Package evaluation of PeriodicHiddenMarkovModels on Julia 1.13.0-DEV.985 (9c94e7ae32*) started at 2025-08-14T15:02:09.978


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# Set-up
#

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 9.76s


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# Installation
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Installing PeriodicHiddenMarkovModels...
   Resolving package versions...
    Updating `~/.julia/environments/v1.13/Project.toml`
  [4873b48c] + PeriodicHiddenMarkovModels v0.2.0
    Updating `~/.julia/environments/v1.13/Manifest.toml`
  [dce04be8] + ArgCheck v2.5.0
  [d360d2e6] + ChainRulesCore v1.26.0
  [34da2185] + Compat v4.18.0
  [b429d917] + DensityInterface v0.4.0
  [ffbed154] + DocStringExtensions v0.9.5
  [1a297f60] + FillArrays v1.13.0
⌅ [84ca31d5] + HiddenMarkovModels v0.5.4
  [34004b35] + HypergeometricFunctions v0.3.28
  [3587e190] + InverseFunctions v0.1.17
  [92d709cd] + IrrationalConstants v0.2.4
  [692b3bcd] + JLLWrappers v1.7.1
  [2ab3a3ac] + LogExpFunctions v0.3.29
  [4873b48c] + PeriodicHiddenMarkovModels v0.2.0
  [21216c6a] + Preferences v1.5.0
  [189a3867] + Reexport v1.2.2
  [79098fc4] + Rmath v0.8.0
  [276daf66] + SpecialFunctions v2.5.1
  [82ae8749] + StatsAPI v1.7.1
  [4c63d2b9] + StatsFuns v1.5.0
  [efe28fd5] + OpenSpecFun_jll v0.5.6+0
  [f50d1b31] + Rmath_jll v0.5.1+0
  [56f22d72] + Artifacts v1.11.0
  [2a0f44e3] + Base64 v1.11.0
  [ade2ca70] + Dates v1.11.0
  [b77e0a4c] + InteractiveUtils v1.11.0
  [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0
  [8f399da3] + Libdl v1.11.0
  [37e2e46d] + LinearAlgebra v1.13.0
  [56ddb016] + Logging v1.11.0
  [d6f4376e] + Markdown v1.11.0
  [de0858da] + Printf v1.11.0
  [9a3f8284] + Random v1.11.0
  [ea8e919c] + SHA v0.7.0
  [9e88b42a] + Serialization v1.11.0
  [2f01184e] + SparseArrays v1.13.0
  [f489334b] + StyledStrings v1.11.0
  [fa267f1f] + TOML v1.0.3
  [8dfed614] + Test v1.11.0
  [cf7118a7] + UUIDs v1.11.0
  [4ec0a83e] + Unicode v1.11.0
  [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1
  [4536629a] + OpenBLAS_jll v0.3.29+0
  [05823500] + OpenLibm_jll v0.8.5+0
  [bea87d4a] + SuiteSparse_jll v7.10.1+0
  [8e850b90] + libblastrampoline_jll v5.13.1+0
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m`

Installation completed after 4.61s


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# Precompilation
#

Precompiling PkgEval dependencies...

Precompiling package dependencies...

Precompilation completed after 48.44s


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# Testing
#

     Testing PeriodicHiddenMarkovModels
      Status `/tmp/jl_vJnnc5/Project.toml`
  [31c24e10] Distributions v0.25.120
⌅ [84ca31d5] HiddenMarkovModels v0.5.4
  [4873b48c] PeriodicHiddenMarkovModels v0.2.0
  [860ef19b] StableRNGs v1.0.3
  [9a3f8284] Random v1.11.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_vJnnc5/Manifest.toml`
  [66dad0bd] AliasTables v1.1.3
  [dce04be8] ArgCheck v2.5.0
  [d360d2e6] ChainRulesCore v1.26.0
  [34da2185] Compat v4.18.0
  [9a962f9c] DataAPI v1.16.0
  [864edb3b] DataStructures v0.19.0
  [b429d917] DensityInterface v0.4.0
  [31c24e10] Distributions v0.25.120
  [ffbed154] DocStringExtensions v0.9.5
  [1a297f60] FillArrays v1.13.0
⌅ [84ca31d5] HiddenMarkovModels v0.5.4
  [34004b35] HypergeometricFunctions v0.3.28
  [3587e190] InverseFunctions v0.1.17
  [92d709cd] IrrationalConstants v0.2.4
  [692b3bcd] JLLWrappers v1.7.1
  [2ab3a3ac] LogExpFunctions v0.3.29
  [e1d29d7a] Missings v1.2.0
  [bac558e1] OrderedCollections v1.8.1
  [90014a1f] PDMats v0.11.35
  [4873b48c] PeriodicHiddenMarkovModels v0.2.0
  [21216c6a] Preferences v1.5.0
  [43287f4e] PtrArrays v1.3.0
  [1fd47b50] QuadGK v2.11.2
  [189a3867] Reexport v1.2.2
  [79098fc4] Rmath v0.8.0
  [a2af1166] SortingAlgorithms v1.2.2
  [276daf66] SpecialFunctions v2.5.1
  [860ef19b] StableRNGs v1.0.3
  [10745b16] Statistics v1.11.1
  [82ae8749] StatsAPI v1.7.1
  [2913bbd2] StatsBase v0.34.6
  [4c63d2b9] StatsFuns v1.5.0
  [efe28fd5] OpenSpecFun_jll v0.5.6+0
  [f50d1b31] Rmath_jll v0.5.1+0
  [56f22d72] Artifacts v1.11.0
  [2a0f44e3] Base64 v1.11.0
  [ade2ca70] Dates v1.11.0
  [b77e0a4c] InteractiveUtils v1.11.0
  [ac6e5ff7] JuliaSyntaxHighlighting v1.12.0
  [8f399da3] Libdl v1.11.0
  [37e2e46d] LinearAlgebra v1.13.0
  [56ddb016] Logging v1.11.0
  [d6f4376e] Markdown v1.11.0
  [de0858da] Printf v1.11.0
  [9a3f8284] Random v1.11.0
  [ea8e919c] SHA v0.7.0
  [9e88b42a] Serialization v1.11.0
  [2f01184e] SparseArrays v1.13.0
  [f489334b] StyledStrings v1.11.0
  [4607b0f0] SuiteSparse
  [fa267f1f] TOML v1.0.3
  [8dfed614] Test v1.11.0
  [cf7118a7] UUIDs v1.11.0
  [4ec0a83e] Unicode v1.11.0
  [e66e0078] CompilerSupportLibraries_jll v1.3.0+1
  [4536629a] OpenBLAS_jll v0.3.29+0
  [05823500] OpenLibm_jll v0.8.5+0
  [bea87d4a] SuiteSparse_jll v7.10.1+0
  [8e850b90] libblastrampoline_jll v5.13.1+0
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading.
     Testing Running tests...
Precompiling packages...
   3828.3 ms  ✓ Distributions → DistributionsChainRulesCoreExt
  1 dependency successfully precompiled in 5 seconds. 47 already precompiled.
Precompiling packages...
   4161.5 ms  ✓ Distributions → DistributionsTestExt
   3847.7 ms  ✓ Distributions → DistributionsDensityInterfaceExt
  2 dependencies successfully precompiled in 9 seconds. 52 already precompiled.

Comparing with HiddenMarkovModels.jl in trivial case T = 1 (homogeneous): Error During Test at /home/pkgeval/.julia/packages/PeriodicHiddenMarkovModels/dkyMt/test/runtests.jl:8
  Got exception outside of a @test
  TypeError: in keyword argument seq_ends, expected AbstractVector{Int64}, got a value of type Tuple{Int64}
  Stacktrace:
    [1] kwcall(::@NamedTuple{seq_ends::Tuple{Int64}}, ::typeof(fit!), hmm::PeriodicHMM{Float64, Distribution{Univariate, Continuous}, 1, Vector{Float64}, SubArray{Float64, 2, Array{Float64, 3}, Tuple{Base.Slice{Base.OneTo{Int64}}, Base.Slice{Base.OneTo{Int64}}, Int64}, true}, SubArray{Distribution{Univariate, Continuous}, 1, Matrix{Distribution{Univariate, Continuous}}, Tuple{Base.Slice{Base.OneTo{Int64}}, Int64}, true}}, fb_storage::HiddenMarkovModels.ForwardBackwardStorage{Float64, Matrix{Float64}}, obs_seq::Vector{Float64}, n2t::Vector{Int64})
      @ PeriodicHiddenMarkovModels ~/.julia/packages/PeriodicHiddenMarkovModels/dkyMt/src/fit.jl:1
    [2] baum_welch!(fb_storage::HiddenMarkovModels.ForwardBackwardStorage{Float64, Matrix{Float64}}, logL_evolution::Vector{Float64}, hmm::PeriodicHMM{Float64, Distribution{Univariate, Continuous}, 1, Vector{Float64}, SubArray{Float64, 2, Array{Float64, 3}, Tuple{Base.Slice{Base.OneTo{Int64}}, Base.Slice{Base.OneTo{Int64}}, Int64}, true}, SubArray{Distribution{Univariate, Continuous}, 1, Matrix{Distribution{Univariate, Continuous}}, Tuple{Base.Slice{Base.OneTo{Int64}}, Int64}, true}}, obs_seq::Vector{Float64}, control_seq::Vector{Int64}; seq_ends::Tuple{Int64}, atol::Float64, max_iterations::Int64, loglikelihood_increasing::Bool)
      @ HiddenMarkovModels ~/.julia/packages/HiddenMarkovModels/TAbNC/src/inference/baum_welch.jl:33
    [3] kwcall(::@NamedTuple{seq_ends::Tuple{Int64}, atol::Float64, max_iterations::Int64, loglikelihood_increasing::Bool}, ::typeof(HiddenMarkovModels.baum_welch!), fb_storage::HiddenMarkovModels.ForwardBackwardStorage{Float64, Matrix{Float64}}, logL_evolution::Vector{Float64}, hmm::PeriodicHMM{Float64, Distribution{Univariate, Continuous}, 1, Vector{Float64}, SubArray{Float64, 2, Array{Float64, 3}, Tuple{Base.Slice{Base.OneTo{Int64}}, Base.Slice{Base.OneTo{Int64}}, Int64}, true}, SubArray{Distribution{Univariate, Continuous}, 1, Matrix{Distribution{Univariate, Continuous}}, Tuple{Base.Slice{Base.OneTo{Int64}}, Int64}, true}}, obs_seq::Vector{Float64}, control_seq::Vector{Int64})
      @ HiddenMarkovModels ~/.julia/packages/HiddenMarkovModels/TAbNC/src/inference/baum_welch.jl:19
    [4] baum_welch(hmm_guess::PeriodicHMM{Float64, Distribution{Univariate, Continuous}, 1, Vector{Float64}, SubArray{Float64, 2, Array{Float64, 3}, Tuple{Base.Slice{Base.OneTo{Int64}}, Base.Slice{Base.OneTo{Int64}}, Int64}, true}, SubArray{Distribution{Univariate, Continuous}, 1, Matrix{Distribution{Univariate, Continuous}}, Tuple{Base.Slice{Base.OneTo{Int64}}, Int64}, true}}, obs_seq::Vector{Float64}, control_seq::Vector{Int64}; seq_ends::Tuple{Int64}, atol::Float64, max_iterations::Int64, loglikelihood_increasing::Bool)
      @ HiddenMarkovModels ~/.julia/packages/HiddenMarkovModels/TAbNC/src/inference/baum_welch.jl:67
    [5] baum_welch(hmm_guess::PeriodicHMM{Float64, Distribution{Univariate, Continuous}, 1, Vector{Float64}, SubArray{Float64, 2, Array{Float64, 3}, Tuple{Base.Slice{Base.OneTo{Int64}}, Base.Slice{Base.OneTo{Int64}}, Int64}, true}, SubArray{Distribution{Univariate, Continuous}, 1, Matrix{Distribution{Univariate, Continuous}}, Tuple{Base.Slice{Base.OneTo{Int64}}, Int64}, true}}, obs_seq::Vector{Float64}, control_seq::Vector{Int64})
      @ HiddenMarkovModels ~/.julia/packages/HiddenMarkovModels/TAbNC/src/inference/baum_welch.jl:54
    [6] top-level scope
      @ ~/.julia/packages/PeriodicHiddenMarkovModels/dkyMt/test/runtests.jl:9
    [7] macro expansion
      @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1929 [inlined]
    [8] macro expansion
      @ ~/.julia/packages/PeriodicHiddenMarkovModels/dkyMt/test/runtests.jl:55 [inlined]
    [9] include(mapexpr::Function, mod::Module, _path::String)
      @ Base ./Base.jl:309
   [10] top-level scope
      @ none:6
   [11] eval(m::Module, e::Any)
      @ Core ./boot.jl:489
   [12] exec_options(opts::Base.JLOptions)
      @ Base ./client.jl:296
   [13] _start()
      @ Base ./client.jl:563
Test Summary:                                                            | Error  Total   Time
Comparing with HiddenMarkovModels.jl in trivial case T = 1 (homogeneous) |     1      1  16.4s
RNG of the outermost testset: Xoshiro(0xe8113fb645894270, 0xba4b3640f1408a9f, 0x3c3f293b25216967, 0xe2c3ef3d7152043a, 0x778a3b4eec300ee6)
ERROR: LoadError: Some tests did not pass: 0 passed, 0 failed, 1 errored, 0 broken.
in expression starting at /home/pkgeval/.julia/packages/PeriodicHiddenMarkovModels/dkyMt/test/runtests.jl:8

Testing failed after 48.23s

ERROR: LoadError: Package PeriodicHiddenMarkovModels errored during testing
Stacktrace:
  [1] pkgerror(msg::String)
    @ Pkg.Types /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Types.jl:68
  [2] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool)
    @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2672
  [3] test
    @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2521 [inlined]
  [4] test(ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:538
  [5] kwcall(::@NamedTuple{julia_args::Cmd, io::IOContext{IO}}, ::typeof(Pkg.API.test), ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:515
  [6] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:168
  [7] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:157
  [8] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156
  [9] test
    @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156 [inlined]
 [10] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String)
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:155
 [11] top-level scope
    @ /PkgEval.jl/scripts/evaluate.jl:219
 [12] include(mod::Module, _path::String)
    @ Base ./Base.jl:308
 [13] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:330
 [14] _start()
    @ Base ./client.jl:563
in expression starting at /PkgEval.jl/scripts/evaluate.jl:210

PkgEval failed after 145.9s: package tests unexpectedly errored