Package evaluation to test BED on Julia 1.14.0-DEV.14 (ec5cf08762*) started at 2025-11-02T14:55:55.576


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

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 11.06s


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

Installing BED...
   Resolving package versions...
   Installed SIMD ─────────────── v3.7.2
   Installed FixedPointNumbers ── v0.8.5
   Installed Compat ───────────── v4.18.1
   Installed Statistics ───────── v1.11.1
   Installed Preferences ──────── v1.5.0
   Installed DataStructures ───── v0.18.22
   Installed PrecompileTools ──── v1.3.3
   Installed Indexes ──────────── v0.1.3
   Installed BGZFStreams ──────── v0.3.2
   Installed Automa ───────────── v1.1.0
   Installed BioGenerics ──────── v0.1.5
   Installed CodecZlib ────────── v0.7.8
   Installed TranscodingStreams ─ v0.9.13
   Installed OrderedCollections ─ v1.8.1
   Installed ColorTypes ───────── v0.11.5
   Installed IntervalTrees ────── v1.1.0
   Installed GenomicFeatures ──── v2.1.0
   Installed BED ──────────────── v0.3.1
    Updating `~/.julia/environments/v1.14/Project.toml`
  [8e4a8c10] + BED v0.3.1
    Updating `~/.julia/environments/v1.14/Manifest.toml`
  [67c07d97] + Automa v1.1.0
  [8e4a8c10] + BED v0.3.1
  [28d598bf] + BGZFStreams v0.3.2
  [47718e42] + BioGenerics v0.1.5
  [944b1d66] + CodecZlib v0.7.8
⌅ [3da002f7] + ColorTypes v0.11.5
  [34da2185] + Compat v4.18.1
⌅ [864edb3b] + DataStructures v0.18.22
  [53c48c17] + FixedPointNumbers v0.8.5
⌅ [899a7d2d] + GenomicFeatures v2.1.0
⌅ [4ffb77ac] + Indexes v0.1.3
  [524e6230] + IntervalTrees v1.1.0
  [bac558e1] + OrderedCollections v1.8.1
  [aea7be01] + PrecompileTools v1.3.3
  [21216c6a] + Preferences v1.5.0
  [fdea26ae] + SIMD v3.7.2
  [10745b16] + Statistics v1.11.1
⌅ [3bb67fe8] + TranscodingStreams v0.9.13
  [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 v1.0.0
  [9e88b42a] + Serialization v1.11.0
  [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
  [83775a58] + Zlib_jll v1.3.1+2
  [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 4.53s


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

Precompiling PkgEval dependencies...
Precompiling packages...
   4736.4 ms  ✓ TestEnv
  1 dependency successfully precompiled in 5 seconds. 27 already precompiled.
  1 dependency had output during precompilation:
┌ TestEnv
│  WARNING: Imported binding Operations.project_rel_path was undeclared at import time during import to TestEnv.
└  

┌ Error: Failed to use TestEnv.jl; test dependencies will not be precompiled
│   exception =
│    UndefVarError: `project_rel_path` not defined in `TestEnv`
│    Suggestion: this global was defined as `Pkg.Operations.project_rel_path` but not assigned a value.
│    Stacktrace:
│     [1] get_test_dir(ctx::Pkg.Types.Context, pkgspec::PackageSpec)
│       @ TestEnv ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/common.jl:75
│     [2] test_dir_has_project_file
│       @ ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/common.jl:52 [inlined]
│     [3] maybe_gen_project_override!
│       @ ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/common.jl:83 [inlined]
│     [4] activate(pkg::String; allow_reresolve::Bool)
│       @ TestEnv ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/activate_set.jl:12
│     [5] activate(pkg::String)
│       @ TestEnv ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/activate_set.jl:9
│     [6] top-level scope
│       @ /PkgEval.jl/scripts/precompile.jl:24
│     [7] include(mod::Module, _path::String)
│       @ Base ./Base.jl:309
│     [8] exec_options(opts::Base.JLOptions)
│       @ Base ./client.jl:344
│     [9] _start()
│       @ Base ./client.jl:577
└ @ Main /PkgEval.jl/scripts/precompile.jl:26
Precompiling package dependencies...
Precompiling packages...
   1208.8 ms  ✓ IntervalTrees
   1117.6 ms  ✓ Statistics
   1279.6 ms  ✓ OrderedCollections
   1167.0 ms  ✓ Preferences
   1158.0 ms  ✓ Compat
   2347.7 ms  ✓ TranscodingStreams
   3908.2 ms  ✓ FixedPointNumbers
    908.8 ms  ✓ PrecompileTools
   1025.3 ms  ✓ Compat → CompatLinearAlgebraExt
   1591.7 ms  ✓ BioGenerics
   1657.8 ms  ✓ CodecZlib
   4602.8 ms  ✓ ColorTypes


Precompilation completed after 56.9s


################################################################################
# Testing
#

     Testing BED
      Status `/tmp/jl_2ApzrY/Project.toml`
  [67c07d97] Automa v1.1.0
  [8e4a8c10] BED v0.3.1
  [28d598bf] BGZFStreams v0.3.2
  [47718e42] BioGenerics v0.1.5
⌅ [3da002f7] ColorTypes v0.11.5
  [31c24e10] Distributions v0.25.122
  [e30172f5] Documenter v1.15.0
  [53c48c17] FixedPointNumbers v0.8.5
  [3372ea36] FormatSpecimens v1.3.1
⌅ [899a7d2d] GenomicFeatures v2.1.0
⌅ [4ffb77ac] Indexes v0.1.3
⌅ [3bb67fe8] TranscodingStreams v0.9.13
  [9a3f8284] Random v1.11.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_2ApzrY/Manifest.toml`
  [a4c015fc] ANSIColoredPrinters v0.0.1
  [1520ce14] AbstractTrees v0.4.5
  [66dad0bd] AliasTables v1.1.3
  [67c07d97] Automa v1.1.0
  [8e4a8c10] BED v0.3.1
  [28d598bf] BGZFStreams v0.3.2
  [47718e42] BioGenerics v0.1.5
  [944b1d66] CodecZlib v0.7.8
⌅ [3da002f7] ColorTypes v0.11.5
  [34da2185] Compat v4.18.1
  [9a962f9c] DataAPI v1.16.0
⌅ [864edb3b] DataStructures v0.18.22
  [31c24e10] Distributions v0.25.122
  [ffbed154] DocStringExtensions v0.9.5
  [e30172f5] Documenter v1.15.0
  [1a297f60] FillArrays v1.14.0
  [53c48c17] FixedPointNumbers v0.8.5
  [3372ea36] FormatSpecimens v1.3.1
⌅ [899a7d2d] GenomicFeatures v2.1.0
  [d7ba0133] Git v1.5.0
  [34004b35] HypergeometricFunctions v0.3.28
⌅ [b5f81e59] IOCapture v0.2.5
⌅ [4ffb77ac] Indexes v0.1.3
  [524e6230] IntervalTrees v1.1.0
  [92d709cd] IrrationalConstants v0.2.6
  [692b3bcd] JLLWrappers v1.7.1
  [682c06a0] JSON v1.2.0
  [0e77f7df] LazilyInitializedFields v1.3.0
  [2ab3a3ac] LogExpFunctions v0.3.29
  [d0879d2d] MarkdownAST v0.1.2
  [e1d29d7a] Missings v1.2.0
  [bac558e1] OrderedCollections v1.8.1
  [90014a1f] PDMats v0.11.36
  [69de0a69] Parsers v2.8.3
  [aea7be01] PrecompileTools v1.3.3
  [21216c6a] Preferences v1.5.0
  [43287f4e] PtrArrays v1.3.0
  [1fd47b50] QuadGK v2.11.2
  [189a3867] Reexport v1.2.2
  [2792f1a3] RegistryInstances v0.1.0
  [79098fc4] Rmath v0.9.0
  [fdea26ae] SIMD v3.7.2
  [a2af1166] SortingAlgorithms v1.2.2
  [276daf66] SpecialFunctions v2.6.1
  [10745b16] Statistics v1.11.1
  [82ae8749] StatsAPI v1.7.1
  [2913bbd2] StatsBase v0.34.7
  [4c63d2b9] StatsFuns v1.5.2
  [ec057cc2] StructUtils v2.5.1
⌅ [3bb67fe8] TranscodingStreams v0.9.13
  [2e619515] Expat_jll v2.7.3+0
  [020c3dae] Git_LFS_jll v3.7.0+0
  [f8c6e375] Git_jll v2.51.3+0
  [94ce4f54] Libiconv_jll v1.18.0+0
  [9bd350c2] OpenSSH_jll v10.2.1+0
  [efe28fd5] OpenSpecFun_jll v0.5.6+0
  [f50d1b31] Rmath_jll v0.5.1+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
  [b77e0a4c] InteractiveUtils v1.11.0
  [ac6e5ff7] JuliaSyntaxHighlighting v1.12.0
  [b27032c2] LibCURL v1.0.0
  [76f85450] LibGit2 v1.11.0
  [8f399da3] Libdl v1.11.0
  [37e2e46d] LinearAlgebra v1.13.0
  [56ddb016] Logging v1.11.0
  [d6f4376e] Markdown v1.11.0
  [ca575930] NetworkOptions v1.3.0
  [44cfe95a] Pkg v1.13.0
  [de0858da] Printf v1.11.0
  [3fa0cd96] REPL v1.11.0
  [9a3f8284] Random v1.11.0
  [ea8e919c] SHA v1.0.0
  [9e88b42a] Serialization v1.11.0
  [6462fe0b] Sockets v1.11.0
  [2f01184e] SparseArrays v1.13.0
  [f489334b] StyledStrings v1.11.0
  [4607b0f0] SuiteSparse
  [fa267f1f] TOML v1.0.3
  [a4e569a6] Tar v1.10.0
  [8dfed614] Test v1.11.0
  [cf7118a7] UUIDs v1.11.0
  [4ec0a83e] Unicode v1.11.0
  [e66e0078] CompilerSupportLibraries_jll v1.3.0+1
  [deac9b47] LibCURL_jll v8.16.0+0
  [e37daf67] LibGit2_jll v1.9.1+0
  [29816b5a] LibSSH2_jll v1.11.3+1
  [14a3606d] MozillaCACerts_jll v2025.9.9
  [4536629a] OpenBLAS_jll v0.3.29+0
  [05823500] OpenLibm_jll v0.8.7+0
  [458c3c95] OpenSSL_jll v3.5.4+0
  [efcefdf7] PCRE2_jll v10.47.0+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
  [3f19e933] p7zip_jll v17.6.0+0
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading.
     Testing Running tests...
ERROR: LoadError: UndefVarError: `T` not defined in `SIMD`
Suggestion: check for spelling errors or missing imports.
Stacktrace:
  [1] top-level scope
    @ ~/.julia/packages/SIMD/UiGbs/src/arrayops.jl:4
  [2] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:310
  [3] top-level scope
    @ ~/.julia/packages/SIMD/UiGbs/src/SIMD.jl:25
  [4] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
  [5] __require_prelocked(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2817
  [6] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:2576
  [7] macro expansion
    @ ./loading.jl:2504 [inlined]
  [8] macro expansion
    @ ./lock.jl:376 [inlined]
  [9] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2468
 [10] require
    @ ./loading.jl:2444 [inlined]
 [11] eval_import_path
    @ ./module.jl:36 [inlined]
 [12] eval_import_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
 [13] _eval_import(::Bool, ::Module, ::Expr, ::Expr, ::Vararg{Expr})
    @ Base ./module.jl:101
 [14] top-level scope
    @ ~/.julia/packages/Automa/EyNRt/src/Automa.jl:4
 [15] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [16] __require_prelocked(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2817
 [17] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:2576
 [18] macro expansion
    @ ./loading.jl:2504 [inlined]
 [19] macro expansion
    @ ./lock.jl:376 [inlined]
 [20] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2468
 [21] require
    @ ./loading.jl:2444 [inlined]
 [22] eval_import_path
    @ ./module.jl:36 [inlined]
 [23] eval_import_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
 [24] _eval_import(::Bool, ::Module, ::Expr, ::Expr, ::Vararg{Expr})
    @ Base ./module.jl:101
 [25] top-level scope
    @ ~/.julia/packages/BED/CJxEb/src/BED.jl:3
 [26] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [27] __require_prelocked(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2817
 [28] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:2576
 [29] macro expansion
    @ ./loading.jl:2504 [inlined]
 [30] macro expansion
    @ ./lock.jl:376 [inlined]
 [31] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2468
 [32] require
    @ ./loading.jl:2444 [inlined]
 [33] eval_import_path
    @ ./module.jl:36 [inlined]
 [34] eval_import_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
 [35] _eval_using(to::Module, path::Expr)
    @ Base ./module.jl:137
 [36] top-level scope
    @ ~/.julia/packages/BED/CJxEb/test/runtests.jl:2
 [37] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:310
 [38] top-level scope
    @ none:6
 [39] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [40] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:310
 [41] _start()
    @ Base ./client.jl:577
in expression starting at /home/pkgeval/.julia/packages/SIMD/UiGbs/src/arrayops.jl:4
in expression starting at /home/pkgeval/.julia/packages/SIMD/UiGbs/src/SIMD.jl:1
in expression starting at /home/pkgeval/.julia/packages/Automa/EyNRt/src/Automa.jl:1
in expression starting at /home/pkgeval/.julia/packages/BED/CJxEb/src/BED.jl:1
in expression starting at /home/pkgeval/.julia/packages/BED/CJxEb/test/runtests.jl:2

Testing failed after 97.61s

ERROR: LoadError: Package BED 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:2936
  [3] test
    @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2785 [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:572
  [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:548
  [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:219
 [12] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [13] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:344
 [14] _start()
    @ Base ./client.jl:577
in expression starting at /PkgEval.jl/scripts/evaluate.jl:210

PkgEval failed after 187.35s: package tests unexpectedly errored