Package evaluation of KEGGModuleParser on Julia 1.12.0-rc1.2 (995ff9db19*) started at 2025-07-14T13:48:24.729 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 8.59s ################################################################################ # Installation # Installing KEGGModuleParser... Resolving package versions... Updating `~/.julia/environments/v1.12/Project.toml` [8ec094ee] + KEGGModuleParser v0.1.0 Updating `~/.julia/environments/v1.12/Manifest.toml` [d1d4a3ce] + BitFlags v0.1.9 [944b1d66] + CodecZlib v0.7.8 [f0e56b4a] + ConcurrentUtilities v2.5.0 [460bff9d] + ExceptionUnwrapping v0.1.11 [cd3eb016] + HTTP v1.10.17 [692b3bcd] + JLLWrappers v1.7.0 [8ec094ee] + KEGGModuleParser v0.1.0 [e6f89c97] + LoggingExtras v1.1.0 [739be429] + MbedTLS v1.1.9 [4d8831e6] + OpenSSL v1.5.0 [aea7be01] + PrecompileTools v1.3.2 [21216c6a] + Preferences v1.4.3 [777ac1f9] + SimpleBufferStream v1.2.0 [3bb67fe8] + TranscodingStreams v0.11.3 [5c2747f8] + URIs v1.6.1 [c8ffd9c3] + MbedTLS_jll v2.28.6+2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0 [8f399da3] + Libdl v1.11.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [ca575930] + NetworkOptions v1.3.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [6462fe0b] + Sockets v1.11.0 [f489334b] + StyledStrings v1.11.0 [fa267f1f] + TOML v1.0.3 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [14a3606d] + MozillaCACerts_jll v2025.5.20 [458c3c95] + OpenSSL_jll v3.5.1+0 [83775a58] + Zlib_jll v1.3.1+2 Installation completed after 1.56s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 14.97s ################################################################################ # Testing # Testing KEGGModuleParser Status `/tmp/jl_ls18Vi/Project.toml` [cd3eb016] HTTP v1.10.17 [8ec094ee] KEGGModuleParser v0.1.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_ls18Vi/Manifest.toml` [d1d4a3ce] BitFlags v0.1.9 [944b1d66] CodecZlib v0.7.8 [f0e56b4a] ConcurrentUtilities v2.5.0 [460bff9d] ExceptionUnwrapping v0.1.11 [cd3eb016] HTTP v1.10.17 [692b3bcd] JLLWrappers v1.7.0 [8ec094ee] KEGGModuleParser v0.1.0 [e6f89c97] LoggingExtras v1.1.0 [739be429] MbedTLS v1.1.9 [4d8831e6] OpenSSL v1.5.0 [aea7be01] PrecompileTools v1.3.2 [21216c6a] Preferences v1.4.3 [777ac1f9] SimpleBufferStream v1.2.0 [3bb67fe8] TranscodingStreams v0.11.3 [5c2747f8] URIs v1.6.1 [c8ffd9c3] MbedTLS_jll v2.28.6+2 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [ac6e5ff7] JuliaSyntaxHighlighting v1.12.0 [8f399da3] Libdl v1.11.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [ca575930] NetworkOptions v1.3.0 [de0858da] Printf v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization v1.11.0 [6462fe0b] Sockets v1.11.0 [f489334b] StyledStrings v1.11.0 [fa267f1f] TOML v1.0.3 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [14a3606d] MozillaCACerts_jll v2025.5.20 [458c3c95] OpenSSL_jll v3.5.1+0 [83775a58] Zlib_jll v1.3.1+2 Testing Running tests... Methionine degradation: Error During Test at /home/pkgeval/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:27 Test threw exception Expression: mod.Entry == Dict("M00035" => "Pathway Module") FieldError: type KEGGModuleParser.KEGGModule has no field `Entry`, available fields: `entry`, `name`, `definition`, `orthology`, `class`, `pathway`, `reaction`, `compound`, `ec` Stacktrace: [1] getproperty(x::KEGGModuleParser.KEGGModule, f::Symbol) @ Base ./Base_compiler.jl:54 [2] top-level scope @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:24 [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined] [4] macro expansion @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:27 [inlined] [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:677 [inlined] Methionine degradation: Error During Test at /home/pkgeval/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:28 Test threw exception Expression: mod.Name == "Methionine degradation" FieldError: type KEGGModuleParser.KEGGModule has no field `Name`, available fields: `entry`, `name`, `definition`, `orthology`, `class`, `pathway`, `reaction`, `compound`, `ec` Stacktrace: [1] getproperty(x::KEGGModuleParser.KEGGModule, f::Symbol) @ Base ./Base_compiler.jl:54 [2] top-level scope @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:24 [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined] [4] macro expansion @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:28 [inlined] [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:677 [inlined] Methionine degradation: Error During Test at /home/pkgeval/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:29 Test threw exception Expression: mod.Definition == ["K00789", "(K00558,K17398,K17399)", "K01251", "(K01697,K10150)"] FieldError: type KEGGModuleParser.KEGGModule has no field `Definition`, available fields: `entry`, `name`, `definition`, `orthology`, `class`, `pathway`, `reaction`, `compound`, `ec` Stacktrace: [1] getproperty(x::KEGGModuleParser.KEGGModule, f::Symbol) @ Base ./Base_compiler.jl:54 [2] top-level scope @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:24 [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined] [4] macro expansion @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:29 [inlined] [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:677 [inlined] Methionine degradation: Error During Test at /home/pkgeval/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:30 Test threw exception Expression: mod.Orthology == Dict("K00558,K17398,K17399" => ["[EC:2.1.1.37]", "[RN:R04858]", " DNA (cytosine-5-)-methyltransferase"], "K01697,K10150" => ["[EC:4.2.1.22]", "[RN:R01290]", " cystathionine beta-synthase"], "K00789" => ["[EC:2.5.1.6]", "[RN:R00177]", " S-adenosylmethionine synthetase"], "K01251" => ["[EC:3.13.2.1]", "[RN:R00192]", " adenosylhomocysteinase"]) FieldError: type KEGGModuleParser.KEGGModule has no field `Orthology`, available fields: `entry`, `name`, `definition`, `orthology`, `class`, `pathway`, `reaction`, `compound`, `ec` Stacktrace: [1] getproperty(x::KEGGModuleParser.KEGGModule, f::Symbol) @ Base ./Base_compiler.jl:54 [2] top-level scope @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:24 [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined] [4] macro expansion @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:30 [inlined] [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:677 [inlined] Methionine degradation: Error During Test at /home/pkgeval/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:35 Test threw exception Expression: mod.Class == ["Pathway modules", "Amino acid metabolism", "Cysteine and methionine metabolism"] FieldError: type KEGGModuleParser.KEGGModule has no field `Class`, available fields: `entry`, `name`, `definition`, `orthology`, `class`, `pathway`, `reaction`, `compound`, `ec` Stacktrace: [1] getproperty(x::KEGGModuleParser.KEGGModule, f::Symbol) @ Base ./Base_compiler.jl:54 [2] top-level scope @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:24 [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined] [4] macro expansion @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:35 [inlined] [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:677 [inlined] Methionine degradation: Error During Test at /home/pkgeval/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:38 Test threw exception Expression: mod.Pathway == Dict("map01100" => "Metabolic pathways", "map00270" => "Cysteine and methionine metabolism") FieldError: type KEGGModuleParser.KEGGModule has no field `Pathway`, available fields: `entry`, `name`, `definition`, `orthology`, `class`, `pathway`, `reaction`, `compound`, `ec` Stacktrace: [1] getproperty(x::KEGGModuleParser.KEGGModule, f::Symbol) @ Base ./Base_compiler.jl:54 [2] top-level scope @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:24 [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined] [4] macro expansion @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:38 [inlined] [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:677 [inlined] Methionine degradation: Error During Test at /home/pkgeval/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:41 Test threw exception Expression: mod.Reaction == Dict("R00177" => "C00073 -> C00019", "R00192" => "C00021 -> C00155", "R01290" => "C00065 + C00155 -> C02291", "R04858" => "C00019 -> C00021") FieldError: type KEGGModuleParser.KEGGModule has no field `Reaction`, available fields: `entry`, `name`, `definition`, `orthology`, `class`, `pathway`, `reaction`, `compound`, `ec` Stacktrace: [1] getproperty(x::KEGGModuleParser.KEGGModule, f::Symbol) @ Base ./Base_compiler.jl:54 [2] top-level scope @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:24 [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined] [4] macro expansion @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:41 [inlined] [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:677 [inlined] Methionine degradation: Error During Test at /home/pkgeval/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:46 Test threw exception Expression: mod.Compound == Dict("C00073" => "L-Methionine", "C00021" => "S-Adenosyl-L-homocysteine", "C00019" => "S-Adenosyl-L-methionine", "C00155" => "L-Homocysteine", "C00065" => "L-Serine", "C02291" => "L-Cystathionine") FieldError: type KEGGModuleParser.KEGGModule has no field `Compound`, available fields: `entry`, `name`, `definition`, `orthology`, `class`, `pathway`, `reaction`, `compound`, `ec` Stacktrace: [1] getproperty(x::KEGGModuleParser.KEGGModule, f::Symbol) @ Base ./Base_compiler.jl:54 [2] top-level scope @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:24 [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined] [4] macro expansion @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:46 [inlined] [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:677 [inlined] Methionine degradation: Error During Test at /home/pkgeval/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:53 Test threw exception Expression: mod.EC == ["ec:2.5.1.6", "ec:2.1.1.37", "ec:3.13.2.1", "ec:4.2.1.22", "ec:2.5.1.47", "ec:2.5.1.65"] FieldError: type KEGGModuleParser.KEGGModule has no field `EC`, available fields: `entry`, `name`, `definition`, `orthology`, `class`, `pathway`, `reaction`, `compound`, `ec` Stacktrace: [1] getproperty(x::KEGGModuleParser.KEGGModule, f::Symbol) @ Base ./Base_compiler.jl:54 [2] top-level scope @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:24 [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined] [4] macro expansion @ ~/.julia/packages/KEGGModuleParser/BFxrY/test/parse.jl:53 [inlined] [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:677 [inlined] Test Summary: | Error Total Time KEGGModuleParser.jl | 9 9 30.9s Methionine degradation | 9 9 30.7s RNG of the outermost testset: Random.Xoshiro(0x52c710fcdf112210, 0x6476a45c4a3d2d06, 0xd772466af8fa85e8, 0xe0f9d7207c2b66a7, 0xdc3b400bffdd153b) ERROR: LoadError: Some tests did not pass: 0 passed, 0 failed, 9 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/KEGGModuleParser/BFxrY/test/runtests.jl:4 Testing failed after 42.22s ERROR: LoadError: Package KEGGModuleParser errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Types.jl:68 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2458 [3] test @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2313 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:511 [5] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:164 [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:152 [7] test @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:152 [inlined] [8] #test#81 @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:151 [inlined] [9] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [10] include(mod::Module, _path::String) @ Base ./Base.jl:305 [11] exec_options(opts::Base.JLOptions) @ Base ./client.jl:321 [12] _start() @ Base ./client.jl:554 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 91.08s: package tests unexpectedly errored