Package evaluation to test SBML on Julia 1.14.0-DEV.1699 (9484a92029*) started at 2026-02-10T16:25:03.765 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.14` Set-up completed after 9.95s ################################################################################ # Installation # Installing SBML... Resolving package versions... Updating `~/.julia/environments/v1.14/Project.toml` [e5567a89] + SBML v1.6.0 Updating `~/.julia/environments/v1.14/Manifest.toml` [ffbed154] + DocStringExtensions v0.9.5 [615f187c] + IfElse v0.1.1 [692b3bcd] + JLLWrappers v1.7.1 [21216c6a] + Preferences v1.5.1 [e5567a89] + SBML v1.6.0 [1986cc42] + Unitful v1.28.0 [94ce4f54] + Libiconv_jll v1.18.0+0 [bb12108a] + SBML_jll v5.21.0+0 ⌅ [02c8fc9c] + XML2_jll v2.13.9+0 [56f22d72] + Artifacts v1.11.0 [ade2ca70] + Dates v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.13.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v1.0.0 [9e88b42a] + Serialization v1.11.0 [2f01184e] + SparseArrays v1.13.0 [fa267f1f] + TOML v1.0.3 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [4536629a] + OpenBLAS_jll v0.3.30+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.15.0+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 To see why use `status --outdated -m` Installation completed after 4.95s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompiling packages... 1674.9 ms ✓ ConstructionBase 1297.0 ms ✓ LambertW 2759.0 ms ✓ QuadGK 5358.2 ms ✓ StatsBase 1672.5 ms ✓ PreallocationTools 7255.4 ms ✓ MultivariatePolynomials 6676.1 ms ✓ ForwardDiff 18409.6 ms ✓ SBML 1232.8 ms ✓ Unityper 819.1 ms ✓ ConstructionBase → ConstructionBaseIntervalSetsExt 3036.3 ms ✓ Setfield 1492.6 ms ✓ ConstructionBase → ConstructionBaseStaticArraysExt 5291.6 ms ✓ Accessors 794.9 ms ✓ ADTypes → ADTypesConstructionBaseExt 2327.8 ms ✓ Unitful → ConstructionBaseUnitfulExt 2068.0 ms ✓ PDMats → StatsBaseExt 4918.6 ms ✓ DynamicPolynomials 2433.8 ms ✓ ForwardDiff → ForwardDiffStaticArraysExt 3064.5 ms ✓ Unitful → ForwardDiffExt 1297.6 ms ✓ PreallocationTools → PreallocationToolsForwardDiffExt 1658.5 ms ✓ Accessors → StaticArraysExt 1787.1 ms ✓ Accessors → TestExt 2710.8 ms ✓ Accessors → IntervalSetsExt 2560.0 ms ✓ Accessors → LinearAlgebraExt 2270.6 ms ✓ Accessors → UnitfulExt 10627.6 ms ✓ Distributions 4415.8 ms ✓ SciMLOperators 3509.2 ms ✓ SymbolicIndexingInterface 3776.9 ms ✓ Distributions → DistributionsTestExt 3847.7 ms ✓ Distributions → DistributionsChainRulesCoreExt 1003.3 ms ✓ SciMLOperators → SciMLOperatorsStaticArraysCoreExt 1639.3 ms ✓ SciMLOperators → SciMLOperatorsSparseArraysExt 8071.1 ms ✓ RecursiveArrayTools 1885.0 ms ✓ RecursiveArrayTools → RecursiveArrayToolsSparseArraysExt 1339.8 ms ✓ RecursiveArrayTools → RecursiveArrayToolsStatisticsExt 1608.3 ms ✓ RecursiveArrayTools → RecursiveArrayToolsForwardDiffExt 30787.8 ms ✓ SciMLBase 6209.1 ms ✓ LabelledArrays 3381.4 ms ✓ SciMLBase → SciMLBaseChainRulesCoreExt 4205.2 ms ✓ SciMLBase → SciMLBaseForwardDiffExt 4701.7 ms ✓ SciMLBase → SciMLBaseDistributionsExt 36748.7 ms ✓ SymbolicUtils 7326.8 ms ✓ SymbolicLimits 42939.0 ms ✓ Symbolics ERROR: LoadError: UndefVarError: `ForwardDiff` not defined in `PreallocationTools` Suggestion: check for spelling errors or missing imports. Hint: ForwardDiff is loaded but not imported in the active module Main. Stacktrace:  [1] eval_import_path_all(at::Module, path::Expr, keyword::String)  @ Base ./module.jl:62  [2] _eval_using  @ ./module.jl:137 [inlined]  [3] _eval_using(to::Module, path::Expr)  @ Base ./module.jl:137  [4] top-level scope  @ ~/.julia/packages/Symbolics/qKoME/ext/SymbolicsPreallocationToolsExt.jl:5  [5] include(mod::Module, _path::String)  @ Base ./Base.jl:309  [6] include_package_for_output(pkg::Base.PkgId, input::String, syntax_version::VersionNumber, 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:3288  [7] top-level scope  @ stdin:5  [8] eval(m::Module, e::Any)  @ Core ./boot.jl:489  [9] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:3130  [10] include_string  @ ./loading.jl:3140 [inlined]  [11] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:342  [12] _start()  @ Base ./client.jl:585 in expression starting at /home/pkgeval/.julia/packages/Symbolics/qKoME/ext/SymbolicsPreallocationToolsExt.jl:1 in expression starting at stdin:5 ✗ Symbolics → SymbolicsPreallocationToolsExt 44 dependencies successfully precompiled in 278 seconds. 144 already precompiled. Precompilation completed after 295.11s ################################################################################ # Testing # Testing SBML Status `/tmp/jl_IkCQpJ/Project.toml` ⌅ [187b0558] ConstructionBase v1.5.6 [ffbed154] DocStringExtensions v0.9.5 [615f187c] IfElse v0.1.1 [e5567a89] SBML v1.6.0 ⌅ [0c5d862f] Symbolics v5.36.0 [1986cc42] Unitful v1.28.0 [bb12108a] SBML_jll v5.21.0+0 [f43a241f] Downloads v1.7.0 [8f399da3] Libdl v1.11.0 [ea8e919c] SHA v1.0.0 [2f01184e] SparseArrays v1.13.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_IkCQpJ/Manifest.toml` [47edcb42] ADTypes v1.21.0 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.43 [79e6a3ab] Adapt v4.4.0 [66dad0bd] AliasTables v1.1.3 [4fba245c] ArrayInterface v7.22.0 ⌅ [e2ed5e7c] Bijections v0.1.10 [d360d2e6] ChainRulesCore v1.26.0 [861a8166] Combinatorics v1.1.0 [38540f10] CommonSolve v0.2.6 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.18.1 [b152e2b5] CompositeTypes v0.1.4 [a33af91c] CompositionsBase v0.1.2 ⌅ [187b0558] ConstructionBase v1.5.6 [9a962f9c] DataAPI v1.16.0 ⌅ [864edb3b] DataStructures v0.18.22 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 [31c24e10] Distributions v0.25.123 [ffbed154] DocStringExtensions v0.9.5 [5b8099bc] DomainSets v0.7.16 ⌅ [7c1d4256] DynamicPolynomials v0.5.7 [4e289a0a] EnumX v1.0.6 [e2ba6199] ExprTools v0.1.10 [55351af7] ExproniconLite v0.10.14 [1a297f60] FillArrays v1.16.0 [1fa38f19] Format v1.3.7 ⌅ [f6369f11] ForwardDiff v0.10.39 [069b7b12] FunctionWrappers v1.1.3 [77dc65aa] FunctionWrappersWrappers v0.1.3 [46192b85] GPUArraysCore v0.2.0 [34004b35] HypergeometricFunctions v0.3.28 [615f187c] IfElse v0.1.1 [8197267c] IntervalSets v0.7.13 [3587e190] InverseFunctions v0.1.17 [92d709cd] IrrationalConstants v0.2.6 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.1 [ae98c720] Jieko v0.2.1 [b964fa9f] LaTeXStrings v1.4.0 [2ee39098] LabelledArrays v1.18.0 ⌅ [984bce1d] LambertW v0.4.6 [23fbe1c1] Latexify v0.16.10 [2ab3a3ac] LogExpFunctions v0.3.29 [e6f89c97] LoggingExtras v1.2.0 [1914dd2f] MacroTools v0.5.16 [e1d29d7a] Missings v1.2.0 [2e0e35c7] Moshi v0.3.7 ⌃ [102ac46a] MultivariatePolynomials v0.5.9 [d8a4904e] MutableArithmetics v1.6.7 [77ba4419] NaNMath v1.1.3 [bac558e1] OrderedCollections v1.8.1 [90014a1f] PDMats v0.11.37 ⌃ [d236fae5] PreallocationTools v0.4.34 [aea7be01] PrecompileTools v1.3.3 [21216c6a] Preferences v1.5.1 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [3cdcf5f2] RecipesBase v1.3.4 [731186ca] RecursiveArrayTools v3.47.0 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [79098fc4] Rmath v0.9.0 [7e49a35a] RuntimeGeneratedFunctions v0.5.17 [e5567a89] SBML v1.6.0 [0bca4576] SciMLBase v2.138.0 [a6db7da4] SciMLLogging v1.8.0 [c0aeaf25] SciMLOperators v1.15.1 [431bcebd] SciMLPublic v1.0.1 [53ae85a6] SciMLStructures v1.10.0 [efcf1570] Setfield v1.1.2 [a2af1166] SortingAlgorithms v1.2.2 [276daf66] SpecialFunctions v2.6.1 [90137ffa] StaticArrays v1.9.16 [1e83bf80] StaticArraysCore v1.4.4 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.8.0 [2913bbd2] StatsBase v0.34.10 [4c63d2b9] StatsFuns v1.5.2 [2efcf032] SymbolicIndexingInterface v0.3.46 ⌅ [19f23fe9] SymbolicLimits v0.2.1 ⌅ [d1185830] SymbolicUtils v2.1.3 ⌅ [0c5d862f] Symbolics v5.36.0 ⌅ [8ea1fca8] TermInterface v0.4.1 [a759f4b9] TimerOutputs v0.5.29 [1986cc42] Unitful v1.28.0 [a7c27f48] Unityper v0.1.6 [61579ee1] Ghostscript_jll v9.55.1+0 [aacddb02] JpegTurbo_jll v3.1.4+0 [94ce4f54] Libiconv_jll v1.18.0+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [bb12108a] SBML_jll v5.21.0+0 ⌅ [02c8fc9c] XML2_jll v2.13.9+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 [9fa8497b] Future 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 [4607b0f0] SuiteSparse [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 v8.18.0+0 [e37daf67] LibGit2_jll v1.9.2+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.12.2 [4536629a] OpenBLAS_jll v0.3.30+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.5+0 [efcefdf7] PCRE2_jll v10.47.0+0 [bea87d4a] SuiteSparse_jll v7.10.1+0 [83775a58] Zlib_jll v1.3.1+2 [3161d3a3] Zstd_jll v1.5.7+1 [8e850b90] libblastrampoline_jll v5.15.0+0 [8e850ede] nghttp2_jll v1.68.0+1 [3f19e933] p7zip_jll v17.7.0+0 Info Packages marked with ⌃ and ⌅ have new versions available. Those with ⌃ may be upgradable, but those with ⌅ are restricted by compatibility constraints from upgrading. Testing Running tests... ERROR: LoadError: UndefVarError: `ForwardDiff` not defined in `PreallocationTools` Suggestion: check for spelling errors or missing imports. Hint: ForwardDiff is loaded but not imported in the active module Main. Stacktrace:  [1] eval_import_path_all(at::Module, path::Expr, keyword::String)  @ Base ./module.jl:62  [2] _eval_using  @ ./module.jl:137 [inlined]  [3] _eval_using(to::Module, path::Expr)  @ Base ./module.jl:137  [4] top-level scope  @ ~/.julia/packages/Symbolics/qKoME/ext/SymbolicsPreallocationToolsExt.jl:5  [5] include(mod::Module, _path::String)  @ Base ./Base.jl:309  [6] include_package_for_output(pkg::Base.PkgId, input::String, syntax_version::VersionNumber, 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:3288  [7] top-level scope  @ stdin:5  [8] eval(m::Module, e::Any)  @ Core ./boot.jl:489  [9] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:3130  [10] include_string  @ ./loading.jl:3140 [inlined]  [11] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:342  [12] _start()  @ Base ./client.jl:585 in expression starting at /home/pkgeval/.julia/packages/Symbolics/qKoME/ext/SymbolicsPreallocationToolsExt.jl:1 in expression starting at stdin:5 1 dependency had output during precompilation: ┌ Symbolics → SymbolicsPreallocationToolsExt │ [Output was shown above] └ ┌ Error: Error during loading of extension SymbolicsPreallocationToolsExt of Symbolics, use `Base.retry_load_extensions()` to retry. │ exception = │ 1-element ExceptionStack: │ The following 1 package failed to precompile: │ │ Symbolics → SymbolicsPreallocationToolsExt │ Failed to precompile SymbolicsPreallocationToolsExt [cf6f9317-8bac-542e-bce0-9dbc7ae7d397] to "/home/pkgeval/.julia/compiled/v1.14/SymbolicsPreallocationToolsExt/jl_hyPL6g" (ProcessExited(1)). │ └ @ Base loading.jl:1774 SBML flux model loading: Test Failed at /home/pkgeval/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:46 Expression: mets[10:12] == ["M_akg_e", "M_fum_c", "M_pyr_c"] Evaluated: ["M_xu5p_D_c", "M_h2o_b", "M_amp_c"] == ["M_akg_e", "M_fum_c", "M_pyr_c"] Stacktrace: [1] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:17 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:46 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:782 [inlined] SBML flux model loading: Test Failed at /home/pkgeval/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:47 Expression: rxns[10:12] == ["R_H2Ot", "R_PGL", "R_EX_glc_e_"] Evaluated: ["R_FBA", "R_FORt", "R_EX_for_e_"] == ["R_H2Ot", "R_PGL", "R_EX_glc_e_"] Stacktrace: [1] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:17 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:47 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:782 [inlined] SBML flux model loading: Test Failed at /home/pkgeval/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:53 Expression: ocs[40] == 1.0 Evaluated: 0.0 == 1.0 Stacktrace: [1] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:17 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:53 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:782 [inlined] SBML flux model loading: Test Failed at /home/pkgeval/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:55 Expression: all(ocs .== 0.0) Evaluated: all(Bool[1, 1, 1, 1, 1, 1, 1, 1, 1, 1 … 1, 1, 1, 1, 1, 1, 1, 1, 1, 1]) Stacktrace: [1] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:17 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:55 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:782 [inlined] SBML flux model loading: Test Failed at /home/pkgeval/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:66 Expression: isapprox(lvals[27], uvals[27]) Evaluated: isapprox(-999999.0, 999999.0) Stacktrace: [1] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:17 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:66 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:782 [inlined] SBML flux model loading: Test Failed at /home/pkgeval/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:67 Expression: isapprox(lvals[27], 7.6) Evaluated: isapprox(-999999.0, 7.6) Stacktrace: [1] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:17 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:67 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:782 [inlined] SBML flux model loading: Test Failed at /home/pkgeval/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:68 Expression: isapprox(lvals[12], -10) Evaluated: isapprox(0.0, -10) Stacktrace: [1] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:17 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:68 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:782 [inlined] Loading of models from various sources - readSBML: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:175 Got exception outside of a @test RequestError: HTTP/1.1 500 Internal Server Error while requesting https://www.ebi.ac.uk/biomodels/model/download/MODEL1909260004.4?filename=T1M1133.xml Stacktrace: [1] #7 @ /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:285 [inlined] [2] open(f::Downloads.var"#7#8"{Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Nothing, String, Base.RefValue{Response}}, args::String; kwargs::@Kwargs{write::Bool, lock::Bool}) @ Base ./io.jl:429 [3] open_nolock @ /opt/julia/share/julia/stdlib/v1.14/ArgTools/src/ArgTools.jl:35 [inlined] [4] arg_write(f::Function, arg::String) @ ArgTools /opt/julia/share/julia/stdlib/v1.14/ArgTools/src/ArgTools.jl:103 [5] #download#5 @ /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:272 [inlined] [6] download(url::String, output::String) @ Downloads /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:252 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:181 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:2349 [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Loading of models from various sources - readSBMLFromString: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:175 Got exception outside of a @test RequestError: Operation too slow. Less than 1 bytes/sec transferred the last 20 seconds while requesting https://www.ebi.ac.uk/biomodels/model/download/MODEL1909260004.4?filename=T1M1133.xml Stacktrace: [1] (::Downloads.var"#23#24"{IOStream, Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Base.RefValue{Union{RequestError, Response}}, Int64, Bool, Bool, Downloader})(easy::Downloads.Curl.Easy) @ Downloads /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:484 [2] with_handle(f::Downloads.var"#23#24"{IOStream, Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Base.RefValue{Union{RequestError, Response}}, Int64, Bool, Bool, Downloader}, handle::Downloads.Curl.Easy) @ Downloads.Curl /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Curl/Curl.jl:105 [3] #21 @ /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:395 [inlined] [4] arg_write(f::Downloads.var"#21#22"{Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Base.RefValue{Union{RequestError, Response}}, Int64, Bool, Bool, Downloader}, arg::IOStream) @ ArgTools /opt/julia/share/julia/stdlib/v1.14/ArgTools/src/ArgTools.jl:134 [5] #19 @ /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:394 [inlined] [6] arg_read @ /opt/julia/share/julia/stdlib/v1.14/ArgTools/src/ArgTools.jl:76 [inlined] [7] request(url::String; input::Nothing, output::IOStream, method::Nothing, headers::Vector{Pair{String, String}}, timeout::Float64, progress::Nothing, verbose::Bool, debug::Nothing, throw::Bool, downloader::Nothing, interrupt::Nothing) @ Downloads /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:393 [8] request @ /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:355 [inlined] [9] #7 @ /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:273 [inlined] [10] open(f::Downloads.var"#7#8"{Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Nothing, String, Base.RefValue{Response}}, args::String; kwargs::@Kwargs{write::Bool, lock::Bool}) @ Base ./io.jl:429 [11] open_nolock @ /opt/julia/share/julia/stdlib/v1.14/ArgTools/src/ArgTools.jl:35 [inlined] [12] arg_write(f::Function, arg::String) @ ArgTools /opt/julia/share/julia/stdlib/v1.14/ArgTools/src/ArgTools.jl:103 [13] #download#5 @ /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:272 [inlined] [14] download(url::String, output::String) @ Downloads /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:252 [15] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:181 [inlined] [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [17] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:2349 [18] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [19] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [20] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [21] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [22] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [23] top-level scope @ none:6 [24] eval(m::Module, e::Any) @ Core ./boot.jl:489 [25] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [26] _start() @ Base ./client.jl:585 Time variables in math: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:220 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00852-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] [2] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [3] readSBML(fn::String) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [4] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:223 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:227 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [12] top-level scope @ none:6 [13] eval(m::Module, e::Any) @ Core ./boot.jl:489 [14] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [15] _start() @ Base ./client.jl:585 Units: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:231 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00852-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] [2] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [3] readSBML(fn::String) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [4] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:232 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:232 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [12] top-level scope @ none:6 [13] eval(m::Module, e::Any) @ Core ./boot.jl:489 [14] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [15] _start() @ Base ./client.jl:585 Initial amounts and concentrations: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:242 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00852-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] [2] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [3] readSBML(fn::String) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [4] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:243 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:243 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [12] top-level scope @ none:6 [13] eval(m::Module, e::Any) @ Core ./boot.jl:489 [14] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [15] _start() @ Base ./client.jl:585 Initial assignments: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:264 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00489-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] [2] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [3] readSBML(fn::String) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [4] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:265 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:265 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [12] top-level scope @ none:6 [13] eval(m::Module, e::Any) @ Core ./boot.jl:489 [14] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [15] _start() @ Base ./client.jl:585 Rules: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:276 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/Dasgupta2020.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] [2] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [3] readSBML(fn::String) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [4] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:277 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:277 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [12] top-level scope @ none:6 [13] eval(m::Module, e::Any) @ Core ./boot.jl:489 [14] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [15] _start() @ Base ./client.jl:585 Extensive kinetic math: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:327 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00852-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] [2] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [3] readSBML(fn::String) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [4] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:328 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:328 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [12] top-level scope @ none:6 [13] eval(m::Module, e::Any) @ Core ./boot.jl:489 [14] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [15] _start() @ Base ./client.jl:585 logBase and root math functions: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:344 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/01565-sbml-l3v1.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] [2] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [3] readSBML(fn::String) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [4] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:345 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:345 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [12] top-level scope @ none:6 [13] eval(m::Module, e::Any) @ Core ./boot.jl:489 [14] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [15] _start() @ Base ./client.jl:585 converters work and fail gracefully: Test Failed at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:361 Expression: readSBML(joinpath(#= /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:362 =# @__DIR__(), "data", "01289-sbml-l3v2.xml"), (doc->begin (set_level_and_version(3, 1))(doc) convert_simplify_math(doc) end)) Expected: ErrorException Thrown: AssertionError AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/01289-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] [2] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:361 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:978 [inlined] [5] (::var"#34#35")() @ Main ./none:0 Stacktrace: [1] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:983 [inlined] [2] (::var"#34#35")() @ Main ./none:0 converters work and fail gracefully: Log Test Failed at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:361 Expression: #= /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:361 =# @test_throws ErrorException readSBML(joinpath(#= /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:362 =# @__DIR__(), "data", "01289-sbml-l3v2.xml"), (doc->begin (set_level_and_version(3, 1))(doc) convert_simplify_math(doc) end)) Log Pattern: (:error, r"^SBML reported error:") (:error, r"^SBML reported error:") Captured Logs: Stacktrace: [1] record(ts::Test.DefaultTestSet, t::Test.LogTestFailure) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:166 [2] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:361 [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [4] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:361 [inlined] converters work and fail gracefully: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:360 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00878-sbml-l3v2.xml is not a file Stacktrace: [1] readSBML(fn::String, sbml_conversion::Function; report_severities::Vector{String}, throw_severities::Vector{String}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [2] readSBML(fn::String, sbml_conversion::Function) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [3] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:361 [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:369 [inlined] [6] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [7] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ none:6 [12] eval(m::Module, e::Any) @ Core ./boot.jl:489 [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [14] _start() @ Base ./client.jl:585 relational operators are decoded correctly: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:404 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00191-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] [2] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [3] readSBML(fn::String) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [4] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:405 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:405 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [12] top-level scope @ none:6 [13] eval(m::Module, e::Any) @ Core ./boot.jl:489 [14] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [15] _start() @ Base ./client.jl:585 events: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:418 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00026-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] [2] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [3] readSBML(fn::String) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [4] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:419 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:419 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [12] top-level scope @ none:6 [13] eval(m::Module, e::Any) @ Core ./boot.jl:489 [14] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [15] _start() @ Base ./client.jl:585 model attributes: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:423 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00054-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] [2] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [3] readSBML(fn::String) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [4] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:424 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:424 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [12] top-level scope @ none:6 [13] eval(m::Module, e::Any) @ Core ./boot.jl:489 [14] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [15] _start() @ Base ./client.jl:585 constantness: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:548 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00975-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] [2] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [3] readSBML(fn::String) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [4] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:549 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:549 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [12] top-level scope @ none:6 [13] eval(m::Module, e::Any) @ Core ./boot.jl:489 [14] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [15] _start() @ Base ./client.jl:585 Model Dasgupta2020.xml writes out as expected: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/Dasgupta2020.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] [2] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [3] readSBML(fn::String) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [4] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [5] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:41 [inlined] [7] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [8] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:41 [inlined] [9] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [10] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [11] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [12] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [13] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [14] top-level scope @ none:6 [15] eval(m::Module, e::Any) @ Core ./boot.jl:489 [16] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [17] _start() @ Base ./client.jl:585 Round-trip: T1M1133.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/T1M1133.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: T1M1133.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/T1M1133.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: Dasgupta2020.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/Dasgupta2020.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: Dasgupta2020.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/Dasgupta2020.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: yeast-GEM.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/yeast-GEM.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: yeast-GEM.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/yeast-GEM.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 00852-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00852-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 00852-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00852-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 00140-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00140-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 00140-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00140-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 00374-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00374-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 00374-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00374-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 01565-sbml-l3v1.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/01565-sbml-l3v1.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 01565-sbml-l3v1.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/01565-sbml-l3v1.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 01289-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/01289-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 01289-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/01289-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 00191-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00191-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 00191-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00191-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 01234-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/01234-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 01234-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/01234-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 00489-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00489-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 00489-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00489-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 00026-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00026-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 00026-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00026-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 00983-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00983-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 00983-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00983-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 00054-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00054-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 00054-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00054-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 00975-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00975-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 00975-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00975-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 00976-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00976-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 00976-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00976-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 01323-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/01323-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 01323-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/01323-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Round-trip: 00878-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 Test threw exception Expression: writeSBML() do readSBML(file) do m fix_constant!(m) remove_some_annotation_strings!(m) return m end end AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00878-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#61#62", args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [6] #59 @ ./none:-1 [inlined] [7] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [8] #57 @ ./none:-1 [inlined] [9] with_logstate(f::var"#57#58"{String}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:542 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:653 [11] #collect_test_logs#66 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:124 [inlined] [13] #match_logs#67 @ /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:307 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.14/Test/src/logging.jl:306 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] Round-trip: 00878-sbml-l3v2.xml: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/00878-sbml-l3v2.xml is not a file Stacktrace: [1] #readSBML#55 @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:228 [inlined] ┌ [2] readSBML │ @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] ╰──── repeated 2 times [4] readSBML(f::var"#63#64"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2325 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:2244 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [15] top-level scope @ none:6 [16] eval(m::Module, e::Any) @ Core ./boot.jl:489 [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [18] _start() @ Base ./client.jl:585 Test Summary: | Pass Fail Error Broken Total Time SBML test suite | 94 9 51 1 155 1m44.7s CCall to SBML works and SBML returns a version | 1 1 0.5s Symbolics compatibility | 2 2 8.7s SBML flux model loading | 19 7 26 27.9s Loading of models from various sources - readSBML | 7 1 8 6.2s Loading of /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/e_coli_core.xml | 7 7 2.3s Loading of models from various sources - readSBMLFromString | 7 1 8 20.7s Loading of /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/e_coli_core.xml | 7 7 0.3s readSBMLFromString | 2 2 0.7s Time variables in math | 1 1 0.1s Units | 1 1 0.0s Initial amounts and concentrations | 1 1 0.0s Initial assignments | 1 1 0.0s Rules | 1 1 0.0s Constraints | 1 1 1.2s Extensive kinetic math | 1 1 0.0s logBase and root math functions | 1 1 0.0s rationals in math | 1 1 0.1s converters work and fail gracefully | 2 1 3 10.0s relational operators are decoded correctly | 1 1 0.0s custom show | 2 2 5.6s events | 1 1 0.0s model attributes | 1 1 0.0s names and identifiers of objects | 18 18 0.7s constantness | 1 1 0.0s writeSBML | 2 37 39 10.2s Model Dasgupta2020.xml writes out as expected | 1 1 0.0s Round-trip: e_coli_core.xml | 2 2 9.4s Round-trip: T1M1133.xml | 2 2 0.2s Round-trip: Dasgupta2020.xml | 2 2 0.0s Round-trip: yeast-GEM.xml | 2 2 0.0s Round-trip: 00852-sbml-l3v2.xml | 2 2 0.0s Round-trip: 00140-sbml-l3v2.xml | 2 2 0.0s Round-trip: 00374-sbml-l3v2.xml | 2 2 0.0s Round-trip: 01565-sbml-l3v1.xml | 2 2 0.0s Round-trip: 01289-sbml-l3v2.xml | 2 2 0.0s Round-trip: 00191-sbml-l3v2.xml | 2 2 0.0s Round-trip: 01234-sbml-l3v2.xml | 2 2 0.0s Round-trip: 00489-sbml-l3v2.xml | 2 2 0.0s Round-trip: 00026-sbml-l3v2.xml | 2 2 0.0s Round-trip: 00983-sbml-l3v2.xml | 2 2 0.0s Round-trip: 00054-sbml-l3v2.xml | 2 2 0.0s Round-trip: 00975-sbml-l3v2.xml | 2 2 0.0s Round-trip: 00976-sbml-l3v2.xml | 2 2 0.0s Round-trip: 01323-sbml-l3v2.xml | 2 2 0.0s Round-trip: 00878-sbml-l3v2.xml | 2 2 0.0s Loading of models from sbml_test_suite | 23 1 24 1.3s Math interpretation | 9 9 0.9s RNG of the outermost testset: Random.Xoshiro(0x7e3e0c82dc13c1e5, 0xf569283af3c0d47a, 0x3377a4e9f32ca711, 0x8bee7118e55c498b, 0x3354d573bcbb8575) ERROR: LoadError: Some tests did not pass: 94 passed, 9 failed, 51 errored, 1 broken. in expression starting at /home/pkgeval/.julia/packages/SBML/mJIpc/test/runtests.jl:21 Testing failed after 147.87s ERROR: LoadError: Package SBML errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.14/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/v1.14/Pkg/src/Operations.jl:3122 [3] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2987 [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/v1.14/Pkg/src/API.jl:572 [5] kwcall(::@NamedTuple{julia_args::Cmd, io::IOContext{IO}}, ::typeof(Pkg.API.test), ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:548 [6] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:172 [7] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:161 [8] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [9] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [inlined] [10] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:159 [11] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:223 [12] include(mod::Module, _path::String) @ Base ./Base.jl:309 [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [14] _start() @ Base ./client.jl:585 in expression starting at /PkgEval.jl/scripts/evaluate.jl:214 PkgEval failed after 498.58s: package fails to precompile