Package evaluation to test BioMarkovChains on Julia 1.13.0-alpha2.30 (5abf758bb1*) started at 2026-01-08T21:56:24.018 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 10.31s ################################################################################ # Installation # Installing BioMarkovChains... Resolving package versions... Installed StaticArraysCore ─ v1.4.4 Installed Twiddle ────────── v1.1.2 Installed BioSymbols ─────── v5.2.0 Installed Preferences ────── v1.5.1 Installed PrecompileTools ── v1.3.3 Installed BioSequences ───── v3.5.1 Installed VectorizedKmers ── v0.9.2 Installed BioMarkovChains ── v1.0.0 Updating `~/.julia/environments/v1.13/Project.toml` [f861b655] + BioMarkovChains v1.0.0 Updating `~/.julia/environments/v1.13/Manifest.toml` [f861b655] + BioMarkovChains v1.0.0 [7e6ae17a] + BioSequences v3.5.1 [3c28c6f8] + BioSymbols v5.2.0 [aea7be01] + PrecompileTools v1.3.3 [21216c6a] + Preferences v1.5.1 [1e83bf80] + StaticArraysCore v1.4.4 [7200193e] + Twiddle v1.1.2 [2ef45bd6] + VectorizedKmers v0.9.2 [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 4.26s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling packages... 4667.8 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 [f1a7d5a4], leaving only versions: 0.0.1 - 0.11.3 │ │ └─project [f1a7d5a4] log: │ │ ├─possible versions are: 0.0.0 or uninstalled │ │ └─project [f1a7d5a4] 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... 1012.1 ms ✓ StaticArraysCore 863.2 ms ✓ Twiddle 1168.9 ms ✓ Preferences 863.9 ms ✓ VectorizedKmers 931.4 ms ✓ PrecompileTools 2734.8 ms ✓ BioSymbols 10182.3 ms ✓ BioSequences 1347.5 ms ✓ VectorizedKmers → BioSequencesExt 3932.6 ms ✓ BioMarkovChains 9 dependencies successfully precompiled in 23 seconds. 4 already precompiled. Precompilation completed after 45.34s ################################################################################ # Testing # Testing BioMarkovChains 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 6.58s 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 [9c79d953], leaving only versions: 0.0.1 - 0.11.3 │ └─project [9c79d953] log: │ ├─possible versions are: 0.0.0 or uninstalled │ └─project [9c79d953] 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 [9c79d953], leaving only versions: 0.0.1 - 0.11.3 │ └─project [9c79d953] log: │ ├─possible versions are: 0.0.0 or uninstalled │ └─project [9c79d953] 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 84.38s: there were unidentified errors