Package evaluation of MolecularGraph on Julia 1.13.0-DEV.748 (36a4616fc2*) started at 2025-06-17T19:51:53.268 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.31s ################################################################################ # Installation # Installing MolecularGraph... Resolving package versions... Updating `~/.julia/environments/v1.13/Project.toml` [6c89ec66] + MolecularGraph v0.19.1 Updating `~/.julia/environments/v1.13/Manifest.toml` [ec485272] + ArnoldiMethod v0.4.0 [159f3aea] + Cairo v1.1.1 [3da002f7] + ColorTypes v0.12.1 [5ae59095] + Colors v0.13.1 [34da2185] + Compat v4.16.0 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.18.22 [8bb1440f] + DelimitedFiles v1.9.1 [411431e0] + Extents v0.1.6 [53c48c17] + FixedPointNumbers v0.8.5 [68eda718] + GeoFormatTypes v0.4.4 [cf35fbd7] + GeoInterface v1.4.1 [5c1252a2] + GeometryBasics v0.5.9 [a2bd30eb] + Graphics v1.1.3 [86223c79] + Graphs v1.13.0 [d25df0c9] + Inflate v0.1.5 [8197267c] + IntervalSets v0.7.11 [c8e1da08] + IterTools v1.10.0 [692b3bcd] + JLLWrappers v1.7.0 [682c06a0] + JSON v0.21.4 [1914dd2f] + MacroTools v0.5.16 ⌅ [20f20a25] + MakieCore v0.9.5 [6c89ec66] + MolecularGraph v0.19.1 [77ba4419] + NaNMath v1.1.3 [510215fc] + Observables v0.5.5 [bac558e1] + OrderedCollections v1.8.1 [69de0a69] + Parsers v2.8.3 [aea7be01] + PrecompileTools v1.3.2 [21216c6a] + Preferences v1.4.3 [44044271] + RDKitMinimalLib v1.2.0 [189a3867] + Reexport v1.2.2 [699a6c99] + SimpleTraits v0.9.4 [90137ffa] + StaticArrays v1.9.13 [1e83bf80] + StaticArraysCore v1.4.3 [10745b16] + Statistics v1.11.1 [69024149] + StringEncodings v0.3.7 [ddb6d928] + YAML v0.4.14 [6e34b625] + Bzip2_jll v1.0.9+0 [83423d85] + Cairo_jll v1.18.5+0 [5ae413db] + EarCut_jll v2.2.4+0 [2e619515] + Expat_jll v2.6.5+0 [a3f928ae] + Fontconfig_jll v2.16.0+0 [d7e528f0] + FreeType2_jll v2.13.4+0 [559328eb] + FriBidi_jll v1.0.17+0 [78b55507] + Gettext_jll v0.21.0+0 [7746bdde] + Glib_jll v2.84.0+0 [3b182d85] + Graphite2_jll v1.3.15+0 [2e76f6c2] + HarfBuzz_jll v8.5.1+0 [1d63c593] + LLVMOpenMP_jll v18.1.8+0 [dd4b983a] + LZO_jll v2.10.3+0 [e9f186c6] + Libffi_jll v3.4.7+0 [94ce4f54] + Libiconv_jll v1.18.0+0 [4b2f31a3] + Libmount_jll v2.41.0+0 [38a345b3] + Libuuid_jll v2.41.0+0 [36c8627f] + Pango_jll v1.56.3+0 ⌅ [30392449] + Pixman_jll v0.44.2+0 [03d1d220] + RDKit_jll v2022.9.5+0 ⌅ [02c8fc9c] + XML2_jll v2.13.6+1 [4f6342f7] + Xorg_libX11_jll v1.8.12+0 [0c0b7dd1] + Xorg_libXau_jll v1.0.13+0 [a3789734] + Xorg_libXdmcp_jll v1.1.6+0 [1082639a] + Xorg_libXext_jll v1.3.7+0 [ea2f1a96] + Xorg_libXrender_jll v0.9.12+0 [c7cfdc94] + Xorg_libxcb_jll v1.17.1+0 [c5fb5394] + Xorg_xtrans_jll v1.6.0+0 ⌅ [28df3c45] + boost_jll v1.76.0+1 [f6050b86] + coordgenlibs_jll v3.0.2+0 [172afb32] + libinchi_jll v1.6.0+0 [b53b4c65] + libpng_jll v1.6.49+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 v1.12.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.12.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.3.0 [44cfe95a] + Pkg v1.13.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [1a1011a3] + SharedArrays v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.12.0 [f489334b] + StyledStrings v1.11.0 [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.14.1+1 [e37daf67] + LibGit2_jll v1.9.0+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.5.20 [4536629a] + OpenBLAS_jll v0.3.29+0 [05823500] + OpenLibm_jll v0.8.5+0 [458c3c95] + OpenSSL_jll v3.5.0+0 [efcefdf7] + PCRE2_jll v10.45.0+0 [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 ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 4.58s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 69.54s ################################################################################ # Testing # Testing MolecularGraph Status `/tmp/jl_7dsd90/Project.toml` [159f3aea] Cairo v1.1.1 [5ae59095] Colors v0.13.1 [8bb1440f] DelimitedFiles v1.9.1 [5c1252a2] GeometryBasics v0.5.9 [86223c79] Graphs v1.13.0 [682c06a0] JSON v0.21.4 ⌅ [20f20a25] MakieCore v0.9.5 [6c89ec66] MolecularGraph v0.19.1 [bac558e1] OrderedCollections v1.8.1 [44044271] RDKitMinimalLib v1.2.0 [10745b16] Statistics v1.11.1 [ddb6d928] YAML v0.4.14 [f6050b86] coordgenlibs_jll v3.0.2+0 [172afb32] libinchi_jll v1.6.0+0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [37e2e46d] LinearAlgebra v1.12.0 [56ddb016] Logging v1.11.0 [de0858da] Printf v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_7dsd90/Manifest.toml` [ec485272] ArnoldiMethod v0.4.0 [159f3aea] Cairo v1.1.1 [3da002f7] ColorTypes v0.12.1 [5ae59095] Colors v0.13.1 [34da2185] Compat v4.16.0 [9a962f9c] DataAPI v1.16.0 [864edb3b] DataStructures v0.18.22 [8bb1440f] DelimitedFiles v1.9.1 [411431e0] Extents v0.1.6 [53c48c17] FixedPointNumbers v0.8.5 [68eda718] GeoFormatTypes v0.4.4 [cf35fbd7] GeoInterface v1.4.1 [5c1252a2] GeometryBasics v0.5.9 [a2bd30eb] Graphics v1.1.3 [86223c79] Graphs v1.13.0 [d25df0c9] Inflate v0.1.5 [8197267c] IntervalSets v0.7.11 [c8e1da08] IterTools v1.10.0 [692b3bcd] JLLWrappers v1.7.0 [682c06a0] JSON v0.21.4 [1914dd2f] MacroTools v0.5.16 ⌅ [20f20a25] MakieCore v0.9.5 [6c89ec66] MolecularGraph v0.19.1 [77ba4419] NaNMath v1.1.3 [510215fc] Observables v0.5.5 [bac558e1] OrderedCollections v1.8.1 [69de0a69] Parsers v2.8.3 [aea7be01] PrecompileTools v1.3.2 [21216c6a] Preferences v1.4.3 [44044271] RDKitMinimalLib v1.2.0 [189a3867] Reexport v1.2.2 [699a6c99] SimpleTraits v0.9.4 [90137ffa] StaticArrays v1.9.13 [1e83bf80] StaticArraysCore v1.4.3 [10745b16] Statistics v1.11.1 [69024149] StringEncodings v0.3.7 [ddb6d928] YAML v0.4.14 [6e34b625] Bzip2_jll v1.0.9+0 [83423d85] Cairo_jll v1.18.5+0 [5ae413db] EarCut_jll v2.2.4+0 [2e619515] Expat_jll v2.6.5+0 [a3f928ae] Fontconfig_jll v2.16.0+0 [d7e528f0] FreeType2_jll v2.13.4+0 [559328eb] FriBidi_jll v1.0.17+0 [78b55507] Gettext_jll v0.21.0+0 [7746bdde] Glib_jll v2.84.0+0 [3b182d85] Graphite2_jll v1.3.15+0 [2e76f6c2] HarfBuzz_jll v8.5.1+0 [1d63c593] LLVMOpenMP_jll v18.1.8+0 [dd4b983a] LZO_jll v2.10.3+0 [e9f186c6] Libffi_jll v3.4.7+0 [94ce4f54] Libiconv_jll v1.18.0+0 [4b2f31a3] Libmount_jll v2.41.0+0 [38a345b3] Libuuid_jll v2.41.0+0 [36c8627f] Pango_jll v1.56.3+0 ⌅ [30392449] Pixman_jll v0.44.2+0 [03d1d220] RDKit_jll v2022.9.5+0 ⌅ [02c8fc9c] XML2_jll v2.13.6+1 [4f6342f7] Xorg_libX11_jll v1.8.12+0 [0c0b7dd1] Xorg_libXau_jll v1.0.13+0 [a3789734] Xorg_libXdmcp_jll v1.1.6+0 [1082639a] Xorg_libXext_jll v1.3.7+0 [ea2f1a96] Xorg_libXrender_jll v0.9.12+0 [c7cfdc94] Xorg_libxcb_jll v1.17.1+0 [c5fb5394] Xorg_xtrans_jll v1.6.0+0 ⌅ [28df3c45] boost_jll v1.76.0+1 [f6050b86] coordgenlibs_jll v3.0.2+0 [172afb32] libinchi_jll v1.6.0+0 [b53b4c65] libpng_jll v1.6.49+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 v1.12.0 [b27032c2] LibCURL v0.6.4 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.12.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.3.0 [44cfe95a] Pkg v1.13.0 [de0858da] Printf v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization v1.11.0 [1a1011a3] SharedArrays v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.12.0 [f489334b] StyledStrings v1.11.0 [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [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 v8.14.1+1 [e37daf67] LibGit2_jll v1.9.0+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.5.20 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.5+0 [458c3c95] OpenSSL_jll v3.5.0+0 [efcefdf7] PCRE2_jll v10.45.0+0 [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 ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... Precompiling packages... 10663.1 ms ✓ Graphs 1 dependency successfully precompiled in 12 seconds. 31 already precompiled. Precompiling packages... 10699.4 ms ✓ MakieCore 2886.1 ms ✓ Cairo 27249.4 ms ✓ MolecularGraph 3 dependencies successfully precompiled in 42 seconds. 106 already precompiled. Test Summary: | Pass Total Time util.geometry | 26 26 4.1s Test Summary: | Pass Total Time util.iterator | 22 22 2.3s Test Summary: | Pass Total Time util.math | 4 4 0.2s Test Summary: | Pass Total Time operator | 20 20 3.3s Test Summary: | Pass Total Time cycle | 8 8 7.7s Test Summary: | Pass Total Time bipartite | 4 4 2.6s Test Summary: | Pass Total Time matching | 12 12 7.5s Test Summary: | Pass Total Time graph.planarity | 42 42 12.3s Test Summary: | Pass Total Time clique | 22 22 6.0s Test Summary: | Pass Total Time isomorphism_vf2 | 23 23 6.1s Test Summary: | Pass Total Time isomorphism_clique | 13 13 4.9s Test Summary: | Pass Total Time model.atom | 16 16 1.2s Test Summary: | Pass Total Time model.bond | 10 10 0.5s Test Summary: | Pass Total Time model.molgraph | 83 83 29.8s [ Info: Unsupported atom symbol: X (#2 in sdfilereader) Test Summary: | Pass Total Time sdfilereader | 79 79 24.6s Test Summary: | Pass Total Time sdfilewriter | 3 3 23.5s Test Summary: | Pass Total Time json | 2 2 12.3s Test Summary: | Pass Total Time smarts.base | 8 8 0.2s Test Summary: | Pass Total Time smarts.logicaloperator | 14 14 8.6s Test Summary: | Pass Total Time smarts.atom | 65 65 6.7s Test Summary: | Pass Total Time smarts.bond | 9 9 0.7s Test Summary: | Pass Total Time smarts.molecule | 32 32 9.9s Test Summary: | Pass Total Time smarts.smiles | 64 64 0.8s Test Summary: | Pass Total Time smarts.smarts | 15 15 11.8s Test Summary: | Pass Total Time stereo | 85 85 3.0s Test Summary: | Pass Total Time preprocess | 71 71 3.5s Test Summary: | Pass Total Time coords | 2 2 0.2s Test Summary: | Pass Total Time properties | 95 95 2.6s Test Summary: | Pass Total Time mass | 23 23 3.5s Test Summary: | Pass Total Time wclogp | 10 10 9.7s Test Summary: | Pass Broken Total Time inchi | 3 1 4 2.0s [ Info: MolecularGraph.querymatch: maxsize exceeded Test Summary: | Pass Total Time structurematch | 86 86 9.4s Test Summary: | Pass Total Time structurematch_mcs | 34 34 6.5s Test Summary: | Pass Total Time model.query | 58 58 2.3s Test Summary: | Pass Total Time querycontainment | 14 14 0.1s Test Summary: | Pass Total Time draw.base | 12 12 4.8s Test Summary: | Total Time svg | 0 12.5s Test Summary: | Pass Total Time draw3d | 1 1 0.2s Testing MolecularGraph tests passed Testing completed after 334.88s PkgEval succeeded after 436.33s