Package evaluation to test PeriodicHiddenMarkovModels on Julia 1.14.0-DEV.2028 (45a2de3f7a*) started at 2026-04-12T17:45:16.064


################################################################################
# Set-up
#

Installing PkgEval dependencies (TestEnv)...
  Activating project at `~/.julia/environments/v1.14`

Set-up completed after 15.58s


################################################################################
# Installation
#

Installing PeriodicHiddenMarkovModels...
   Resolving package versions...
   Installed Rmath_jll ────────────────── v0.5.1+0
   Installed StatsAPI ─────────────────── v1.8.0
   Installed FillArrays ───────────────── v1.16.0
   Installed OpenSpecFun_jll ──────────── v0.5.6+0
   Installed Compat ───────────────────── v4.18.1
   Installed IrrationalConstants ──────── v0.2.6
   Installed HypergeometricFunctions ──── v0.3.28
   Installed LogExpFunctions ──────────── v0.3.29
   Installed ArgCheck ─────────────────── v2.5.0
   Installed PeriodicHiddenMarkovModels ─ v0.2.0
   Installed ChainRulesCore ───────────── v1.26.1
   Installed Rmath ────────────────────── v0.9.0
   Installed Reexport ─────────────────── v1.2.2
   Installed StatsFuns ────────────────── v1.5.2
   Installed InverseFunctions ─────────── v0.1.17
   Installed JLLWrappers ──────────────── v1.7.1
   Installed SpecialFunctions ─────────── v2.7.2
   Installed DensityInterface ─────────── v0.4.0
   Installed Preferences ──────────────── v1.5.2
   Installed HiddenMarkovModels ───────── v0.5.4
   Installed DocStringExtensions ──────── v0.9.5
  Installing 2 artifacts
   Installed artifact Rmath       121.9 KiB
   Installed artifact OpenSpecFun 194.9 KiB
    Updating `~/.julia/environments/v1.14/Project.toml`
  [4873b48c] + PeriodicHiddenMarkovModels v0.2.0
    Updating `~/.julia/environments/v1.14/Manifest.toml`
  [dce04be8] + ArgCheck v2.5.0
  [d360d2e6] + ChainRulesCore v1.26.1
  [34da2185] + Compat v4.18.1
  [b429d917] + DensityInterface v0.4.0
  [ffbed154] + DocStringExtensions v0.9.5
  [1a297f60] + FillArrays v1.16.0
⌅ [84ca31d5] + HiddenMarkovModels v0.5.4
  [34004b35] + HypergeometricFunctions v0.3.28
  [3587e190] + InverseFunctions v0.1.17
  [92d709cd] + IrrationalConstants v0.2.6
  [692b3bcd] + JLLWrappers v1.7.1
  [2ab3a3ac] + LogExpFunctions v0.3.29
  [4873b48c] + PeriodicHiddenMarkovModels v0.2.0
  [21216c6a] + Preferences v1.5.2
  [189a3867] + Reexport v1.2.2
  [79098fc4] + Rmath v0.9.0
  [276daf66] + SpecialFunctions v2.7.2
  [82ae8749] + StatsAPI v1.8.0
  [4c63d2b9] + StatsFuns v1.5.2
  [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 v1.13.0
  [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 v1.0.0
  [9e88b42a] + Serialization v1.11.0
  [2f01184e] + SparseArrays v1.13.0
  [f489334b] + StyledStrings v1.13.0
  [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 v0.3.30+0
  [05823500] + OpenLibm_jll v0.8.7+0
  [bea87d4a] + SuiteSparse_jll v7.10.1+0
  [8e850b90] + libblastrampoline_jll v5.15.0+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 8.18s


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# Precompilation
#

Precompiling PkgEval dependencies...
Precompiling project...
   4844.1 ms  ✓ TestEnv
  1 dependency successfully precompiled in 5 seconds. 27 already precompiled.

Precompiling package dependencies...
Precompiling project...
    957.7 ms  ✓ Reexport
   1137.6 ms  ✓ Statistics
    876.8 ms  ✓ DataAPI
   2034.4 ms  ✓ IrrationalConstants
    888.1 ms  ✓ StatsAPI
   1383.0 ms  ✓ OrderedCollections
   1021.7 ms  ✓ StableRNGs
    976.0 ms  ✓ InverseFunctions
   1148.0 ms  ✓ DocStringExtensions
    905.5 ms  ✓ ArgCheck
   2272.9 ms  ✓ FillArrays
    857.2 ms  ✓ PtrArrays
   2015.8 ms  ✓ PDMats
   1229.1 ms  ✓ Compat
   1557.1 ms  ✓ Preferences
   1698.6 ms  ✓ Statistics → SparseArraysExt
   1020.1 ms  ✓ Missings
   3875.3 ms  ✓ DataStructures
   1702.0 ms  ✓ InverseFunctions → InverseFunctionsTestExt
   1250.2 ms  ✓ InverseFunctions → InverseFunctionsDatesExt
   1420.9 ms  ✓ LogExpFunctions
   1757.6 ms  ✓ FillArrays → FillArraysSparseArraysExt
   1098.7 ms  ✓ FillArrays → FillArraysStatisticsExt
   1006.4 ms  ✓ AliasTables
   1625.3 ms  ✓ FillArrays → FillArraysPDMatsExt
    879.8 ms  ✓ Compat → CompatLinearAlgebraExt
   1579.2 ms  ✓ JLLWrappers
   1234.0 ms  ✓ SortingAlgorithms
   2520.9 ms  ✓ QuadGK
   1778.7 ms  ✓ DensityInterface
    858.9 ms  ✓ LogExpFunctions → LogExpFunctionsInverseFunctionsExt
   2761.5 ms  ✓ ChainRulesCore
   2275.3 ms  ✓ Rmath_jll
   2310.1 ms  ✓ OpenSpecFun_jll
   5463.7 ms  ✓ StatsBase
   1497.2 ms  ✓ ChainRulesCore → ChainRulesCoreSparseArraysExt
   3474.2 ms  ✓ LogExpFunctions → LogExpFunctionsChainRulesCoreExt
   1952.3 ms  ✓ Rmath
   5609.0 ms  ✓ SpecialFunctions
   1615.7 ms  ✓ PDMats → StatsBaseExt
   4520.0 ms  ✓ SpecialFunctions → SpecialFunctionsChainRulesCoreExt
   2660.1 ms  ✓ HypergeometricFunctions
   3493.0 ms  ✓ StatsFuns
   1420.7 ms  ✓ StatsFuns → StatsFunsInverseFunctionsExt
   4440.4 ms  ✓ StatsFuns → StatsFunsChainRulesCoreExt
  10250.6 ms  ✓ Distributions
   4688.4 ms  ✓ HiddenMarkovModels
   3738.7 ms  ✓ Distributions → DistributionsChainRulesCoreExt
   4108.8 ms  ✓ Distributions → DistributionsTestExt
   3529.6 ms  ✓ Distributions → DistributionsDensityInterfaceExt
   3762.5 ms  ✓ HiddenMarkovModels → HiddenMarkovModelsDistributionsExt
   4021.2 ms  ✓ PeriodicHiddenMarkovModels
  52 dependencies successfully precompiled in 122 seconds. 17 already precompiled.

Precompilation completed after 153.28s


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# Testing
#

     Testing PeriodicHiddenMarkovModels
      Status `/tmp/jl_wYyEBF/Project.toml`
  [31c24e10] Distributions v0.25.123
⌅ [84ca31d5] HiddenMarkovModels v0.5.4
  [4873b48c] PeriodicHiddenMarkovModels v0.2.0
  [860ef19b] StableRNGs v1.0.4
  [9a3f8284] Random v1.11.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_wYyEBF/Manifest.toml`
  [66dad0bd] AliasTables v1.1.3
  [dce04be8] ArgCheck v2.5.0
  [d360d2e6] ChainRulesCore v1.26.1
  [34da2185] Compat v4.18.1
  [9a962f9c] DataAPI v1.16.0
  [864edb3b] DataStructures v0.19.4
  [b429d917] DensityInterface v0.4.0
  [31c24e10] Distributions v0.25.123
  [ffbed154] DocStringExtensions v0.9.5
  [1a297f60] FillArrays v1.16.0
⌅ [84ca31d5] HiddenMarkovModels v0.5.4
  [34004b35] HypergeometricFunctions v0.3.28
  [3587e190] InverseFunctions v0.1.17
  [92d709cd] IrrationalConstants v0.2.6
  [692b3bcd] JLLWrappers v1.7.1
  [2ab3a3ac] LogExpFunctions v0.3.29
  [e1d29d7a] Missings v1.2.0
  [bac558e1] OrderedCollections v1.8.1
  [90014a1f] PDMats v0.11.37
  [4873b48c] PeriodicHiddenMarkovModels v0.2.0
  [21216c6a] Preferences v1.5.2
  [43287f4e] PtrArrays v1.4.0
  [1fd47b50] QuadGK v2.11.3
  [189a3867] Reexport v1.2.2
  [79098fc4] Rmath v0.9.0
  [a2af1166] SortingAlgorithms v1.2.2
  [276daf66] SpecialFunctions v2.7.2
  [860ef19b] StableRNGs v1.0.4
  [10745b16] Statistics v1.11.1
  [82ae8749] StatsAPI v1.8.0
  [2913bbd2] StatsBase v0.34.10
  [4c63d2b9] StatsFuns v1.5.2
  [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 v1.13.0
  [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 v1.0.0
  [9e88b42a] Serialization v1.11.0
  [2f01184e] SparseArrays v1.13.0
  [f489334b] StyledStrings v1.13.0
  [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 v0.3.30+0
  [05823500] OpenLibm_jll v0.8.7+0
  [bea87d4a] SuiteSparse_jll v7.10.1+0
  [8e850b90] libblastrampoline_jll v5.15.0+0
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading.
     Testing Running tests...

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/v1.14/Test/src/Test.jl:2246 [inlined]
    [8] macro expansion
      @ ~/.julia/packages/PeriodicHiddenMarkovModels/dkyMt/test/runtests.jl:55 [inlined]
    [9] include(mapexpr::Function, mod::Module, _path::String)
      @ Base ./Base.jl:324
   [10] top-level scope
      @ none:6
   [11] eval(m::Module, e::Any)
      @ Core ./boot.jl:517
   [12] exec_options(opts::Base.JLOptions)
      @ Base ./client.jl:318
   [13] _start()
      @ Base ./client.jl:593
Test Summary:                                                            | Error  Total   Time
Comparing with HiddenMarkovModels.jl in trivial case T = 1 (homogeneous) |     1      1  16.7s
RNG of the outermost testset: Xoshiro(0xc1261c7b2f84b602, 0xfa8d166bae1a52b6, 0x5ea4dc4f64f0dcb8, 0x1814b24c7aa60b9a, 0x32968d628d124ef2)
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 36.72s

ERROR: LoadError: Package PeriodicHiddenMarkovModels 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:3160
  [3] test
    @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:3025 [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:586
  [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:562
  [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:223
 [12] include(mod::Module, _path::String)
    @ Base ./Base.jl:323
 [13] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:352
 [14] _start()
    @ Base ./client.jl:593
in expression starting at /PkgEval.jl/scripts/evaluate.jl:214

PkgEval failed after 234.08s: package tests unexpectedly errored