Package evaluation to load BurrowsWheelerAligner on Julia 1.13.0-DEV.1324 (c1d413cf8a*) started at 2025-10-17T17:41:17.282


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# Set-up
#


Set-up completed after 0.08s


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# Installation
#

Installing BurrowsWheelerAligner...
   Resolving package versions...
    Updating `~/.julia/environments/v1.13/Project.toml`
  [231d3afb] + BurrowsWheelerAligner v0.1.3
    Updating `~/.julia/environments/v1.13/Manifest.toml`
  [67c07d97] + Automa v1.1.0
  [28d598bf] + BGZFStreams v0.3.2
  [00701ae9] + BioAlignments v3.1.0
  [47718e42] + BioGenerics v0.1.5
  [7e6ae17a] + BioSequences v3.5.0
  [3c28c6f8] + BioSymbols v5.2.0
  [231d3afb] + BurrowsWheelerAligner v0.1.3
  [944b1d66] + CodecZlib v0.7.8
  [34da2185] + Compat v4.18.1
⌅ [864edb3b] + DataStructures v0.18.22
  [c2308a5c] + FASTX v2.1.7
⌅ [899a7d2d] + GenomicFeatures v2.1.0
⌅ [4ffb77ac] + Indexes v0.1.3
  [524e6230] + IntervalTrees v1.1.0
  [692b3bcd] + JLLWrappers v1.7.1
  [bac558e1] + OrderedCollections v1.8.1
  [aea7be01] + PrecompileTools v1.3.3
  [21216c6a] + Preferences v1.5.0
  [fdea26ae] + SIMD v3.7.2
  [354b36f9] + StringViews v1.3.5
⌅ [3bb67fe8] + TranscodingStreams v0.9.13
  [7200193e] + Twiddle v1.1.2
  [d759349c] + XAM v0.4.2
  [f8ebc3b1] + BWA_jll v0.7.17+1
  [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 v0.6.4
  [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
  [9a3f8284] + Random v1.11.0
  [ea8e919c] + SHA v0.7.0
  [9e88b42a] + Serialization v1.11.0
  [f489334b] + StyledStrings v1.11.0
  [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
  [458c3c95] + OpenSSL_jll v3.5.4+0
  [efcefdf7] + PCRE2_jll v10.46.0+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. To see why use `status --outdated -m`

Installation completed after 5.36s


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# 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...
   1059.5 ms  ✓ BWA_jll
  14015.8 ms  ✓ Automa
   2538.3 ms  ✓ BioAlignments
  14106.9 ms  ✓ FASTX
  12385.1 ms  ✓ XAM
   3053.7 ms  ✓ FASTX → BioSequencesExt


Precompilation completed after 57.08s


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# Loading
#

Loading BurrowsWheelerAligner...
WARNING: Imported binding XAM.refname was undeclared at import time during import to BurrowsWheelerAligner.
WARNING: Imported binding XAM.mappingquality was undeclared at import time during import to BurrowsWheelerAligner.
ERROR: LoadError: invalid method definition in BurrowsWheelerAligner: exported function XAM.refname does not exist
Stacktrace:
  [1] top-level scope
    @ ~/.julia/packages/BurrowsWheelerAligner/ffVKK/src/BurrowsWheelerAligner.jl:57
  [2] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
  [3] __require_prelocked(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2777
  [4] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:2536
  [5] macro expansion
    @ ./loading.jl:2464 [inlined]
  [6] macro expansion
    @ ./lock.jl:376 [inlined]
  [7] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2428
  [8] require
    @ ./loading.jl:2404 [inlined]
  [9] eval_import_path
    @ ./module.jl:36 [inlined]
 [10] eval_import_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
 [11] _eval_using(to::Module, path::Expr)
    @ Base ./module.jl:137
 [12] top-level scope
    @ none:1
 [13] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [14] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:310
 [15] _start()
    @ Base ./client.jl:577
in expression starting at /home/pkgeval/.julia/packages/BurrowsWheelerAligner/ffVKK/src/BurrowsWheelerAligner.jl:1

Loading failed after 15.73s

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 BurrowsWheelerAligner'`, 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 108.74s: there were unidentified errors