Package evaluation to test MMTF on Julia 1.14.0-DEV.1475 (42ad41c179*) started at 2026-01-04T14:19:33.493 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Activating project at `~/.julia/environments/v1.14` Set-up completed after 10.01s ################################################################################ # Installation # Installing MMTF... Resolving package versions... Updating `~/.julia/environments/v1.14/Project.toml` [259c3a9c] + MMTF v1.0.0 Updating `~/.julia/environments/v1.14/Manifest.toml` [944b1d66] + CodecZlib v0.7.8 [259c3a9c] + MMTF v1.0.0 [99f44e22] + MsgPack v1.2.1 [3bb67fe8] + TranscodingStreams v0.11.3 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [f43a241f] + Downloads v1.7.0 [7b1f6079] + FileWatching v1.11.0 [b27032c2] + LibCURL v1.0.0 [8f399da3] + Libdl v1.11.0 [ca575930] + NetworkOptions v1.3.0 [9e88b42a] + Serialization v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] + LibCURL_jll v8.17.0+0 [29816b5a] + LibSSH2_jll v1.11.3+1 [14a3606d] + MozillaCACerts_jll v2025.12.2 [458c3c95] + OpenSSL_jll v3.5.4+0 [83775a58] + Zlib_jll v1.3.1+2 [3161d3a3] + Zstd_jll v1.5.7+1 [8e850ede] + nghttp2_jll v1.68.0+1 Installation completed after 0.91s ################################################################################ # Precompilation # ERROR: LoadError: MethodError: no method matching setindex!(::Base.ScopedValues.ScopedValue{IO}, ::Nothing) The function `setindex!` exists, but no method is defined for this combination of argument types. Stacktrace: [1] top-level scope @ /PkgEval.jl/scripts/precompile.jl:10 [2] include(mod::Module, _path::String) @ Base ./Base.jl:309 [3] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [4] _start() @ Base ./client.jl:585 in expression starting at /PkgEval.jl/scripts/precompile.jl:6 caused by: MethodError: no method matching setindex!(::Base.ScopedValues.ScopedValue{IO}, ::Base.DevNull) The function `setindex!` exists, but no method is defined for this combination of argument types. Stacktrace: [1] top-level scope @ /PkgEval.jl/scripts/precompile.jl:7 [2] include(mod::Module, _path::String) @ Base ./Base.jl:309 [3] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [4] _start() @ Base ./client.jl:585 Precompilation failed after 12.82s ################################################################################ # Testing # Testing MMTF Status `/tmp/jl_iFLK65/Project.toml` [944b1d66] CodecZlib v0.7.8 [259c3a9c] MMTF v1.0.0 [99f44e22] MsgPack v1.2.1 [f43a241f] Downloads v1.7.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_iFLK65/Manifest.toml` [944b1d66] CodecZlib v0.7.8 [259c3a9c] MMTF v1.0.0 [99f44e22] MsgPack v1.2.1 [3bb67fe8] TranscodingStreams v0.11.3 [0dad84c5] ArgTools v1.1.2 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [f43a241f] Downloads v1.7.0 [7b1f6079] FileWatching v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [ac6e5ff7] JuliaSyntaxHighlighting v1.13.0 [b27032c2] LibCURL v1.0.0 [8f399da3] Libdl v1.11.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [ca575930] NetworkOptions v1.3.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v1.0.0 [9e88b42a] Serialization v1.11.0 [f489334b] StyledStrings v1.13.0 [8dfed614] Test v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.3.0+1 [deac9b47] LibCURL_jll v8.17.0+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.12.2 [458c3c95] OpenSSL_jll v3.5.4+0 [83775a58] Zlib_jll v1.3.1+2 [3161d3a3] Zstd_jll v1.5.7+1 [8e850ede] nghttp2_jll v1.68.0+1 Testing Running tests... Test Summary: | Pass Total Time Codecs - Decoding Test | 9 9 1.4s Test Summary: | Pass Total Time Codecs - Encoding Test | 9 9 1.0s Test Summary: | Pass Total Time Converters Test | 11 11 0.1s Test Summary: | Pass Total Time Utils Test | 5 5 0.2s PDB ID - 1a1q Round Trip Test: Error During Test at /home/pkgeval/.julia/packages/MMTF/opacl/test/runtests.jl:205 Got exception outside of a @test RequestError: Could not resolve host: mmtf.rcsb.org while requesting http://mmtf.rcsb.org/v1.0/full/1a1q.mmtf.gz Stacktrace: [1] (::Downloads.var"#23#24"{IOStream, Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Base.RefValue{Union{Downloads.RequestError, Downloads.Response}}, Int64, Bool, Bool, Downloads.Downloader})(easy::Downloads.Curl.Easy) @ Downloads /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:484 [2] with_handle(f::Downloads.var"#23#24"{IOStream, Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Base.RefValue{Union{Downloads.RequestError, Downloads.Response}}, Int64, Bool, Bool, Downloads.Downloader}, handle::Downloads.Curl.Easy) @ Downloads.Curl /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Curl/Curl.jl:105 [3] #21 @ /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:395 [inlined] [4] arg_write(f::Downloads.var"#21#22"{Base.DevNull, Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Bool, Nothing, String, Base.RefValue{Union{Downloads.RequestError, Downloads.Response}}, Int64, Bool, Bool, Downloads.Downloader}, arg::IOStream) @ ArgTools /opt/julia/share/julia/stdlib/v1.14/ArgTools/src/ArgTools.jl:134 [5] #19 @ /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:394 [inlined] [6] arg_read @ /opt/julia/share/julia/stdlib/v1.14/ArgTools/src/ArgTools.jl:76 [inlined] [7] request(url::String; input::Nothing, output::IOStream, method::Nothing, headers::Vector{Pair{String, String}}, timeout::Float64, progress::Nothing, verbose::Bool, debug::Nothing, throw::Bool, downloader::Nothing, interrupt::Nothing) @ Downloads /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:393 [8] request @ /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:355 [inlined] [9] #7 @ /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:273 [inlined] [10] open(f::Downloads.var"#7#8"{Nothing, Vector{Pair{String, String}}, Float64, Nothing, Bool, Nothing, Nothing, String, Base.RefValue{Downloads.Response}}, args::String; kwargs::@Kwargs{write::Bool, lock::Bool}) @ Base ./io.jl:427 [11] open_nolock @ /opt/julia/share/julia/stdlib/v1.14/ArgTools/src/ArgTools.jl:35 [inlined] [12] arg_write(f::Function, arg::String) @ ArgTools /opt/julia/share/julia/stdlib/v1.14/ArgTools/src/ArgTools.jl:103 [13] #download#5 @ /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:272 [inlined] [14] download @ /opt/julia/share/julia/stdlib/v1.14/Downloads/src/Downloads.jl:252 [inlined] [15] fetchmmtf(pdbid::String) @ MMTF ~/.julia/packages/MMTF/opacl/src/api.jl:154 [16] macro expansion @ ~/.julia/packages/MMTF/opacl/test/runtests.jl:257 [inlined] [17] macro expansion @ /opt/julia/share/julia/stdlib/v1.14/Test/src/Test.jl:1995 [inlined] [18] top-level scope @ ~/.julia/packages/MMTF/opacl/test/runtests.jl:206 [19] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:310 [20] top-level scope @ none:6 [21] eval(m::Module, e::Any) @ Core ./boot.jl:489 [22] exec_options(opts::Base.JLOptions) @ Base ./client.jl:310 [23] _start() @ Base ./client.jl:585 Test Summary: | Error Total Time Round Trip Test | 1 1 5.7s RNG of the outermost testset: Random.Xoshiro(0x1dbf0edeb9c567b7, 0xbcbd08d346a6e7a5, 0x7ef654561011dbc6, 0x226d1efb00e4536b, 0xbfc1a7e3e451b171) ERROR: LoadError: Some tests did not pass: 0 passed, 0 failed, 1 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/MMTF/opacl/test/runtests.jl:1 Testing failed after 22.05s ERROR: LoadError: Package MMTF errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Types.jl:68 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:3067 [3] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2916 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:572 [5] kwcall(::@NamedTuple{julia_args::Cmd, io::IOContext{IO}}, ::typeof(Pkg.API.test), ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:548 [6] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:172 [7] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:161 [8] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [9] test @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [inlined] [10] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String) @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:159 [11] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:237 [12] include(mod::Module, _path::String) @ Base ./Base.jl:309 [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [14] _start() @ Base ./client.jl:585 in expression starting at /PkgEval.jl/scripts/evaluate.jl:228 PkgEval failed after 68.57s: networking-related issues were detected