Package evaluation to load MIToS on Julia 1.14.0-DEV.29 (7d6ae45e5a*) started at 2025-11-05T09:22:33.773


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


Set-up completed after 0.13s


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

Installing MIToS...
   Resolving package versions...
   Installed LightXML ───────────── v0.9.3
   Installed AliasTables ────────── v1.1.3
   Installed DelimitedFiles ─────── v1.9.1
   Installed CodecZlib ──────────── v0.7.8
   Installed DataStructures ─────── v0.19.3
   Installed StatsBase ──────────── v0.34.7
   Installed TranscodingStreams ─── v0.11.3
   Installed BioStructures ──────── v4.7.0
   Installed OrderedCollections ─── v1.8.1
   Installed InvertedIndices ────── v1.3.1
   Installed DataAPI ────────────── v1.16.0
   Installed Statistics ─────────── v1.11.1
   Installed Combinatorics ──────── v1.0.3
   Installed RecipesBase ────────── v1.3.4
   Installed PrecompileTools ────── v1.3.3
   Installed StatsAPI ───────────── v1.7.1
   Installed IrrationalConstants ── v0.2.6
   Installed StaticArraysCore ───── v1.4.4
   Installed Requires ───────────── v1.3.1
   Installed JSON3 ──────────────── v1.14.3
   Installed AutoHashEquals ─────── v2.2.0
   Installed LogExpFunctions ────── v0.3.29
   Installed StaticArrays ───────── v1.9.15
   Installed Parsers ────────────── v2.8.3
   Installed BioSymbols ─────────── v5.2.0
   Installed BioGenerics ────────── v0.1.5
   Installed PtrArrays ──────────── v1.3.0
   Installed XML2_jll ───────────── v2.15.1+0
   Installed Missings ───────────── v1.2.0
   Installed JLLWrappers ────────── v1.7.1
   Installed Preferences ────────── v1.5.0
   Installed Libiconv_jll ───────── v1.18.0+0
   Installed StructTypes ────────── v1.11.0
   Installed GZip ───────────────── v0.6.2
   Installed SortingAlgorithms ──── v1.2.2
   Installed Format ─────────────── v1.3.7
   Installed NamedArrays ────────── v0.10.5
   Installed PairwiseListMatrices ─ v0.11.1
   Installed DocStringExtensions ── v0.9.5
   Installed FastaIO ────────────── v1.1.0
   Installed MIToS ──────────────── v3.2.2
  Installing 2 artifacts
   Installed artifact Libiconv 1.9 MiB
   Installed artifact XML2     2.2 MiB
    Updating `~/.julia/environments/v1.14/Project.toml`
  [51bafb47] + MIToS v3.2.2
    Updating `~/.julia/environments/v1.14/Manifest.toml`
  [66dad0bd] + AliasTables v1.1.3
  [15f4f7f2] + AutoHashEquals v2.2.0
  [47718e42] + BioGenerics v0.1.5
  [de9282ab] + BioStructures v4.7.0
  [3c28c6f8] + BioSymbols v5.2.0
  [944b1d66] + CodecZlib v0.7.8
  [861a8166] + Combinatorics v1.0.3
  [9a962f9c] + DataAPI v1.16.0
  [864edb3b] + DataStructures v0.19.3
  [8bb1440f] + DelimitedFiles v1.9.1
  [ffbed154] + DocStringExtensions v0.9.5
  [a0c94c4b] + FastaIO v1.1.0
  [1fa38f19] + Format v1.3.7
  [92fee26a] + GZip v0.6.2
  [41ab1584] + InvertedIndices v1.3.1
  [92d709cd] + IrrationalConstants v0.2.6
  [692b3bcd] + JLLWrappers v1.7.1
  [0f8b85d8] + JSON3 v1.14.3
  [9c8b4983] + LightXML v0.9.3
  [2ab3a3ac] + LogExpFunctions v0.3.29
  [51bafb47] + MIToS v3.2.2
  [e1d29d7a] + Missings v1.2.0
  [86f7a689] + NamedArrays v0.10.5
  [bac558e1] + OrderedCollections v1.8.1
  [f9da4da7] + PairwiseListMatrices v0.11.1
  [69de0a69] + Parsers v2.8.3
  [aea7be01] + PrecompileTools v1.3.3
  [21216c6a] + Preferences v1.5.0
  [43287f4e] + PtrArrays v1.3.0
  [3cdcf5f2] + RecipesBase v1.3.4
  [ae029012] + Requires v1.3.1
  [a2af1166] + SortingAlgorithms v1.2.2
  [90137ffa] + StaticArrays v1.9.15
  [1e83bf80] + StaticArraysCore v1.4.4
  [10745b16] + Statistics v1.11.1
  [82ae8749] + StatsAPI v1.7.1
  [2913bbd2] + StatsBase v0.34.7
  [856f2bd8] + StructTypes v1.11.0
  [3bb67fe8] + TranscodingStreams v0.11.3
  [94ce4f54] + Libiconv_jll v1.18.0+0
  [02c8fc9c] + XML2_jll v2.15.1+0
  [0dad84c5] + ArgTools v1.1.2
  [56f22d72] + Artifacts v1.11.0
  [2a0f44e3] + Base64 v1.11.0
  [ade2ca70] + Dates v1.11.0
  [f43a241f] + Downloads v1.7.0
  [7b1f6079] + FileWatching v1.11.0
  [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0
  [b27032c2] + LibCURL v1.0.0
  [8f399da3] + Libdl v1.11.0
  [37e2e46d] + LinearAlgebra v1.13.0
  [56ddb016] + Logging v1.11.0
  [d6f4376e] + Markdown v1.11.0
  [a63ad114] + Mmap v1.11.0
  [ca575930] + NetworkOptions v1.3.0
  [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 v1.11.0
  [fa267f1f] + TOML v1.0.3
  [cf7118a7] + UUIDs v1.11.0
  [4ec0a83e] + Unicode v1.11.0
  [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1
  [deac9b47] + LibCURL_jll v8.16.0+0
  [29816b5a] + LibSSH2_jll v1.11.3+1
  [14a3606d] + MozillaCACerts_jll v2025.9.9
  [4536629a] + OpenBLAS_jll v0.3.29+0
  [458c3c95] + OpenSSL_jll v3.5.4+0
  [bea87d4a] + SuiteSparse_jll v7.10.1+0
  [83775a58] + Zlib_jll v1.3.1+2
  [3161d3a3] + Zstd_jll v1.5.7+1
  [8e850b90] + libblastrampoline_jll v5.15.0+0
  [8e850ede] + nghttp2_jll v1.67.1+0

Installation completed after 11.47s


################################################################################
# Precompilation
#

Precompiling PkgEval dependencies...
     Project No packages added to or removed from `~/.julia/environments/pkgeval/Project.toml`
    Manifest No packages added to or removed from `~/.julia/environments/pkgeval/Manifest.toml`

Precompiling package dependencies...
Precompiling packages...
   1102.0 ms  ✓ Statistics
    889.6 ms  ✓ DataAPI
   2088.9 ms  ✓ IrrationalConstants
    962.5 ms  ✓ StaticArraysCore
    803.9 ms  ✓ StatsAPI
   1165.2 ms  ✓ Requires
   1245.5 ms  ✓ OrderedCollections
   2354.2 ms  ✓ Format
    762.5 ms  ✓ InvertedIndices
    935.8 ms  ✓ DocStringExtensions
   1875.8 ms  ✓ Combinatorics
    889.5 ms  ✓ AutoHashEquals
    784.5 ms  ✓ PtrArrays
   1243.1 ms  ✓ TranscodingStreams
   1118.9 ms  ✓ GZip
    974.6 ms  ✓ DelimitedFiles
   1571.7 ms  ✓ StructTypes
   1104.4 ms  ✓ Preferences
   1305.0 ms  ✓ Statistics → SparseArraysExt
    912.8 ms  ✓ Missings
   4215.2 ms  ✓ DataStructures
   1519.5 ms  ✓ LogExpFunctions
   1099.4 ms  ✓ AliasTables
   1169.9 ms  ✓ BioGenerics
    927.5 ms  ✓ CodecZlib
    988.5 ms  ✓ FastaIO
   1723.8 ms  ✓ JLLWrappers
    932.7 ms  ✓ PrecompileTools
   2109.3 ms  ✓ NamedArrays
   1099.0 ms  ✓ SortingAlgorithms
   1360.3 ms  ✓ Libiconv_jll
   2925.2 ms  ✓ RecipesBase
   2773.9 ms  ✓ BioSymbols
  12635.7 ms  ✓ StaticArrays
  16464.4 ms  ✓ Parsers
   4750.2 ms  ✓ StatsBase
   1350.4 ms  ✓ XML2_jll
   2414.9 ms  ✓ PairwiseListMatrices
  13701.7 ms  ✓ BioStructures
   1420.4 ms  ✓ StaticArrays → StaticArraysStatisticsExt
  13939.7 ms  ✓ JSON3
   1051.9 ms  ✓ LightXML
ERROR: LoadError: Inconsistent dictionary sizes
Stacktrace:
  [1] error(s::String)
    @ Base ./error.jl:44
  [2] NamedArray
    @ ~/.julia/packages/NamedArrays/f1tMK/src/namedarraytypes.jl:71 [inlined]
  [3] NamedArray
    @ ~/.julia/packages/NamedArrays/f1tMK/src/constructors.jl:43 [inlined]
  [4] macro expansion
    @ ~/.julia/packages/MIToS/U8ph9/src/Information/ContingencyTables.jl:249 [inlined]
  [5] MIToS.Information.ContingencyTable{Float64, 2, MIToS.MSA.UngappedAlphabet}(alphabet::MIToS.MSA.UngappedAlphabet)
    @ MIToS.Information ~/.julia/packages/MIToS/U8ph9/src/Information/ContingencyTables.jl:235
  [6] ContingencyTable
    @ ~/.julia/packages/MIToS/U8ph9/src/Information/ContingencyTables.jl:260 [inlined]
  [7] MIToS.Information.ContingencyTable(matrix::Matrix{Float64}, alphabet::MIToS.MSA.UngappedAlphabet)
    @ MIToS.Information ~/.julia/packages/MIToS/U8ph9/src/Information/ContingencyTables.jl:266
  [8] top-level scope
    @ ~/.julia/packages/MIToS/U8ph9/src/Information/BLOSUM62.jl:35
  [9] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:310
 [10] top-level scope
    @ ~/.julia/packages/MIToS/U8ph9/src/Information/Information.jl:113
 [11] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:310
 [12] top-level scope
    @ ~/.julia/packages/MIToS/U8ph9/src/MIToS.jl:7
 [13] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [14] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)
    @ Base ./loading.jl:3148
 [15] top-level scope
    @ stdin:5
 [16] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [17] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:2994
 [18] include_string
    @ ./loading.jl:3004 [inlined]
 [19] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:342
 [20] _start()
    @ Base ./client.jl:577
in expression starting at /home/pkgeval/.julia/packages/MIToS/U8ph9/src/Information/BLOSUM62.jl:35
in expression starting at /home/pkgeval/.julia/packages/MIToS/U8ph9/src/Information/Information.jl:1
in expression starting at /home/pkgeval/.julia/packages/MIToS/U8ph9/src/MIToS.jl:1
in expression starting at stdin:5

Precompilation completed after 129.98s


################################################################################
# Loading
#

Loading MIToS...
ERROR: LoadError: Inconsistent dictionary sizes
Stacktrace:
  [1] error(s::String)
    @ Base ./error.jl:44
  [2] NamedArray
    @ ~/.julia/packages/NamedArrays/f1tMK/src/namedarraytypes.jl:71 [inlined]
  [3] NamedArray
    @ ~/.julia/packages/NamedArrays/f1tMK/src/constructors.jl:43 [inlined]
  [4] macro expansion
    @ ~/.julia/packages/MIToS/U8ph9/src/Information/ContingencyTables.jl:249 [inlined]
  [5] MIToS.Information.ContingencyTable{Float64, 2, MIToS.MSA.UngappedAlphabet}(alphabet::MIToS.MSA.UngappedAlphabet)
    @ MIToS.Information ~/.julia/packages/MIToS/U8ph9/src/Information/ContingencyTables.jl:235
  [6] ContingencyTable
    @ ~/.julia/packages/MIToS/U8ph9/src/Information/ContingencyTables.jl:260 [inlined]
  [7] MIToS.Information.ContingencyTable(matrix::Matrix{Float64}, alphabet::MIToS.MSA.UngappedAlphabet)
    @ MIToS.Information ~/.julia/packages/MIToS/U8ph9/src/Information/ContingencyTables.jl:266
  [8] top-level scope
    @ ~/.julia/packages/MIToS/U8ph9/src/Information/BLOSUM62.jl:35
  [9] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:310
 [10] top-level scope
    @ ~/.julia/packages/MIToS/U8ph9/src/Information/Information.jl:113
 [11] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:310
 [12] top-level scope
    @ ~/.julia/packages/MIToS/U8ph9/src/MIToS.jl:7
 [13] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [14] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)
    @ Base ./loading.jl:3148
 [15] top-level scope
    @ stdin:5
 [16] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [17] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:2994
 [18] include_string
    @ ./loading.jl:3004 [inlined]
 [19] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:342
 [20] _start()
    @ Base ./client.jl:577
in expression starting at /home/pkgeval/.julia/packages/MIToS/U8ph9/src/Information/BLOSUM62.jl:35
in expression starting at /home/pkgeval/.julia/packages/MIToS/U8ph9/src/Information/Information.jl:1
in expression starting at /home/pkgeval/.julia/packages/MIToS/U8ph9/src/MIToS.jl:1
in expression starting at stdin:5

  1 dependency had output during precompilation:
┌ MIToS
│  [Output was shown above]
└  
ERROR: The following 1 package failed to precompile:

MIToS 
Failed to precompile MIToS [51bafb47-8a16-5ded-8b04-24ef4eede0b5] to "/home/pkgeval/.julia/compiled/v1.14/MIToS/jl_kw0Rzt" (ProcessExited(1)).


Loading failed after 12.71s

ERROR: LoadError: failed process: Process(`/opt/julia/bin/julia -C native -J/opt/julia/lib/julia/sys.so -g1 --check-bounds=yes --inline=yes --pkgimages=existing -e 'using MIToS'`, ProcessExited(1)) [1]

Stacktrace:
 [1] pipeline_error
   @ ./process.jl:611 [inlined]
 [2] run(::Cmd; wait::Bool)
   @ Base ./process.jl:526
 [3] run(::Cmd)
   @ Base ./process.jl:523
 [4] top-level scope
   @ /PkgEval.jl/scripts/evaluate.jl:193
 [5] include(mod::Module, _path::String)
   @ Base ./Base.jl:309
 [6] exec_options(opts::Base.JLOptions)
   @ Base ./client.jl:344
 [7] _start()
   @ Base ./client.jl:577
in expression starting at /PkgEval.jl/scripts/evaluate.jl:184

PkgEval failed after 179.44s: package fails to precompile