystalNets... Resolving package versions... ┌ Warning: could not download https://pkg.julialang.org/registries │ exception = RequestError: Could not resolve host: pkg.julialang.org while requesting https://pkg.julialang.org/registries └ @ Pkg.Registry /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Registry/Registry.jl:121 Updating `~/.julia/environments/v1.14/Project.toml` [7952bbbe] + CrystalNets v1.2.0 Updating `~/.julia/environments/v1.14/Manifest.toml` [c7e460c6] + ArgParse v1.2.0 [ec485272] + ArnoldiMethod v0.4.0 [a963bdd2] + AtomsBase v0.5.2 [46823bd8] + Chemfiles v0.10.43 [7952bbbe] + CrystalNets v1.2.0 [864edb3b] + DataStructures v0.19.4 [ffbed154] + DocStringExtensions v0.9.5 [86223c79] + Graphs v1.14.0 [d25df0c9] + Inflate v0.1.5 [692b3bcd] + JLLWrappers v1.7.1 [1914dd2f] + MacroTools v0.5.16 [bac558e1] + OrderedCollections v1.8.1 [f305370e] + PeriodicGraphEmbeddings v1.0.2 [72a2d4b8] + PeriodicGraphEquilibriumPlacement v0.2.3 [18c5b727] + PeriodicGraphs v1.0.1 [7b2266bf] + PeriodicTable v1.2.1 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.2 [92933f4c] + ProgressMeter v1.11.0 [ae029012] + Requires v1.3.1 [699a6c99] + SimpleTraits v0.9.5 [90137ffa] + StaticArrays v1.9.18 [1e83bf80] + StaticArraysCore v1.4.4 [10745b16] + Statistics v1.11.1 [b718987f] + TextWrap v1.0.2 [0796e94c] + Tokenize v0.5.29 [1986cc42] + Unitful v1.28.0 [a7773ee8] + UnitfulAtomic v1.0.0 [78a364fa] + Chemfiles_jll v0.10.4+0 [ac4a9f1e] + spglib_jll v2.7.0+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 v1.13.0 [b27032c2] + LibCURL v1.0.0 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.13.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.14.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v1.0.0 [9e88b42a] + Serialization v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.13.0 [f489334b] + StyledStrings v1.13.0 [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 v8.19.0+0 [e37daf67] + LibGit2_jll v1.9.2+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2026.3.19 [4536629a] + OpenBLAS_jll v0.3.30+0 [458c3c95] + OpenSSL_jll v3.5.6+0 [efcefdf7] + PCRE2_jll v10.47.0+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.2+0 [3161d3a3] + Zstd_jll v1.5.7+1 [8e850b90] + libblastrampoline_jll v5.15.0+0 [8e850ede] + nghttp2_jll v1.68.1+0 [3f19e933] + p7zip_jll v17.8.0+0 Installation completed after 6.03s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompiling project... 2253.7 ms ✓ Chemfiles_jll 2210.0 ms ✓ spglib_jll 7461.1 ms ✓ AtomsBase 79625.1 ms ✓ PeriodicGraphs 7600.3 ms ✓ Chemfiles 96021.0 ms ✓ PeriodicGraphEmbeddings 24809.2 ms ✓ PeriodicGraphEquilibriumPlacement 296074.3 ms ✓ CrystalNets 8 dependencies successfully precompiled in 517 seconds. 59 already precompiled. Precompilation completed after 543.23s ################################################################################ # Testing # Testing CrystalNets Status `/tmp/jl_cZsJJ6/Project.toml` [861a8166] Combinatorics v1.1.0 [7952bbbe] CrystalNets v1.2.0 [86223c79] Graphs v1.14.0 [18c5b727] PeriodicGraphs v1.0.1 [90137ffa] StaticArrays v1.9.18 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_cZsJJ6/Manifest.toml` [c7e460c6] ArgParse v1.2.0 [ec485272] ArnoldiMethod v0.4.0 [a963bdd2] AtomsBase v0.5.2 [46823bd8] Chemfiles v0.10.43 [861a8166] Combinatorics v1.1.0 [7952bbbe] CrystalNets v1.2.0 [864edb3b] DataStructures v0.19.4 [ffbed154] DocStringExtensions v0.9.5 [86223c79] Graphs v1.14.0 [d25df0c9] Inflate v0.1.5 [692b3bcd] JLLWrappers v1.7.1 [1914dd2f] MacroTools v0.5.16 [bac558e1] OrderedCollections v1.8.1 [f305370e] PeriodicGraphEmbeddings v1.0.2 [72a2d4b8] PeriodicGraphEquilibriumPlacement v0.2.3 [18c5b727] PeriodicGraphs v1.0.1 [7b2266bf] PeriodicTable v1.2.1 [aea7be01] PrecompileTools v1.3.3 [21216c6a] Preferences v1.5.2 [92933f4c] ProgressMeter v1.11.0 [ae029012] Requires v1.3.1 [699a6c99] SimpleTraits v0.9.5 [90137ffa] StaticArrays v1.9.18 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [b718987f] TextWrap v1.0.2 [0796e94c] Tokenize v0.5.29 [1986cc42] Unitful v1.28.0 [a7773ee8] UnitfulAtomic v1.0.0 [78a364fa] Chemfiles_jll v0.10.4+0 [ac4a9f1e] spglib_jll v2.7.0+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 v1.13.0 [b27032c2] LibCURL v1.0.0 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.13.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [ca575930] NetworkOptions v1.3.0 [44cfe95a] Pkg v1.14.0 [de0858da] Printf v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v1.0.0 [9e88b42a] Serialization v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.13.0 [f489334b] StyledStrings v1.13.0 [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 v8.19.0+0 [e37daf67] LibGit2_jll v1.9.2+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2026.3.19 [4536629a] OpenBLAS_jll v0.3.30+0 [458c3c95] OpenSSL_jll v3.5.6+0 [efcefdf7] PCRE2_jll v10.47.0+0 [bea87d4a] SuiteSparse_jll v7.10.1+0 [83775a58] Zlib_jll v1.3.2+0 [3161d3a3] Zstd_jll v1.5.7+1 [8e850b90] libblastrampoline_jll v5.15.0+0 [8e850ede] nghttp2_jll v1.68.1+0 [3f19e933] p7zip_jll v17.8.0+0 Testing Running tests... The following warning about altering performance, the two messages on warning toggling and the three error statements are expected. [ Warning: Warnings may critically alter performance for this operation and were turned off. [ Info: Use CrystalNets.toggle_warning(false) or the --no-warn option to remove this warning [ Info: Use the force_warn option to force printing warnings [ Error: Very suspicious connectivity found for MIL-100. [ Error: Atom ?, used in a bond, has either zero or multiple placements in CIF file MIL-101. This invalidates all bonds from the file, which will thus be discarded. [ Error: Atom ?, used in a bond, has either zero or multiple placements in CIF file MIL-53. This invalidates all bonds from the file, which will thus be discarded. The following warning about symmetry and the three warnings about 0-dimensional structures are expected. [ Warning: Missing _symmetry_equiv_pos_as_xyz and _space_group_symop_operation_xyz fields, will rely on other symmetry indications. [ Warning: Detected 192 structures of dimension 0 in NOTT-112, possibly complex solvent residues. They will be ignored for topology computation. [ Warning: Detected 40 structures of dimension 0 in FOWWAR, possibly complex solvent residues. They will be ignored for topology computation. [ Warning: Detected 2 structures of dimension 0 in CALFIG, possibly complex solvent residues. They will be ignored for topology computation. The following @error about carbon cycle disorder is expected. [ Info: Initial pass found C with invalid number of bonds. [ Error: Found what looks like a disordered carbon ring for CIZPOS: use of disordered input is not advised, please double-check the detected topology or provide a clean input. [ Info: Initial pass found O and C with invalid number of bonds. Test Summary: | Pass Broken Total Time MOF examples | 73 3 76 18m06.5s [ Warning: Guessing bonds with custom algorithm (from Chemfiles and VMD). This may take a while for big structures and may be inexact. [ Info: To avoid guessing bonds, use a file format that contains the bonds. [ Warning: Detected 6 structures of dimension 0 in Clathrate_hydrate, possibly complex solvent residues. They will be ignored for topology computation. [ Warning: Guessing bonds with custom algorithm (from Chemfiles and VMD). This may take a while for big structures and may be inexact. [ Info: To avoid guessing bonds, use a file format that contains the bonds. [ Warning: Detected 6 structures of dimension 0 in Clathrate_hydrate, possibly complex solvent residues. They will be ignored for topology computation. [ Warning: Missing _symmetry_equiv_pos_as_xyz and _space_group_symop_operation_xyz fields, will rely on other symmetry indications. [ Warning: Guessing bonds with custom algorithm (from Chemfiles and VMD). This may take a while for big structures and may be inexact. [ Info: To avoid guessing bonds, use a file format that contains the bonds. Test Summary: | Pass Total Time Other kinds of structures | 4 4 0.8s [ Info: Checking that all known topologies are recognized (this can take a few minutes). [ Info: Use multiple threads to reduce this time Test Summary: | Pass Total Time Archive | 17494 17494 10m06.9s [ Info: Testing pcu [ Info: Testing afy, AFY [ Info: Testing apc, APC [ Info: Testing bam [ Info: Testing bcf [ Info: Testing cdp [ Info: Testing cnd [ Info: Testing ecb [ Info: Testing fiv [ Info: Testing ftd [ Info: Testing ftj [ Info: Testing ins [ Info: Testing kgt [ Info: Testing mot [ Info: Testing moz [ Info: Testing muh [ Info: Testing pbz [ Info: Testing qom [ Info: Testing sig [ Info: Testing sma [ Info: Testing sod-f [ Info: Testing sod-h [ Info: Testing utj [ Info: Testing utp [ Info: Testing nts [ Info: Testing lth [ Info: Testing cys [ Info: Testing llw-z [ Info: Testing nts Test Summary: | Pass Total Time Module | 31 31 1m03.4s Test Summary: | Pass Broken Total Time Executable | 29 1 30 9.3s 1 / 36 .................................................................................................... 2 / 36 .................................................................................................... 3 / 36 .................................................................................................... 4 / 36 .................................................................................................... 5 / 36 .................................................................................................... 6 / 36 .................................................................................................... 7 / 36 .................................................................................................... 8 / 36 .................................................................................................... 9 / 36 .................................................................................................... 10 / 36 .................................................................................................... 11 / 36 .................................................................................................... 12 / 36 .................................................................................................... 13 / 36 .................................................................................................... 14 / 36 .................................................................................................... 15 / 36 .................................................................................................... 16 / 36 .................................................................................................... 17 / 36 .................................................................................................... 18 / 36 .................................................. 19 / 36 ....................... ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile. --trace-compile is enabled during profile collection. ====================================================================================== cmd: /opt/julia/bin/julia 36 running 1 of 1 signal (10): User defined signal 1 - at ./int.jl:86 [inlined] absdiff at ./intfuncs.jl:69 [inlined] _gcd at ./intfuncs.jl:88 [inlined] gcd at ./intfuncs.jl:63 [inlined] divgcd at ./rational.jl:60 Rational at ./rational.jl:43 [inlined] Rational at ./rational.jl:48 [inlined] - at ./rational.jl:414 macro expansion at /home/pkgeval/.julia/packages/StaticArrays/0cEwi/src/broadcast.jl:158 [inlined] _broadcast! at /home/pkgeval/.julia/packages/StaticArrays/0cEwi/src/broadcast.jl:143 [inlined] _copyto! at /home/pkgeval/.julia/packages/StaticArrays/0cEwi/src/broadcast.jl:70 [inlined] copyto! at /home/pkgeval/.julia/packages/StaticArrays/0cEwi/src/broadcast.jl:63 [inlined] materialize! at ./broadcast.jl:908 [inlined] materialize! at ./broadcast.jl:905 [inlined] _find_closest_point_after_symop at /home/pkgeval/.julia/packages/PeriodicGraphEmbeddings/910BA/src/symmetries.jl:346 check_valid_symmetry at /home/pkgeval/.julia/packages/PeriodicGraphEmbeddings/910BA/src/symmetries.jl:395 check_valid_symmetry at /home/pkgeval/.julia/packages/PeriodicGraphEmbeddings/910BA/src/symmetries.jl:378 [inlined] find_all_valid_translations at /home/pkgeval/.julia/packages/CrystalNets/gASyq/src/minimization.jl:47 minimize at /home/pkgeval/.julia/packages/CrystalNets/gASyq/src/minimization.jl:275 minimize at /home/pkgeval/.julia/packages/CrystalNets/gASyq/src/minimization.jl:282 [inlined] topological_genome at /home/pkgeval/.julia/packages/CrystalNets/gASyq/src/query.jl:36 unknown function (ip: 0x71620eb68423) at (unknown file) _jl_invoke at /source/src/gf.c:4113 [inlined] ijl_apply_generic at /source/src/gf.c:4339 topological_genome at /home/pkgeval/.julia/packages/CrystalNets/gASyq/src/query.jl:153 topological_genome at /home/pkgeval/.julia/packages/CrystalNets/gASyq/src/query.jl:87 [inlined] #topological_genome#224 at /home/pkgeval/.julia/packages/CrystalNets/gASyq/src/query.jl:90 [inlined] topological_genome at /home/pkgeval/.julia/packages/CrystalNets/gASyq/src/query.jl:90 unknown function (ip: 0x71620a6cbe5c) at (unknown file) _jl_invoke at /source/src/gf.c:4113 [inlined] ijl_apply_generic at /source/src/gf.c:4339 jl_apply at /source/src/julia.h:2301 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:693 eval_body at /source/src/interpreter.c:550 eval_body at /source/src/interpreter.c:558 eval_body at /source/src/interpreter.c:558 eval_body at /source/src/interpreter.c:558 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 ijl_eval_thunk at /source/src/toplevel.c:768 jl_toplevel_eval_flex at /source/src/toplevel.c:712 jl_eval_toplevel_stmts at /source/src/toplevel.c:602 jl_toplevel_eval_flex at /source/src/toplevel.c:684 ijl_toplevel_eval at /source/src/toplevel.c:782 ijl_toplevel_eval_in at /source/src/toplevel.c:827 eval at ./boot.jl:517 include_string at ./loading.jl:3136 _jl_invoke at /source/src/gf.c:4113 [inlined] ijl_apply_generic at /source/src/gf.c:4339 _include at ./loading.jl:3196 include at ./Base.jl:324 IncludeInto at ./Base.jl:325 jfptr_IncludeInto_1.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4113 [inlined] ijl_apply_generic at /source/src/gf.c:4339 jl_apply at /source/src/julia.h:2301 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:693 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 ijl_eval_thunk at /source/src/toplevel.c:768 jl_toplevel_eval_flex at /source/src/toplevel.c:712 jl_eval_toplevel_stmts at /source/src/toplevel.c:602 jl_toplevel_eval_flex at /source/src/toplevel.c:684 ijl_toplevel_eval at /source/src/toplevel.c:782 ijl_toplevel_eval_in at /source/src/toplevel.c:827 eval at ./boot.jl:517 exec_options at ./client.jl:318 _start at ./client.jl:593 jfptr__start_0.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4113 [inlined] ijl_apply_generic at /source/src/gf.c:4339 jl_apply at /source/src/julia.h:2301 [inlined] true_main at /source/src/jlapi.c:971 jl_repl_entrypoint at /source/src/jlapi.c:1138 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x716266cd3249) 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. Disabling --trace-compile ============================================================== .┌ 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/v1.14/Profile/src/Profile.jl:1361 Overhead ╎ [+additional indent] Count File:Line Function ========================================================= Thread 1 (default) Task 0x000071624c5fc010 Total snapshots: 64. Utilization: 100% ╎64 @Base/client.jl:593 _start() ╎ 64 @Base/client.jl:318 exec_options(opts::Base.JLOptions) ╎ 64 @Base/boot.jl:517 eval(m::Module, e::Any) ╎ 64 @Base/Base.jl:325 (::Base.IncludeInto)(fname::String) ╎ 64 @Base/Base.jl:324 include(mapexpr::Function, mod::Module, _path::Str… ╎ 64 @Base/loading.jl:3196 _include(mapexpr::Function, mod::Module, _pat… ╎ ╎ 64 @Base/loading.jl:3136 include_string(mapexpr::typeof(identity), mo… ╎ ╎ 64 @Base/boot.jl:517 eval(m::Module, e::Any) ╎ ╎ 64 @CrystalNets/…uery.jl:90 topological_genome(g::PeriodicGraph3D) ╎ ╎ 64 @CrystalNets/…uery.jl:90 #topological_genome#224 ╎ ╎ 64 @CrystalNets/…ery.jl:87 topological_genome ╎ ╎ ╎ 64 @CrystalNets/…ery.jl:153 topological_genome(group::Underlying… ╎ ╎ ╎ 64 @CrystalNets/…ery.jl:36 topological_genome(net::CrystalNet3D… ╎ ╎ ╎ 64 @CrystalNets/…on.jl:282 minimize ╎ ╎ ╎ 64 @CrystalNets/…n.jl:275 minimize(net::CrystalNet3D{Rational… ╎ ╎ ╎ 64 @CrystalNets/…n.jl:47 find_all_valid_translations(net::Cr… ╎ ╎ ╎ ╎ 64 @PeriodicGraphEmbeddings/…:378 check_valid_symmetry ╎ ╎ ╎ ╎ 1 @PeriodicGraphEmbeddings/…:379 check_valid_symmetry(pge… ╎ ╎ ╎ ╎ 1 @Base/boot.jl:714 Array 1╎ ╎ ╎ ╎ 1 @Base/boot.jl:654 GenericMemory ╎ ╎ ╎ ╎ 63 @PeriodicGraphEmbeddings/…:395 check_valid_symmetry(pge… ╎ ╎ ╎ ╎ 1 @PeriodicGraphEmbeddings/…:326 _find_closest_point_aft… ╎ ╎ ╎ ╎ 1 @Base/…adcast.jl:897 materialize ╎ ╎ ╎ ╎ 1 @StaticArrays/…l:60 copy ╎ ╎ ╎ ╎ ╎ 1 @StaticArrays/…l:119 _broadcast ╎ ╎ ╎ ╎ ╎ 1 @StaticArrays/…:123 __broadcast ╎ ╎ ╎ ╎ ╎ 1 @StaticArrays/…:135 macro expansion ╎ ╎ ╎ ╎ ╎ 1 @Base/…onal.jl:404 +(x::Rational{Int128}, y::Rat… ╎ ╎ ╎ ╎ ╎ 1 @Base/…onal.jl:60 divgcd(x::Int128, y::Int128) ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…uncs.jl:63 gcd ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…uncs.jl:89 _gcd 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/int.jl:487 trailing_zeros ╎ ╎ ╎ ╎ 60 @PeriodicGraphEmbeddings/…:346 _find_closest_point_aft… ╎ ╎ ╎ ╎ 60 @Base/…adcast.jl:905 materialize! ╎ ╎ ╎ ╎ 60 @Base/…adcast.jl:908 materialize! ╎ ╎ ╎ ╎ ╎ 60 @StaticArrays/…l:63 copyto! ╎ ╎ ╎ ╎ ╎ 60 @StaticArrays/…l:70 _copyto! ╎ ╎ ╎ ╎ ╎ 60 @StaticArrays/…:143 _broadcast! ╎ ╎ ╎ ╎ ╎ 60 @StaticArrays/…:158 macro expansion ╎ ╎ ╎ ╎ ╎ 8 @Base/…onal.jl:413 -(x::Rational{Int128}, y::Ra… ╎ ╎ ╎ ╎ ╎ ╎ 8 @Base/…onal.jl:60 divgcd(x::Int128, y::Int128) ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…oat.jl:235 uabs ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/int.jl:228 abs 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/int.jl:182 flipsign ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…ncs.jl:55 gcd ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/int.jl:564 == ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…on.jl:487 == ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…on.jl:637 == ╎ ╎ ╎ ╎ ╎ ╎ 6 @Base/…ncs.jl:63 gcd 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/int.jl:0 _gcd ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…ncs.jl:87 _gcd ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/int.jl:580 >> 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/int.jl:574 >> ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…ncs.jl:88 _gcd ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…ncs.jl:69 absdiff 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/int.jl:86 - ╎ ╎ ╎ ╎ ╎ ╎ 3 @Base/…ncs.jl:89 _gcd 3╎ ╎ ╎ ╎ ╎ ╎ 3 @Base/int.jl:487 trailing_zeros ╎ ╎ ╎ ╎ ╎ 52 @Base/…onal.jl:414 -(x::Rational{Int128}, y::Ra… 2╎ ╎ ╎ ╎ ╎ ╎ 21 @Base/…cked.jl:297 checked_mul ╎ ╎ ╎ ╎ ╎ ╎ 19 @Base/…ked.jl:268 mul_with_overflow(x::Int128… ╎ ╎ ╎ ╎ ╎ ╎ 8 @Base/div.jl:391 cld ╎ ╎ ╎ ╎ ╎ ╎ 8 @Base/div.jl:430 div ╎ ╎ ╎ ╎ ╎ ╎ 8 @Base/div.jl:379 div 8╎ ╎ ╎ ╎ ╎ ╎ ╎ 8 @Base/int.jl:1045 div ╎ ╎ ╎ ╎ ╎ ╎ 11 @Base/div.jl:390 fld ╎ ╎ ╎ ╎ ╎ ╎ 11 @Base/div.jl:420 div ╎ ╎ ╎ ╎ ╎ ╎ 11 @Base/div.jl:379 div 11╎ ╎ ╎ ╎ ╎ ╎ ╎ 11 @Base/int.jl:1045 div 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…cked.jl:298 checked_mul ╎ ╎ ╎ ╎ ╎ ╎ 30 @Base/…onal.jl:48 Rational ╎ ╎ ╎ ╎ ╎ ╎ 30 @Base/…onal.jl:43 Rational ╎ ╎ ╎ ╎ ╎ ╎ 29 @Base/…nal.jl:60 divgcd(x::Int128, y::Int128) ╎ ╎ ╎ ╎ ╎ ╎ 29 @Base/…ncs.jl:63 gcd ╎ ╎ ╎ ╎ ╎ ╎ 2 @Base/…cs.jl:86 _gcd ╎ ╎ ╎ ╎ ╎ ╎ ╎ 2 @Base/…rs.jl:320 != ╎ ╎ ╎ ╎ ╎ ╎ ╎ 2 @Base/int.jl:564 == ╎ ╎ ╎ ╎ ╎ ╎ ╎ 2 @Base/…on.jl:487 == 2╎ ╎ ╎ ╎ ╎ ╎ ╎ 2 @Base/…on.jl:637 == ╎ ╎ ╎ ╎ ╎ ╎ 7 @Base/…cs.jl:87 _gcd ╎ ╎ ╎ ╎ ╎ ╎ ╎ 7 @Base/int.jl:580 >> 7╎ ╎ ╎ ╎ ╎ ╎ ╎ 7 @Base/int.jl:574 >> ╎ ╎ ╎ ╎ ╎ ╎ 14 @Base/…cs.jl:88 _gcd ╎ ╎ ╎ ╎ ╎ ╎ ╎ 14 @Base/…cs.jl:69 absdiff 11╎ ╎ ╎ ╎ ╎ ╎ ╎ 11 @Base/int.jl:86 - ╎ ╎ ╎ ╎ ╎ ╎ ╎ 3 @Base/…on.jl:649 min 3╎ ╎ ╎ ╎ ╎ ╎ ╎ 3 @Base/…ls.jl:851 ifelse ╎ ╎ ╎ ╎ ╎ ╎ 3 @Base/…cs.jl:89 _gcd 3╎ ╎ ╎ ╎ ╎ ╎ ╎ 3 @Base/int.jl:487 trailing_zeros ╎ ╎ ╎ ╎ ╎ ╎ 3 @Base/…cs.jl:93 _gcd ╎ ╎ ╎ ╎ ╎ ╎ ╎ 3 @Base/int.jl:582 << 3╎ ╎ ╎ ╎ ╎ ╎ ╎ 3 @Base/int.jl:575 << ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/…nal.jl:61 divgcd(x::Int128, y::Int128) ╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/int.jl:269 div 1╎ ╎ ╎ ╎ ╎ ╎ 1 @Base/int.jl:1046 div ╎ ╎ ╎ ╎ 2 @PeriodicGraphEmbeddings/…:347 _find_closest_point_aft… ╎ ╎ ╎ ╎ 2 @StaticArrays/…l:318 norm ╎ ╎ ╎ ╎ 2 @StaticArrays/…l:319 _norm ╎ ╎ ╎ ╎ ╎ 1 @StaticArrays/…l:329 macro expansion ╎ ╎ ╎ ╎ ╎ 1 @LinearAlgebra/…:572 norm_sqr ╎ ╎ ╎ ╎ ╎ 1 @Base/number.jl:239 abs2 1╎ ╎ ╎ ╎ ╎ 1 @Base/float.jl:494 * ╎ ╎ ╎ ╎ ╎ 1 @StaticArrays/…l:331 macro expansion ╎ ╎ ╎ ╎ ╎ 1 @Base/float.jl:711 isfinite 1╎ ╎ ╎ ╎ ╎ 1 @Base/float.jl:493 - .... ====================================================================================== Information request received. A stacktrace will print followed by a 1.0 second profile. --trace-compile is enabled during profile collection. ====================================================================================== 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 wait at ./task.jl:1246 wait_forever at ./task.jl:1168 jfptr_wait_forever_0.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4113 [inlined] ijl_apply_generic at /source/src/gf.c:4339 jl_apply at /source/src/julia.h:2301 [inlined] start_task at /source/src/task.c:1275 unknown function (ip: (nil)) at (unknown file) . ============================================================== Profile collected. A report will print at the next yield point. Disabling --trace-compile ============================================================== ┌ 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/v1.14/Profile/src/Profile.jl:1361 Overhead ╎ [+additional indent] Count File:Line Function ========================================================= Thread 1 (default) Task 0x000076840f9dc1f0 Total snapshots: 416. Utilization: 0% ╎416 @Base/task.jl:1168 wait_forever() 415╎ 416 @Base/task.jl:1246 wait() .... [36] signal 15: Terminated in expression starting at /home/pkgeval/.julia/packages/CrystalNets/gASyq/test/runtests.jl:415 malloc at /lib/x86_64-linux-gnu/libc.so.6 (unknown line) ijl_gc_counted_malloc at /source/src/gc-stock.c:3809 __gmpz_init2 at /opt/julia/bin/../lib/julia/libgmp.so.10 (unknown line) init2! at ./gmp.jl:157 [inlined] _ at ./gmp.jl:70 [inlined] BigInt at ./gmp.jl:69 [inlined] add at ./gmp.jl:172 + at ./gmp.jl:507 [inlined] _spmatmul! at /source/usr/share/julia/stdlib/v1.14/SparseArrays/src/linalg.jl:91 spdensemul! at /source/usr/share/julia/stdlib/v1.14/SparseArrays/src/linalg.jl:60 [inlined] generic_matmatmul! at /source/usr/share/julia/stdlib/v1.14/SparseArrays/src/linalg.jl:50 [inlined] generic_matmatmul_wrapper! at /source/usr/share/julia/stdlib/v1.14/LinearAlgebra/src/matmul.jl:348 [inlined] _mul! at /source/usr/share/julia/stdlib/v1.14/LinearAlgebra/src/matmul.jl:333 [inlined] mul! at /source/usr/share/julia/stdlib/v1.14/LinearAlgebra/src/matmul.jl:302 [inlined] mul! at /source/usr/share/julia/stdlib/v1.14/LinearAlgebra/src/matmul.jl:270 [inlined] _mul at /source/usr/share/julia/stdlib/v1.14/LinearAlgebra/src/matmul.jl:123 [inlined] mul at /source/usr/share/julia/stdlib/v1.14/LinearAlgebra/src/matmul.jl:119 [inlined] * at /source/usr/share/julia/stdlib/v1.14/LinearAlgebra/src/matmul.jl:116 [inlined] dixon_p at /home/pkgeval/.julia/packages/PeriodicGraphEquilibriumPlacement/XoJMq/src/solver.jl:441 try_modulo at /home/pkgeval/.julia/packages/PeriodicGraphEquilibriumPlacement/XoJMq/src/solver.jl:487 [inlined] dixon_solve at /home/pkgeval/.julia/packages/PeriodicGraphEquilibriumPlacement/XoJMq/src/solver.jl:507 equilibrium at /home/pkgeval/.julia/packages/PeriodicGraphEquilibriumPlacement/XoJMq/src/embedding.jl:41 CrystalNet at /home/pkgeval/.julia/packages/CrystalNets/gASyq/src/types.jl:675 #UnderlyingNets##8 at ./none (unknown line) iterate at ./generator.jl:48 [inlined] _append! at ./array.jl:1446 append! at ./array.jl:1439 [inlined] UnderlyingNets at /home/pkgeval/.julia/packages/CrystalNets/gASyq/src/types.jl:992 topological_genome at /home/pkgeval/.julia/packages/CrystalNets/gASyq/src/query.jl:86 [inlined] #topological_genome#224 at /home/pkgeval/.julia/packages/CrystalNets/gASyq/src/query.jl:90 [inlined] topological_genome at /home/pkgeval/.julia/packages/CrystalNets/gASyq/src/query.jl:90 unknown function (ip: 0x71620a6cbe5c) at (unknown file) _jl_invoke at /source/src/gf.c:4113 [inlined] ijl_apply_generic at /source/src/gf.c:4339 jl_apply at /source/src/julia.h:2301 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:693 eval_body at /source/src/interpreter.c:550 eval_body at /source/src/interpreter.c:558 eval_body at /source/src/interpreter.c:558 eval_body at /source/src/interpreter.c:558 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 ijl_eval_thunk at /source/src/toplevel.c:768 jl_toplevel_eval_flex at /source/src/toplevel.c:712 jl_eval_toplevel_stmts at /source/src/toplevel.c:602 jl_toplevel_eval_flex at /source/src/toplevel.c:684 ijl_toplevel_eval at /source/src/toplevel.c:782 ijl_toplevel_eval_in at /source/src/toplevel.c:827 eval at ./boot.jl:517 include_string at ./loading.jl:3136 _jl_invoke at /source/src/gf.c:4113 [inlined] ijl_apply_generic at /source/src/gf.c:4339 _include at ./loading.jl:3196 include at ./Base.jl:324 IncludeInto at ./Base.jl:325 jfptr_IncludeInto_1.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4113 [inlined] ijl_apply_generic at /source/src/gf.c:4339 jl_apply at /source/src/julia.h:2301 [inlined] do_call at /source/src/interpreter.c:123 eval_value at /source/src/interpreter.c:243 eval_stmt_value at /source/src/interpreter.c:194 [inlined] eval_body at /source/src/interpreter.c:693 jl_interpret_toplevel_thunk at /source/src/interpreter.c:884 ijl_eval_thunk at /source/src/toplevel.c:768 jl_toplevel_eval_flex at /source/src/toplevel.c:712 jl_eval_toplevel_stmts at /source/src/toplevel.c:602 jl_toplevel_eval_flex at /source/src/toplevel.c:684 ijl_toplevel_eval at /source/src/toplevel.c:782 ijl_toplevel_eval_in at /source/src/toplevel.c:827 eval at ./boot.jl:517 exec_options at ./client.jl:318 _start at ./client.jl:593 jfptr__start_0.1 at /opt/julia/lib/julia/sys.so (unknown line) _jl_invoke at /source/src/gf.c:4113 [inlined] ijl_apply_generic at /source/src/gf.c:4339 jl_apply at /source/src/julia.h:2301 [inlined] true_main at /source/src/jlapi.c:971 jl_repl_entrypoint at /source/src/jlapi.c:1138 main at /source/cli/loader_exe.c:58 unknown function (ip: 0x716266cd3249) 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) Allocations: 1444254266 (Pool: 1444249641; Big: 4625); GC: 525 PkgEval terminated after 2722.42s: test duration exceeded the time limit