Package evaluation of SBML on Julia 1.10.9 (96dc2d8c45*) started at 2025-06-06T13:15:14.738 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 5.17s ################################################################################ # Installation # Installing SBML... Resolving package versions... Updating `~/.julia/environments/v1.10/Project.toml` [e5567a89] + SBML v1.6.0 Updating `~/.julia/environments/v1.10/Manifest.toml` [ffbed154] + DocStringExtensions v0.9.4 [615f187c] + IfElse v0.1.1 [692b3bcd] + JLLWrappers v1.7.0 [21216c6a] + Preferences v1.4.3 [e5567a89] + SBML v1.6.0 [1986cc42] + Unitful v1.22.1 [94ce4f54] + Libiconv_jll v1.18.0+0 [bb12108a] + SBML_jll v5.20.1+0 ⌅ [02c8fc9c] + XML2_jll v2.13.6+1 [56f22d72] + Artifacts [ade2ca70] + Dates [8f399da3] + Libdl [37e2e46d] + LinearAlgebra [de0858da] + Printf [9a3f8284] + Random [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization [2f01184e] + SparseArrays v1.10.0 [fa267f1f] + TOML v1.0.3 [4ec0a83e] + Unicode [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0 [4536629a] + OpenBLAS_jll v0.3.23+4 [bea87d4a] + SuiteSparse_jll v7.2.1+1 [83775a58] + Zlib_jll v1.2.13+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 8.22s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 304.62s ################################################################################ # Testing # Testing SBML Status `/tmp/jl_xO1D8O/Project.toml` ⌅ [187b0558] ConstructionBase v1.5.6 [ffbed154] DocStringExtensions v0.9.4 [615f187c] IfElse v0.1.1 [e5567a89] SBML v1.6.0 ⌅ [0c5d862f] Symbolics v5.36.0 [1986cc42] Unitful v1.22.1 [bb12108a] SBML_jll v5.20.1+0 [f43a241f] Downloads v1.6.0 [8f399da3] Libdl [ea8e919c] SHA v0.7.0 [2f01184e] SparseArrays v1.10.0 [8dfed614] Test Status `/tmp/jl_xO1D8O/Manifest.toml` [47edcb42] ADTypes v1.14.0 [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 v1.25.1 [861a8166] Combinatorics v1.0.3 [38540f10] CommonSolve v0.2.4 [bbf7d656] CommonSubexpressions v0.3.1 [f70d9fcc] CommonWorldInvalidations v1.0.0 [34da2185] Compat v4.16.0 [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 v0.9.4 [5b8099bc] DomainSets v0.7.15 ⌅ [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 v1.7.0 [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 v0.3.5 [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 v0.4.27 ⌅ [aea7be01] PrecompileTools v1.2.1 [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 v3.33.0 [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 v2.97.0 [c0aeaf25] SciMLOperators v1.3.1 [53ae85a6] SciMLStructures v1.7.0 [efcf1570] Setfield v1.1.2 [a2af1166] SortingAlgorithms v1.2.1 [276daf66] SpecialFunctions v2.5.1 [90137ffa] StaticArrays v1.9.13 [1e83bf80] StaticArraysCore v1.4.3 [82ae8749] StatsAPI v1.7.1 [2913bbd2] StatsBase v0.34.5 [4c63d2b9] StatsFuns v1.5.0 [892a3eda] StringManipulation v0.4.1 [2efcf032] SymbolicIndexingInterface v0.3.40 ⌃ [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 v1.22.1 [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 v1.1.1 [56f22d72] Artifacts [2a0f44e3] Base64 [ade2ca70] Dates [8ba89e20] Distributed [f43a241f] Downloads v1.6.0 [7b1f6079] FileWatching [9fa8497b] Future [b77e0a4c] InteractiveUtils [b27032c2] LibCURL v0.6.4 [76f85450] LibGit2 [8f399da3] Libdl [37e2e46d] LinearAlgebra [56ddb016] Logging [d6f4376e] Markdown [ca575930] NetworkOptions v1.2.0 [44cfe95a] Pkg v1.10.0 [de0858da] Printf [3fa0cd96] REPL [9a3f8284] Random [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization [6462fe0b] Sockets [2f01184e] SparseArrays v1.10.0 [10745b16] Statistics v1.10.0 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test [cf7118a7] UUIDs [4ec0a83e] Unicode [e66e0078] CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] LibCURL_jll v8.4.0+0 [e37daf67] LibGit2_jll v1.6.4+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.2+1 [14a3606d] MozillaCACerts_jll v2023.1.10 [4536629a] OpenBLAS_jll v0.3.23+4 [05823500] OpenLibm_jll v0.8.5+0 [bea87d4a] SuiteSparse_jll v7.2.1+1 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.52.0+1 [3f19e933] p7zip_jll v17.4.0+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... 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: Failed to connect to bigg.ucsd.edu port 80 after 30032 ms: Timeout was reached while requesting http://bigg.ucsd.edu/static/models/e_coli_core.xml Stacktrace: [1] (::Downloads.var"#9#19"{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/v1.10/Downloads/src/Downloads.jl:452 [2] with_handle(f::Downloads.var"#9#19"{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/v1.10/Downloads/src/Curl/Curl.jl:105 [3] #8 @ /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:363 [inlined] [4] arg_write(f::Downloads.var"#8#18"{Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Bool, Bool}, arg::IOStream) @ ArgTools /opt/julia/share/julia/stdlib/v1.10/ArgTools/src/ArgTools.jl:134 [5] #7 @ /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:362 [inlined] [6] arg_read @ /opt/julia/share/julia/stdlib/v1.10/ArgTools/src/ArgTools.jl:76 [inlined] [7] request(url::String; input::Nothing, output::IOStream, method::Nothing, headers::Vector{Pair{String, String}}, timeout::Float64, progress::Nothing, verbose::Bool, debug::Nothing, throw::Bool, downloader::Nothing, interrupt::Nothing) @ Downloads /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:361 [8] request @ /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:328 [inlined] [9] #3 @ /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:259 [inlined] [10] open(f::Downloads.var"#3#4"{Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Nothing, String}, args::String; kwargs::@Kwargs{write::Bool, lock::Bool}) @ Base ./io.jl:396 [11] open_nolock @ /opt/julia/share/julia/stdlib/v1.10/ArgTools/src/ArgTools.jl:35 [inlined] [12] arg_write(f::Function, arg::String) @ ArgTools /opt/julia/share/julia/stdlib/v1.10/ArgTools/src/ArgTools.jl:103 [13] #download#2 @ /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:258 [inlined] [14] download(url::String, output::String) @ Downloads /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:247 [15] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:181 [inlined] [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [17] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:1690 [18] include(fname::String) @ Base.MainInclude ./client.jl:494 [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [20] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [21] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [22] include(fname::String) @ Base.MainInclude ./client.jl:494 [23] top-level scope @ none:6 [24] eval @ ./boot.jl:385 [inlined] [25] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [26] _start() @ Base ./client.jl:557 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: Failed to connect to bigg.ucsd.edu port 80 after 5188 ms: Couldn't connect to server while requesting http://bigg.ucsd.edu/static/models/e_coli_core.xml Stacktrace: [1] (::Downloads.var"#9#19"{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/v1.10/Downloads/src/Downloads.jl:452 [2] with_handle(f::Downloads.var"#9#19"{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/v1.10/Downloads/src/Curl/Curl.jl:105 [3] #8 @ /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:363 [inlined] [4] arg_write(f::Downloads.var"#8#18"{Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Bool, Bool}, arg::IOStream) @ ArgTools /opt/julia/share/julia/stdlib/v1.10/ArgTools/src/ArgTools.jl:134 [5] #7 @ /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:362 [inlined] [6] arg_read @ /opt/julia/share/julia/stdlib/v1.10/ArgTools/src/ArgTools.jl:76 [inlined] [7] request(url::String; input::Nothing, output::IOStream, method::Nothing, headers::Vector{Pair{String, String}}, timeout::Float64, progress::Nothing, verbose::Bool, debug::Nothing, throw::Bool, downloader::Nothing, interrupt::Nothing) @ Downloads /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:361 [8] request @ /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:328 [inlined] [9] #3 @ /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:259 [inlined] [10] open(f::Downloads.var"#3#4"{Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Nothing, String}, args::String; kwargs::@Kwargs{write::Bool, lock::Bool}) @ Base ./io.jl:396 [11] open_nolock @ /opt/julia/share/julia/stdlib/v1.10/ArgTools/src/ArgTools.jl:35 [inlined] [12] arg_write(f::Function, arg::String) @ ArgTools /opt/julia/share/julia/stdlib/v1.10/ArgTools/src/ArgTools.jl:103 [13] #download#2 @ /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:258 [inlined] [14] download(url::String, output::String) @ Downloads /opt/julia/share/julia/stdlib/v1.10/Downloads/src/Downloads.jl:247 [15] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:181 [inlined] [16] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [17] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:1690 [18] include(fname::String) @ Base.MainInclude ./client.jl:494 [19] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [20] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [21] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [22] include(fname::String) @ Base.MainInclude ./client.jl:494 [23] top-level scope @ none:6 [24] eval @ ./boot.jl:385 [inlined] [25] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [26] _start() @ Base ./client.jl:557 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(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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:227 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:223 [6] include(fname::String) @ Base.MainInclude ./client.jl:494 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] top-level scope @ none:6 [12] eval @ ./boot.jl:385 [inlined] [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [14] _start() @ Base ./client.jl:557 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(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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:232 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:232 [6] include(fname::String) @ Base.MainInclude ./client.jl:494 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] top-level scope @ none:6 [12] eval @ ./boot.jl:385 [inlined] [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [14] _start() @ Base ./client.jl:557 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(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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:243 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:243 [6] include(fname::String) @ Base.MainInclude ./client.jl:494 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] top-level scope @ none:6 [12] eval @ ./boot.jl:385 [inlined] [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [14] _start() @ Base ./client.jl:557 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(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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:265 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:265 [6] include(fname::String) @ Base.MainInclude ./client.jl:494 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] top-level scope @ none:6 [12] eval @ ./boot.jl:385 [inlined] [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [14] _start() @ Base ./client.jl:557 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(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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:277 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:277 [6] include(fname::String) @ Base.MainInclude ./client.jl:494 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] top-level scope @ none:6 [12] eval @ ./boot.jl:385 [inlined] [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [14] _start() @ Base ./client.jl:557 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(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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:328 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:328 [6] include(fname::String) @ Base.MainInclude ./client.jl:494 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] top-level scope @ none:6 [12] eval @ ./boot.jl:385 [inlined] [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [14] _start() @ Base ./client.jl:557 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(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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:345 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:345 [6] include(fname::String) @ Base.MainInclude ./client.jl:494 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] top-level scope @ none:6 [12] eval @ ./boot.jl:385 [inlined] [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [14] _start() @ Base ./client.jl:557 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 Stacktrace: [1] #28 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:771 [inlined] [2] (::var"#28#33")() @ Main ./none:0 [3] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [4] with_logger @ ./logging.jl:630 [inlined] [5] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [6] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [7] match_logs(::Function, ::Tuple{Symbol, Regex}, ::Vararg{Tuple{Symbol, Regex}}; match_mode::Symbol, kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [8] match_logs(::Function, ::Tuple{Symbol, Regex}, ::Vararg{Tuple{Symbol, Regex}}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:361 [inlined] [10] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:361 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/v1.10/Test/src/logging.jl:166 [2] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:361 [inlined] [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [4] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:361 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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:369 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:361 [6] include(fname::String) @ Base.MainInclude ./client.jl:494 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] top-level scope @ none:6 [12] eval @ ./boot.jl:385 [inlined] [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [14] _start() @ Base ./client.jl:557 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(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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:405 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:405 [6] include(fname::String) @ Base.MainInclude ./client.jl:494 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] top-level scope @ none:6 [12] eval @ ./boot.jl:385 [inlined] [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [14] _start() @ Base ./client.jl:557 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(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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:419 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:419 [6] include(fname::String) @ Base.MainInclude ./client.jl:494 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] top-level scope @ none:6 [12] eval @ ./boot.jl:385 [inlined] [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [14] _start() @ Base ./client.jl:557 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(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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:424 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:424 [6] include(fname::String) @ Base.MainInclude ./client.jl:494 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] top-level scope @ none:6 [12] eval @ ./boot.jl:385 [inlined] [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [14] _start() @ Base ./client.jl:557 names and identifiers of objects: Error During Test at /home/pkgeval/.julia/packages/SBML/mJIpc/test/loadmodels.jl:452 Got exception outside of a @test AssertionError: /home/pkgeval/.julia/packages/SBML/mJIpc/test/data/e_coli_core.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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:453 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:453 [6] include(fname::String) @ Base.MainInclude ./client.jl:494 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] top-level scope @ none:6 [12] eval @ ./boot.jl:385 [inlined] [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [14] _start() @ Base ./client.jl:557 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(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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:549 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/loadmodels.jl:549 [6] include(fname::String) @ Base.MainInclude ./client.jl:494 [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:30 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] top-level scope @ none:6 [12] eval @ ./boot.jl:385 [inlined] [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [14] _start() @ Base ./client.jl:557 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(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] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:41 [inlined] [4] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:41 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [7] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [8] include(fname::String) @ Base.MainInclude ./client.jl:494 [9] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [10] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [11] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [12] include(fname::String) @ Base.MainInclude ./client.jl:494 [13] top-level scope @ none:6 [14] eval @ ./boot.jl:385 [inlined] [15] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [16] _start() @ Base ./client.jl:557 Round-trip: e_coli_core.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/e_coli_core.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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 Round-trip: e_coli_core.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/e_coli_core.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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [inlined] [5] #43 @ ./none:0 [inlined] [6] writeSBML @ ~/.julia/packages/SBML/mJIpc/src/writesbml.jl:711 [inlined] [7] (::var"#42#49"{String})() @ Main ./none:0 [8] with_logstate(f::Function, logstate::Any) @ Base.CoreLogging ./logging.jl:517 [9] with_logger @ ./logging.jl:630 [inlined] [10] collect_test_logs(f::Function; kwargs::@Kwargs{}) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:126 [11] collect_test_logs @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:124 [inlined] [12] #match_logs#74 @ /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:274 [inlined] [13] match_logs(::Function) @ Test /opt/julia/share/julia/stdlib/v1.10/Test/src/logging.jl:273 [14] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:61 [inlined] [15] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [16] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [18] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 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(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] readSBML @ ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:222 [inlined] [4] readSBML(f::var"#45#52"{Nothing}, args::String; kwargs::@Kwargs{}) @ SBML ~/.julia/packages/SBML/mJIpc/src/readsbml.jl:245 [5] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:72 [inlined] [6] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1669 [inlined] [7] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:60 [inlined] [8] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [9] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/writemodels.jl:40 [10] include(fname::String) @ Base.MainInclude ./client.jl:494 [11] macro expansion @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:31 [inlined] [12] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [13] top-level scope @ ~/.julia/packages/SBML/mJIpc/test/runtests.jl:22 [14] include(fname::String) @ Base.MainInclude ./client.jl:494 [15] top-level scope @ none:6 [16] eval @ ./boot.jl:385 [inlined] [17] exec_options(opts::Base.JLOptions) @ Base ./client.jl:296 [18] _start() @ Base ./client.jl:557 Test Summary: | Pass Fail Error Broken Total Time SBML test suite | 67 2 54 1 124 1m40.5s CCall to SBML works and SBML returns a version | 1 1 1.4s Symbolics compatibility | 2 2 5.2s SBML flux model loading | 26 26 14.8s Loading of models from various sources - readSBML | 1 1 32.8s Loading of models from various sources - readSBMLFromString | 1 1 5.6s readSBMLFromString | 2 2 0.7s Time variables in math | 1 1 0.3s Units | 1 1 0.2s Initial amounts and concentrations | 1 1 0.2s Initial assignments | 1 1 0.2s Rules | 1 1 0.2s Constraints | 1 1 1.0s Extensive kinetic math | 1 1 0.2s logBase and root math functions | 1 1 0.2s rationals in math | 1 1 0.1s converters work and fail gracefully | 2 1 3 7.4s relational operators are decoded correctly | 1 1 0.2s custom show | 2 2 4.0s events | 1 1 0.2s model attributes | 1 1 0.2s names and identifiers of objects | 1 1 0.2s constantness | 1 1 0.2s writeSBML | 39 39 15.3s Model Dasgupta2020.xml writes out as expected | 1 1 0.2s Round-trip: e_coli_core.xml | 2 2 4.3s Round-trip: T1M1133.xml | 2 2 0.6s Round-trip: Dasgupta2020.xml | 2 2 0.6s Round-trip: yeast-GEM.xml | 2 2 0.6s Round-trip: 00852-sbml-l3v2.xml | 2 2 0.6s Round-trip: 00140-sbml-l3v2.xml | 2 2 1.0s Round-trip: 00374-sbml-l3v2.xml | 2 2 0.6s Round-trip: 01565-sbml-l3v1.xml | 2 2 0.6s Round-trip: 01289-sbml-l3v2.xml | 2 2 0.6s Round-trip: 00191-sbml-l3v2.xml | 2 2 0.6s Round-trip: 01234-sbml-l3v2.xml | 2 2 0.6s Round-trip: 00489-sbml-l3v2.xml | 2 2 0.6s Round-trip: 00026-sbml-l3v2.xml | 2 2 0.6s Round-trip: 00983-sbml-l3v2.xml | 2 2 0.6s Round-trip: 00054-sbml-l3v2.xml | 2 2 0.6s Round-trip: 00975-sbml-l3v2.xml | 2 2 0.6s Round-trip: 00976-sbml-l3v2.xml | 2 2 0.5s Round-trip: 01323-sbml-l3v2.xml | 2 2 0.6s Round-trip: 00878-sbml-l3v2.xml | 2 2 0.6s Loading of models from sbml_test_suite | 23 1 24 1.5s Math interpretation | 9 9 0.6s ERROR: LoadError: Some tests did not pass: 67 passed, 2 failed, 54 errored, 1 broken. in expression starting at /home/pkgeval/.julia/packages/SBML/mJIpc/test/runtests.jl:21 Testing failed after 263.56s ERROR: LoadError: Package SBML errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Types.jl:70 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.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/v1.10/Pkg/src/Operations.jl:2034 [3] test @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1915 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.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::Base.PipeEndpoint}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:444 [5] test(pkgs::Vector{Pkg.Types.PackageSpec}; io::Base.PipeEndpoint, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:159 [6] test @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:147 [inlined] [7] #test#74 @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:146 [inlined] [8] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 628.81s: package tests unexpectedly errored