Package evaluation of SBML on Julia 1.13.0-DEV.959 (b35c4f471f*) started at 2025-08-05T13:37:02.129 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 11.87s ################################################################################ # Installation # Installing SBML... Resolving package versions... Installed Preferences ───────── v1.4.3 Installed Libiconv_jll ──────── v1.18.0+0 Installed SBML_jll ──────────── v5.20.1+0 Installed IfElse ────────────── v0.1.1 Installed JLLWrappers ───────── v1.7.1 Installed SBML ──────────────── v1.6.0 Installed XML2_jll ──────────── v2.13.6+1 Installed DocStringExtensions ─ v0.9.5 Installed Unitful ───────────── v1.24.0 Installing 3 artifacts Installed artifact Libiconv 1.9 MiB Installed artifact XML2 2.5 MiB Installed artifact SBML 5.8 MiB Updating `~/.julia/environments/v1.13/Project.toml` [e5567a89] + SBML v1.6.0 Updating `~/.julia/environments/v1.13/Manifest.toml` [ffbed154] + DocStringExtensions v0.9.5 [615f187c] + IfElse v0.1.1 [692b3bcd] + JLLWrappers v1.7.1 [21216c6a] + Preferences v1.4.3 [e5567a89] + SBML v1.6.0 [1986cc42] + Unitful v1.24.0 [94ce4f54] + Libiconv_jll v1.18.0+0 [bb12108a] + SBML_jll v5.20.1+0 ⌅ [02c8fc9c] + XML2_jll v2.13.6+1 [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 v0.7.0 [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 v0.3.29+0 [bea87d4a] + SuiteSparse_jll v7.10.1+0 [83775a58] + Zlib_jll v1.3.1+2 [8e850b90] + libblastrampoline_jll v5.13.1+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 To see why use `status --outdated -m` Installation completed after 7.99s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 5449.8 ms ✓ TestEnv 1 dependency successfully precompiled in 6 seconds. 27 already precompiled. Precompiling package dependencies... Precompilation completed after 590.66s ################################################################################ # Testing # Testing SBML Status `/tmp/jl_nzVG9r/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 v1.24.0 [bb12108a] SBML_jll v5.20.1+0 [f43a241f] Downloads v1.7.0 [8f399da3] Libdl v1.11.0 [ea8e919c] SHA v0.7.0 [2f01184e] SparseArrays v1.13.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_nzVG9r/Manifest.toml` [47edcb42] ADTypes v1.16.0 [1520ce14] AbstractTrees v0.4.5 [7d9f7c33] Accessors v0.1.42 [79e6a3ab] Adapt v4.3.0 [66dad0bd] AliasTables v1.1.3 [4fba245c] ArrayInterface v7.19.0 ⌅ [e2ed5e7c] Bijections v0.1.10 [d360d2e6] ChainRulesCore v1.25.2 [861a8166] Combinatorics v1.0.3 [38540f10] CommonSolve v0.2.4 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.18.0 [b152e2b5] CompositeTypes v0.1.4 [a33af91c] CompositionsBase v0.1.2 ⌅ [187b0558] ConstructionBase v1.5.6 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 ⌅ [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [163ba53b] DiffResults v1.1.0 [b552c78f] DiffRules v1.15.1 [31c24e10] Distributions v0.25.120 [ffbed154] DocStringExtensions v0.9.5 [5b8099bc] DomainSets v0.7.16 ⌅ [7c1d4256] DynamicPolynomials v0.5.7 [4e289a0a] EnumX v1.0.5 [e2ba6199] ExprTools v0.1.10 [55351af7] ExproniconLite v0.10.14 [1a297f60] FillArrays v1.13.0 [1fa38f19] Format v1.3.7 ⌅ [f6369f11] ForwardDiff v0.10.38 [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 v0.7.11 [3587e190] InverseFunctions v0.1.17 [92d709cd] IrrationalConstants v0.2.4 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.1 [ae98c720] Jieko v0.2.1 [b964fa9f] LaTeXStrings v1.4.0 [2ee39098] LabelledArrays v1.16.1 ⌅ [984bce1d] LambertW v0.4.6 [23fbe1c1] Latexify v0.16.8 [2ab3a3ac] LogExpFunctions v0.3.29 [1914dd2f] MacroTools v0.5.16 [e1d29d7a] Missings v1.2.0 [2e0e35c7] Moshi v0.3.7 [102ac46a] MultivariatePolynomials v0.5.9 [d8a4904e] MutableArithmetics v1.6.4 [77ba4419] NaNMath v1.1.3 [bac558e1] OrderedCollections v1.8.1 [90014a1f] PDMats v0.11.35 [d236fae5] PreallocationTools v0.4.29 [aea7be01] PrecompileTools v1.3.2 [21216c6a] Preferences v1.4.3 [08abe8d2] PrettyTables v2.4.0 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [3cdcf5f2] RecipesBase v1.3.4 [731186ca] RecursiveArrayTools v3.36.0 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [79098fc4] Rmath v0.8.0 [7e49a35a] RuntimeGeneratedFunctions v0.5.15 [e5567a89] SBML v1.6.0 [0bca4576] SciMLBase v2.107.0 [c0aeaf25] SciMLOperators v1.4.0 [53ae85a6] SciMLStructures v1.7.0 [efcf1570] Setfield v1.1.2 [a2af1166] SortingAlgorithms v1.2.1 [276daf66] SpecialFunctions v2.5.1 [90137ffa] StaticArrays v1.9.14 [1e83bf80] StaticArraysCore v1.4.3 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.1 [2913bbd2] StatsBase v0.34.5 [4c63d2b9] StatsFuns v1.5.0 [892a3eda] StringManipulation v0.4.1 [2efcf032] SymbolicIndexingInterface v0.3.42 ⌃ [19f23fe9] SymbolicLimits v0.2.1 ⌅ [d1185830] SymbolicUtils v2.1.3 ⌅ [0c5d862f] Symbolics v5.36.0 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 ⌅ [8ea1fca8] TermInterface v0.4.1 [a759f4b9] TimerOutputs v0.5.29 [1986cc42] Unitful v1.24.0 [a7c27f48] Unityper v0.1.6 [94ce4f54] Libiconv_jll v1.18.0+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [bb12108a] SBML_jll v5.20.1+0 ⌅ [02c8fc9c] XML2_jll v2.13.6+1 [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 v1.12.0 [b27032c2] LibCURL v0.6.4 [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 v1.13.0 [de0858da] Printf v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.13.0 [f489334b] StyledStrings v1.11.0 [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 v8.15.0+1 [e37daf67] LibGit2_jll v1.9.1+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.7.15 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.5+0 [458c3c95] OpenSSL_jll v3.5.1+0 [efcefdf7] PCRE2_jll v10.45.0+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 v5.13.1+0 [8e850ede] nghttp2_jll v1.65.0+0 [3f19e933] p7zip_jll v17.5.0+2 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... 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_lac_D_b", "M_succ_b", "M_etoh_e"] == ["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/v1.13/Test/src/Test.jl:1929 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:46 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:745 [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_ICDHyr", "R_ACONT", "R_CO2t"] == ["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/v1.13/Test/src/Test.jl:1929 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:47 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:745 [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/v1.13/Test/src/Test.jl:1929 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:53 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:745 [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/v1.13/Test/src/Test.jl:1929 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:55 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:745 [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(-10.0, 999999.0) Stacktrace: [1] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:17 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:66 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:745 [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(-10.0, 7.6) Stacktrace: [1] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:17 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:67 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:745 [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(-999999.0, -10) Stacktrace: [1] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:17 [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [3] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/ecoli_flux.jl:68 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:745 [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: 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"#26#27"{IOStream, Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Bool, Bool})(easy::Downloads.Curl.Easy) @ Downloads /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:479 [2] with_handle(f::Downloads.var"#26#27"{IOStream, Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Bool, Bool}, handle::Downloads.Curl.Easy) @ Downloads.Curl /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Curl/Curl.jl:105 [3] #24 @ /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:390 [inlined] [4] arg_write(f::Downloads.var"#24#25"{Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Bool, Bool}, arg::IOStream) @ ArgTools /opt/julia/share/julia/stdlib/v1.13/ArgTools/src/ArgTools.jl:134 [5] #22 @ /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:389 [inlined] [6] arg_read @ /opt/julia/share/julia/stdlib/v1.13/ArgTools/src/ArgTools.jl:76 [inlined] [7] #request#9 @ /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:388 [inlined] [8] request @ /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:355 [inlined] [9] (::Downloads.var"#7#8"{Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Nothing, String})(output::IOStream) @ Downloads /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:273 [10] open(f::Downloads.var"#7#8"{Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Nothing, String}, args::String; kwargs::@Kwargs{write::Bool, lock::Bool}) @ Base ./io.jl:420 [11] open_nolock @ /opt/julia/share/julia/stdlib/v1.13/ArgTools/src/ArgTools.jl:35 [inlined] [12] arg_write(f::Function, arg::String) @ ArgTools /opt/julia/share/julia/stdlib/v1.13/ArgTools/src/ArgTools.jl:103 [13] #download#5 @ /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:272 [inlined] [14] download(url::String, output::String) @ Downloads /opt/julia/share/julia/stdlib/v1.13/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/v1.13/Test/src/Test.jl:2018 [inlined] [17] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:2041 [18] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [19] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [20] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [21] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [22] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [26] _start() @ Base ./client.jl:553 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"#26#27"{IOStream, Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Bool, Bool})(easy::Downloads.Curl.Easy) @ Downloads /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:479 [2] with_handle(f::Downloads.var"#26#27"{IOStream, Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Bool, Bool}, handle::Downloads.Curl.Easy) @ Downloads.Curl /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Curl/Curl.jl:105 [3] #24 @ /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:390 [inlined] [4] arg_write(f::Downloads.var"#24#25"{Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Bool, Bool}, arg::IOStream) @ ArgTools /opt/julia/share/julia/stdlib/v1.13/ArgTools/src/ArgTools.jl:134 [5] #22 @ /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:389 [inlined] [6] arg_read @ /opt/julia/share/julia/stdlib/v1.13/ArgTools/src/ArgTools.jl:76 [inlined] [7] #request#9 @ /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:388 [inlined] [8] request @ /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:355 [inlined] [9] (::Downloads.var"#7#8"{Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Nothing, String})(output::IOStream) @ Downloads /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:273 [10] open(f::Downloads.var"#7#8"{Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Nothing, String}, args::String; kwargs::@Kwargs{write::Bool, lock::Bool}) @ Base ./io.jl:420 [11] open_nolock @ /opt/julia/share/julia/stdlib/v1.13/ArgTools/src/ArgTools.jl:35 [inlined] [12] arg_write(f::Function, arg::String) @ ArgTools /opt/julia/share/julia/stdlib/v1.13/ArgTools/src/ArgTools.jl:103 [13] #download#5 @ /opt/julia/share/julia/stdlib/v1.13/Downloads/src/Downloads.jl:272 [inlined] [14] download(url::String, output::String) @ Downloads /opt/julia/share/julia/stdlib/v1.13/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/v1.13/Test/src/Test.jl:2018 [inlined] [17] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:2041 [18] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [19] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [20] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [21] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [22] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [26] _start() @ Base ./client.jl:553 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/v1.13/Test/src/Test.jl:1929 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:227 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [15] _start() @ Base ./client.jl:553 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/v1.13/Test/src/Test.jl:1929 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:232 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [15] _start() @ Base ./client.jl:553 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/v1.13/Test/src/Test.jl:1929 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:243 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [15] _start() @ Base ./client.jl:553 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/v1.13/Test/src/Test.jl:1929 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:265 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [15] _start() @ Base ./client.jl:553 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/v1.13/Test/src/Test.jl:1929 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:277 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [15] _start() @ Base ./client.jl:553 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/v1.13/Test/src/Test.jl:1929 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:328 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [15] _start() @ Base ./client.jl:553 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/v1.13/Test/src/Test.jl:1929 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:345 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [15] _start() @ Base ./client.jl:553 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/v1.13/Test/src/Test.jl:857 [inlined] [5] (::var"#34#35")() @ Main ./none:0 Stacktrace: [1] do_test_throws @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:902 [inlined] [2] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:862 [inlined] [3] (::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/v1.13/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/v1.13/Test/src/Test.jl:1929 [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/v1.13/Test/src/Test.jl:1929 [inlined] [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:369 [inlined] [6] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [7] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [14] _start() @ Base ./client.jl:553 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/v1.13/Test/src/Test.jl:1929 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:405 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [15] _start() @ Base ./client.jl:553 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/v1.13/Test/src/Test.jl:1929 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:419 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [15] _start() @ Base ./client.jl:553 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/v1.13/Test/src/Test.jl:1929 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:424 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [15] _start() @ Base ./client.jl:553 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/v1.13/Test/src/Test.jl:1929 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:549 [inlined] [7] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [8] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [9] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [10] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [11] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [15] _start() @ Base ./client.jl:553 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/v1.13/Test/src/Test.jl:1929 [inlined] [6] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:41 [inlined] [7] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [8] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:41 [inlined] [9] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [10] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [11] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [12] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [13] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [17] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 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:540 [10] with_logger(f::Function, logger::TestLogger) @ Base.CoreLogging ./logging/logging.jl:651 [11] #collect_test_logs#53 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:126 [inlined] [12] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:124 [inlined] [13] #match_logs#54 @ /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:274 [inlined] [14] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.13/Test/src/logging.jl:273 [15] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [17] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [18] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [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/v1.13/Test/src/Test.jl:1929 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:2018 [inlined] [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [10] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined] [13] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [14] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:312 [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:286 [18] _start() @ Base ./client.jl:553 Test Summary: | Pass Fail Error Broken Total Time SBML test suite | 94 9 51 1 155 2m11.0s CCall to SBML works and SBML returns a version | 1 1 2.4s Symbolics compatibility | 2 2 9.6s SBML flux model loading | 19 7 26 30.1s Loading of models from various sources - readSBML | 7 1 8 26.1s Loading of /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/e_coli_core.xml | 7 7 2.1s 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 0.4s 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 9.5s relational operators are decoded correctly | 1 1 0.0s custom show | 2 2 5.7s 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 10.6s Model Dasgupta2020.xml writes out as expected | 1 1 0.0s Round-trip: e_coli_core.xml | 2 2 9.7s Round-trip: T1M1133.xml | 2 2 0.2s Round-trip: Dasgupta2020.xml | 2 2 0.1s 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 1.4s Math interpretation | 9 9 0.9s RNG of the outermost testset: Random.Xoshiro(0x691036526de1a8c6, 0xe6cc178e0bcbcb25, 0xf4272e173305d30d, 0xc531999cfae1332c, 0x469396bb6c8a8faa) 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 120.34s ERROR: LoadError: Package SBML errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.13/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/v1.13/Pkg/src/Operations.jl:2695 [3] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2544 [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/v1.13/Pkg/src/API.jl:538 [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/v1.13/Pkg/src/API.jl:515 [6] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:168 [7] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:157 [8] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156 [9] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156 [inlined] [10] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:155 [11] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [12] include(mod::Module, _path::String) @ Base ./Base.jl:311 [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:320 [14] _start() @ Base ./client.jl:553 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 793.8s: package tests unexpectedly errored