Package evaluation to test BioAtomsCount on Julia 1.13.0-alpha2.30 (5abf758bb1*) started at 2026-01-08T21:39:14.292 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 10.54s ################################################################################ # Installation # Installing BioAtomsCount... Resolving package versions... Installed Twiddle ───────── v1.1.2 Installed Preferences ───── v1.5.1 Installed BioSymbols ────── v5.2.0 Installed PrecompileTools ─ v1.3.3 Installed BioSequences ──── v3.5.1 Installed BioAtomsCount ─── v0.3.1 Updating `~/.julia/environments/v1.13/Project.toml` [85ca2092] + BioAtomsCount v0.3.1 Updating `~/.julia/environments/v1.13/Manifest.toml` [85ca2092] + BioAtomsCount v0.3.1 [7e6ae17a] + BioSequences v3.5.1 [3c28c6f8] + BioSymbols v5.2.0 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.1 [7200193e] + Twiddle v1.1.2 [ade2ca70] + Dates v1.11.0 [de0858da] + Printf v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v1.0.0 [fa267f1f] + TOML v1.0.3 [4ec0a83e] + Unicode v1.11.0 Installation completed after 4.34s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 4826.8 ms ✓ TestEnv 1 dependency successfully precompiled in 5 seconds. 27 already precompiled. ┌ Warning: Could not use exact versions of packages in manifest, re-resolving └ @ TestEnv ~/.julia/packages/TestEnv/iseFl/src/julia-1.13/activate_set.jl:78 ┌ Error: Failed to use TestEnv.jl; test dependencies will not be precompiled │ exception = │ Unsatisfiable requirements detected for package JET [c3a54625]: │ JET [c3a54625] log: │ ├─possible versions are: 0.0.1 - 0.11.3 or uninstalled │ ├─restricted to versions * by project [e8eb5205], leaving only versions: 0.0.1 - 0.11.3 │ │ └─project [e8eb5205] log: │ │ ├─possible versions are: 0.0.0 or uninstalled │ │ └─project [e8eb5205] is fixed to version 0.0.0 │ └─restricted by julia compatibility requirements to versions: uninstalled — no versions left │ Stacktrace: │ [1] propagate_constraints!(graph::Pkg.Resolve.Graph, sources::Set{Int64}; log_events::Bool, err_msg_preamble::String) │ @ Pkg.Resolve /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Resolve/graphtype.jl:1194 │ ┌ [2] propagate_constraints! │ │ @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Resolve/graphtype.jl:1111 [inlined] │ ╰──── repeated 2 times │ [4] simplify_graph!(graph::Pkg.Resolve.Graph, sources::Set{Int64}; validate_versions::Bool) │ @ Pkg.Resolve /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Resolve/graphtype.jl:1718 │ ┌ [5] simplify_graph! │ │ @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Resolve/graphtype.jl:1717 [inlined] │ ╰──── repeated 2 times │ [7] resolve_versions!(env::Pkg.Types.EnvCache, registries::Vector{Pkg.Registry.RegistryInstance}, pkgs::Vector{PackageSpec}, julia_version::VersionNumber, installed_only::Bool) │ @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:781 │ [8] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}, level::UpgradeLevel; skip_writing_project::Bool, preserve::Nothing) │ @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2434 │ [9] up │ @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2408 [inlined] │ [10] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; level::UpgradeLevel, mode::PackageMode, preserve::Nothing, update_registry::Bool, skip_writing_project::Bool, kwargs::@Kwargs{io::Base.DevNull}) │ @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:465 │ [11] up │ @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:433 [inlined] │ [12] up │ @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:177 [inlined] │ [13] #resolve#170 │ @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:471 [inlined] │ [14] resolve │ @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:470 [inlined] │ [15] activate(pkg::String; allow_reresolve::Bool) │ @ TestEnv ~/.julia/packages/TestEnv/iseFl/src/julia-1.13/activate_set.jl:83 │ [16] activate(pkg::String) │ @ TestEnv ~/.julia/packages/TestEnv/iseFl/src/julia-1.13/activate_set.jl:9 │ [17] top-level scope │ @ /PkgEval.jl/scripts/precompile.jl:24 │ [18] include(mod::Module, _path::String) │ @ Base ./Base.jl:309 │ [19] exec_options(opts::Base.JLOptions) │ @ Base ./client.jl:344 │ [20] _start() │ @ Base ./client.jl:577 └ @ Main /PkgEval.jl/scripts/precompile.jl:26 Precompiling package dependencies... Precompiling packages... 863.5 ms ✓ Twiddle 1221.1 ms ✓ Preferences 940.5 ms ✓ PrecompileTools 2643.7 ms ✓ BioSymbols 10264.8 ms ✓ BioSequences 1198.1 ms ✓ BioAtomsCount 6 dependencies successfully precompiled in 17 seconds. 4 already precompiled. Precompilation completed after 39.2s ################################################################################ # Testing # Testing BioAtomsCount Test Could not use exact versions of packages in manifest, re-resolving. Note: if you do not check your manifest file into source control, then you can probably ignore this message. However, if you do check your manifest file into source control, then you probably want to pass the `allow_reresolve = false` kwarg when calling the `Pkg.test` function. Testing failed after 7.01s ERROR: LoadError: Unsatisfiable requirements detected for package JET [c3a54625]: JET [c3a54625] log: ├─possible versions are: 0.0.1 - 0.11.3 or uninstalled ├─restricted to versions * by project [7b363dd3], leaving only versions: 0.0.1 - 0.11.3 │ └─project [7b363dd3] log: │ ├─possible versions are: 0.0.0 or uninstalled │ └─project [7b363dd3] is fixed to version 0.0.0 └─restricted by julia compatibility requirements to versions: uninstalled — no versions left Stacktrace: [1] propagate_constraints!(graph::Pkg.Resolve.Graph, sources::Set{Int64}; log_events::Bool, err_msg_preamble::String) @ Pkg.Resolve /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Resolve/graphtype.jl:1194 ┌ [2] propagate_constraints! │ @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Resolve/graphtype.jl:1111 [inlined] ╰──── repeated 2 times [4] simplify_graph!(graph::Pkg.Resolve.Graph, sources::Set{Int64}; validate_versions::Bool) @ Pkg.Resolve /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Resolve/graphtype.jl:1718 ┌ [5] simplify_graph! │ @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Resolve/graphtype.jl:1717 [inlined] ╰──── repeated 2 times [7] resolve_versions!(env::Pkg.Types.EnvCache, registries::Vector{Pkg.Registry.RegistryInstance}, pkgs::Vector{PackageSpec}, julia_version::VersionNumber, installed_only::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:781 [8] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}, level::UpgradeLevel; skip_writing_project::Bool, preserve::Nothing) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2434 [9] up @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2408 [inlined] [10] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; level::UpgradeLevel, mode::PackageMode, preserve::Nothing, update_registry::Bool, skip_writing_project::Bool, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:465 [11] up @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:433 [inlined] [12] kwcall(::@NamedTuple{skip_writing_project::Bool, update_registry::Bool, io::IOContext{IO}}, ::typeof(Pkg.API.up), ctx::Pkg.Types.Context) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:177 [13] (::Pkg.Operations.var"#215#216"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#230#231"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec})() @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2773 [14] with_temp_env(fn::Pkg.Operations.var"#215#216"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#230#231"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec}, temp_env::String) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2628 [15] (::Pkg.Operations.var"#211#212"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#230#231"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec, String, String})(tmp::String) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2742 [16] mktempdir(fn::Pkg.Operations.var"#211#212"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#230#231"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec, String, String}, parent::String; prefix::String) @ Base.Filesystem ./file.jl:936 [17] mktempdir(fn::Function, parent::String) @ Base.Filesystem ./file.jl:932 [18] #sandbox#207 @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2689 [inlined] [19] kwcall(::@NamedTuple{preferences::Dict{String, Any}, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool}, ::typeof(Pkg.Operations.sandbox), fn::Function, ctx::Pkg.Types.Context, target::PackageSpec, sandbox_path::String, sandbox_project_override::Nothing) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2679 [20] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2953 [21] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2859 [inlined] [22] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:572 [23] kwcall(::@NamedTuple{julia_args::Cmd, io::IOContext{IO}}, ::typeof(Pkg.API.test), ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:548 [24] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:172 [25] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:161 [26] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:160 [27] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:160 [inlined] [28] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:159 [29] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:237 [30] include(mod::Module, _path::String) @ Base ./Base.jl:309 [31] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [32] _start() @ Base ./client.jl:577 in expression starting at /PkgEval.jl/scripts/evaluate.jl:228 caused by: Unsatisfiable requirements detected for package JET [c3a54625]: JET [c3a54625] log: ├─possible versions are: 0.0.1 - 0.11.3 or uninstalled ├─restricted to versions * by project [7b363dd3], leaving only versions: 0.0.1 - 0.11.3 │ └─project [7b363dd3] log: │ ├─possible versions are: 0.0.0 or uninstalled │ └─project [7b363dd3] is fixed to version 0.0.0 └─restricted by julia compatibility requirements to versions: uninstalled — no versions left Stacktrace: [1] propagate_constraints!(graph::Pkg.Resolve.Graph, sources::Set{Int64}; log_events::Bool, err_msg_preamble::String) @ Pkg.Resolve /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Resolve/graphtype.jl:1194 ┌ [2] propagate_constraints! │ @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Resolve/graphtype.jl:1111 [inlined] ╰──── repeated 2 times [4] simplify_graph!(graph::Pkg.Resolve.Graph, sources::Set{Int64}; validate_versions::Bool) @ Pkg.Resolve /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Resolve/graphtype.jl:1718 ┌ [5] simplify_graph! │ @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Resolve/graphtype.jl:1717 [inlined] ╰──── repeated 2 times [7] resolve_versions!(env::Pkg.Types.EnvCache, registries::Vector{Pkg.Registry.RegistryInstance}, pkgs::Vector{PackageSpec}, julia_version::VersionNumber, installed_only::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:781 [8] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}, level::UpgradeLevel; skip_writing_project::Bool, preserve::Nothing) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2434 [9] up @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2408 [inlined] [10] up(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; level::UpgradeLevel, mode::PackageMode, preserve::Nothing, update_registry::Bool, skip_writing_project::Bool, kwargs::@Kwargs{io::Base.DevNull}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:465 [11] up @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:433 [inlined] [12] up @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:177 [inlined] [13] #resolve#170 @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:471 [inlined] [14] resolve @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:470 [inlined] [15] (::Pkg.Operations.var"#215#216"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#230#231"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec})() @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2758 [16] with_temp_env(fn::Pkg.Operations.var"#215#216"{String, Pkg.Types.EnvCache, Bool, Bool, Bool, Pkg.Operations.var"#230#231"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec}, temp_env::String) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2628 [17] (::Pkg.Operations.var"#211#212"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#230#231"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec, String, String})(tmp::String) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2742 [18] mktempdir(fn::Pkg.Operations.var"#211#212"{Dict{String, Any}, Bool, Bool, Bool, Pkg.Operations.var"#230#231"{Bool, Cmd, Cmd, Nothing, Pkg.Types.Context, Vector{Tuple{String, Base.Process}}, String, PackageSpec}, Pkg.Types.Context, PackageSpec, String, String}, parent::String; prefix::String) @ Base.Filesystem ./file.jl:936 [19] mktempdir(fn::Function, parent::String) @ Base.Filesystem ./file.jl:932 [20] #sandbox#207 @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2689 [inlined] [21] kwcall(::@NamedTuple{preferences::Dict{String, Any}, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool}, ::typeof(Pkg.Operations.sandbox), fn::Function, ctx::Pkg.Types.Context, target::PackageSpec, sandbox_path::String, sandbox_project_override::Nothing) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2679 [22] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2953 [23] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2859 [inlined] [24] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:572 [25] kwcall(::@NamedTuple{julia_args::Cmd, io::IOContext{IO}}, ::typeof(Pkg.API.test), ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:548 [26] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:172 [27] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:161 [28] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:160 [29] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:160 [inlined] [30] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:159 [31] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:237 [32] include(mod::Module, _path::String) @ Base ./Base.jl:309 [33] exec_options(opts::Base.JLOptions) @ Base ./client.jl:344 [34] _start() @ Base ./client.jl:577 PkgEval failed after 79.77s: there were unidentified errors