Package evaluation of VariantCallFormat on Julia 1.12.0-rc1.2 (995ff9db19*) started at 2025-07-14T12:19:56.917


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# Set-up
#

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 8.73s


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# Installation
#

Installing VariantCallFormat...
   Resolving package versions...
    Updating `~/.julia/environments/v1.12/Project.toml`
  [28eba6e3] + VariantCallFormat v0.5.6
    Updating `~/.julia/environments/v1.12/Manifest.toml`
⌅ [67c07d97] + Automa v0.8.4
  [28d598bf] + BGZFStreams v0.3.2
  [47718e42] + BioGenerics v0.1.5
  [e1450e63] + BufferedStreams v1.2.2
  [944b1d66] + CodecZlib v0.7.8
⌅ [3bb67fe8] + TranscodingStreams v0.9.13
  [28eba6e3] + VariantCallFormat v0.5.6
  [2a0f44e3] + Base64 v1.11.0
  [b77e0a4c] + InteractiveUtils v1.11.0
  [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0
  [8f399da3] + Libdl v1.11.0
  [56ddb016] + Logging v1.11.0
  [d6f4376e] + Markdown v1.11.0
  [9a3f8284] + Random v1.11.0
  [ea8e919c] + SHA v0.7.0
  [9e88b42a] + Serialization v1.11.0
  [f489334b] + StyledStrings v1.11.0
  [8dfed614] + Test v1.11.0
  [83775a58] + Zlib_jll v1.3.1+2
        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 To see why use `status --outdated -m`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 1.04s


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# Precompilation
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Precompiling PkgEval dependencies...

Precompiling package dependencies...

Precompilation completed after 35.17s


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# Testing
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     Testing VariantCallFormat
      Status `/tmp/jl_xRa7tI/Project.toml`
⌅ [67c07d97] Automa v0.8.4
  [28d598bf] BGZFStreams v0.3.2
  [47718e42] BioGenerics v0.1.5
  [e1450e63] BufferedStreams v1.2.2
  [28eba6e3] VariantCallFormat v0.5.6
  [ddb6d928] YAML v0.4.14
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_xRa7tI/Manifest.toml`
⌅ [67c07d97] Automa v0.8.4
  [28d598bf] BGZFStreams v0.3.2
  [47718e42] BioGenerics v0.1.5
  [e1450e63] BufferedStreams v1.2.2
  [944b1d66] CodecZlib v0.7.8
  [692b3bcd] JLLWrappers v1.7.0
  [21216c6a] Preferences v1.4.3
  [69024149] StringEncodings v0.3.7
⌅ [3bb67fe8] TranscodingStreams v0.9.13
  [28eba6e3] VariantCallFormat v0.5.6
  [ddb6d928] YAML v0.4.14
  [94ce4f54] Libiconv_jll v1.18.0+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
  [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
  [f489334b] StyledStrings v1.11.0
  [fa267f1f] TOML v1.0.3
  [8dfed614] Test v1.11.0
  [4ec0a83e] Unicode v1.11.0
  [83775a58] Zlib_jll v1.3.1+2
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading.
     Testing Running tests...
Test Summary: | Pass  Total   Time
VCF           |  195    195  40.7s
BCF: Error During Test at /home/pkgeval/.julia/packages/VariantCallFormat/YgfJC/test/bcf.jl:1
  Got exception outside of a @test
  BGZFStreams.BGZFDataError("invalid gzip identifier")
  Stacktrace:
    [1] bgzferror(message::String)
      @ BGZFStreams ~/.julia/packages/BGZFStreams/aVKm9/src/bgzfstream.jl:360
    [2] read_bgzf_block!(input::IOBuffer, block::Vector{UInt8})
      @ BGZFStreams ~/.julia/packages/BGZFStreams/aVKm9/src/bgzfstream.jl:426
    [3] read_blocks!(stream::BGZFStreams.BGZFStream{IOBuffer})
      @ BGZFStreams ~/.julia/packages/BGZFStreams/aVKm9/src/bgzfstream.jl:382
    [4] ensure_buffered_data
      @ ~/.julia/packages/BGZFStreams/aVKm9/src/bgzfstream.jl:339 [inlined]
    [5] read(stream::BGZFStreams.BGZFStream{IOBuffer}, ::Type{UInt8})
      @ BGZFStreams ~/.julia/packages/BGZFStreams/aVKm9/src/bgzfstream.jl:249
    [6] VariantCallFormat.BCF.Reader(input::IOBuffer)
      @ VariantCallFormat.BCF ~/.julia/packages/VariantCallFormat/YgfJC/src/bcf/reader.jl:17
    [7] macro expansion
      @ ~/.julia/packages/VariantCallFormat/YgfJC/test/bcf.jl:81 [inlined]
    [8] macro expansion
      @ /opt/julia/share/julia/stdlib/v1.12/Test/src/Test.jl:1776 [inlined]
    [9] top-level scope
      @ ~/.julia/packages/VariantCallFormat/YgfJC/test/bcf.jl:2
   [10] include(mapexpr::Function, mod::Module, _path::String)
      @ Base ./Base.jl:306
   [11] top-level scope
      @ ~/.julia/packages/VariantCallFormat/YgfJC/test/runtests.jl:10
   [12] include(mapexpr::Function, mod::Module, _path::String)
      @ Base ./Base.jl:306
   [13] top-level scope
      @ none:6
   [14] eval(m::Module, e::Any)
      @ Core ./boot.jl:489
   [15] exec_options(opts::Base.JLOptions)
      @ Base ./client.jl:287
   [16] _start()
      @ Base ./client.jl:554
Test Summary: | Pass  Error  Total   Time
BCF           |   37      1     38  15.1s
RNG of the outermost testset: Random.Xoshiro(0xd0a0999d43be0892, 0x18badbeee3ff8146, 0xdbecdbbb8c5da842, 0xe5833160c729f13c, 0xad07d1b91fb66e52)
ERROR: LoadError: Some tests did not pass: 37 passed, 0 failed, 1 errored, 0 broken.
in expression starting at /home/pkgeval/.julia/packages/VariantCallFormat/YgfJC/test/bcf.jl:1
in expression starting at /home/pkgeval/.julia/packages/VariantCallFormat/YgfJC/test/runtests.jl:1

Testing failed after 74.11s

ERROR: LoadError: Package VariantCallFormat errored during testing
Stacktrace:
  [1] pkgerror(msg::String)
    @ Pkg.Types /opt/julia/share/julia/stdlib/v1.12/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/v1.12/Pkg/src/Operations.jl:2458
  [3] test
    @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/Operations.jl:2313 [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/v1.12/Pkg/src/API.jl:511
  [5] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:164
  [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:152
  [7] test
    @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:152 [inlined]
  [8] #test#81
    @ /opt/julia/share/julia/stdlib/v1.12/Pkg/src/API.jl:151 [inlined]
  [9] top-level scope
    @ /PkgEval.jl/scripts/evaluate.jl:219
 [10] include(mod::Module, _path::String)
    @ Base ./Base.jl:305
 [11] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:321
 [12] _start()
    @ Base ./client.jl:554
in expression starting at /PkgEval.jl/scripts/evaluate.jl:210

PkgEval failed after 136.05s: package tests unexpectedly errored