Package evaluation of BioFetch on Julia 1.11.4 (a71dd056e0*) started at 2025-04-08T15:15:30.087


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

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 8.3s


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

Installing BioFetch...
   Resolving package versions...
    Updating `~/.julia/environments/v1.11/Project.toml`
  [f8217676] + BioFetch v0.2.1
    Updating `~/.julia/environments/v1.11/Manifest.toml`
  [1520ce14] + AbstractTrees v0.4.5
  [67c07d97] + Automa v1.1.0
  [f8217676] + BioFetch v0.2.1
  [47718e42] + BioGenerics v0.1.5
  [7e6ae17a] + BioSequences v3.4.1
  [a0d4ced5] + BioServices v0.4.1
  [3c28c6f8] + BioSymbols v5.1.3
  [d1d4a3ce] + BitFlags v0.1.9
  [944b1d66] + CodecZlib v0.7.8
  [34da2185] + Compat v4.16.0
  [f0e56b4a] + ConcurrentUtilities v2.5.0
  [a8cc5b0e] + Crayons v4.1.1
  [9a962f9c] + DataAPI v1.16.0
  [a93c6f00] + DataFrames v1.7.0
  [864edb3b] + DataStructures v0.18.22
  [e2d170a0] + DataValueInterfaces v1.0.0
  [460bff9d] + ExceptionUnwrapping v0.1.11
  [8f5d6c58] + EzXML v1.2.1
  [c2308a5c] + FASTX v2.1.7
⌅ [4f8a0a0a] + GenomicAnnotations v0.3.8
  [708ec375] + Gumbo v0.8.3
  [cd3eb016] + HTTP v1.10.15
  [842dd82b] + InlineStrings v1.4.3
  [41ab1584] + InvertedIndices v1.3.1
  [c8e1da08] + IterTools v1.10.0
  [82899510] + IteratorInterfaceExtensions v1.0.0
  [692b3bcd] + JLLWrappers v1.7.0
  [682c06a0] + JSON v0.21.4
  [b964fa9f] + LaTeXStrings v1.4.0
  [e6f89c97] + LoggingExtras v1.1.0
  [739be429] + MbedTLS v1.1.9
  [e1d29d7a] + Missings v1.2.0
  [4d8831e6] + OpenSSL v1.4.3
  [bac558e1] + OrderedCollections v1.8.0
  [69de0a69] + Parsers v2.8.1
  [2dfb63ee] + PooledArrays v1.4.3
⌅ [aea7be01] + PrecompileTools v1.2.1
  [21216c6a] + Preferences v1.4.3
  [08abe8d2] + PrettyTables v2.4.0
  [189a3867] + Reexport v1.2.2
  [fdea26ae] + SIMD v3.7.1
  [91c51154] + SentinelArrays v1.4.8
  [777ac1f9] + SimpleBufferStream v1.2.0
  [a2af1166] + SortingAlgorithms v1.2.1
  [10745b16] + Statistics v1.11.1
  [892a3eda] + StringManipulation v0.4.1
  [354b36f9] + StringViews v1.3.4
  [3783bdb8] + TableTraits v1.0.1
  [bd369af6] + Tables v1.12.0
⌅ [3bb67fe8] + TranscodingStreams v0.10.10
  [7200193e] + Twiddle v1.1.2
  [5c2747f8] + URIs v1.5.2
  [228000da] + XMLDict v0.4.1
  [528830af] + Gumbo_jll v0.10.2+0
  [94ce4f54] + Libiconv_jll v1.18.0+0
  [458c3c95] + OpenSSL_jll v3.0.16+0
  [02c8fc9c] + XML2_jll v2.13.6+1
  [0dad84c5] + ArgTools v1.1.2
  [56f22d72] + Artifacts v1.11.0
  [2a0f44e3] + Base64 v1.11.0
  [ade2ca70] + Dates v1.11.0
  [f43a241f] + Downloads v1.6.0
  [7b1f6079] + FileWatching v1.11.0
  [9fa8497b] + Future v1.11.0
  [b77e0a4c] + InteractiveUtils v1.11.0
  [b27032c2] + LibCURL v0.6.4
  [76f85450] + LibGit2 v1.11.0
  [8f399da3] + Libdl v1.11.0
  [37e2e46d] + LinearAlgebra v1.11.0
  [56ddb016] + Logging v1.11.0
  [d6f4376e] + Markdown v1.11.0
  [a63ad114] + Mmap v1.11.0
  [ca575930] + NetworkOptions v1.2.0
  [44cfe95a] + Pkg v1.11.0
  [de0858da] + Printf v1.11.0
  [9a3f8284] + Random v1.11.0
  [ea8e919c] + SHA v0.7.0
  [9e88b42a] + Serialization v1.11.0
  [6462fe0b] + Sockets 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 v1.1.1+0
  [deac9b47] + LibCURL_jll v8.6.0+0
  [e37daf67] + LibGit2_jll v1.7.2+0
  [29816b5a] + LibSSH2_jll v1.11.0+1
  [c8ffd9c3] + MbedTLS_jll v2.28.6+0
  [14a3606d] + MozillaCACerts_jll v2023.12.12
  [4536629a] + OpenBLAS_jll v0.3.27+1
  [83775a58] + Zlib_jll v1.2.13+1
  [8e850b90] + libblastrampoline_jll v5.11.0+0
  [8e850ede] + nghttp2_jll v1.59.0+0
  [3f19e933] + p7zip_jll v17.4.0+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 2.74s


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

Precompiling PkgEval dependencies...

Precompiling package dependencies...

Precompilation completed after 138.42s


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

     Testing BioFetch
      Status `/tmp/jl_t4eOnD/Project.toml`
  [f8217676] BioFetch v0.2.1
  [a0d4ced5] BioServices v0.4.1
  [c2308a5c] FASTX v2.1.7
⌅ [4f8a0a0a] GenomicAnnotations v0.3.8
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_t4eOnD/Manifest.toml`
  [1520ce14] AbstractTrees v0.4.5
  [67c07d97] Automa v1.1.0
  [f8217676] BioFetch v0.2.1
  [47718e42] BioGenerics v0.1.5
  [7e6ae17a] BioSequences v3.4.1
  [a0d4ced5] BioServices v0.4.1
  [3c28c6f8] BioSymbols v5.1.3
  [d1d4a3ce] BitFlags v0.1.9
  [944b1d66] CodecZlib v0.7.8
  [34da2185] Compat v4.16.0
  [f0e56b4a] ConcurrentUtilities v2.5.0
  [a8cc5b0e] Crayons v4.1.1
  [9a962f9c] DataAPI v1.16.0
  [a93c6f00] DataFrames v1.7.0
  [864edb3b] DataStructures v0.18.22
  [e2d170a0] DataValueInterfaces v1.0.0
  [460bff9d] ExceptionUnwrapping v0.1.11
  [8f5d6c58] EzXML v1.2.1
  [c2308a5c] FASTX v2.1.7
⌅ [4f8a0a0a] GenomicAnnotations v0.3.8
  [708ec375] Gumbo v0.8.3
  [cd3eb016] HTTP v1.10.15
  [842dd82b] InlineStrings v1.4.3
  [41ab1584] InvertedIndices v1.3.1
  [c8e1da08] IterTools v1.10.0
  [82899510] IteratorInterfaceExtensions v1.0.0
  [692b3bcd] JLLWrappers v1.7.0
  [682c06a0] JSON v0.21.4
  [b964fa9f] LaTeXStrings v1.4.0
  [e6f89c97] LoggingExtras v1.1.0
  [739be429] MbedTLS v1.1.9
  [e1d29d7a] Missings v1.2.0
  [4d8831e6] OpenSSL v1.4.3
  [bac558e1] OrderedCollections v1.8.0
  [69de0a69] Parsers v2.8.1
  [2dfb63ee] PooledArrays v1.4.3
⌅ [aea7be01] PrecompileTools v1.2.1
  [21216c6a] Preferences v1.4.3
  [08abe8d2] PrettyTables v2.4.0
  [189a3867] Reexport v1.2.2
  [fdea26ae] SIMD v3.7.1
  [91c51154] SentinelArrays v1.4.8
  [777ac1f9] SimpleBufferStream v1.2.0
  [a2af1166] SortingAlgorithms v1.2.1
  [10745b16] Statistics v1.11.1
  [892a3eda] StringManipulation v0.4.1
  [354b36f9] StringViews v1.3.4
  [3783bdb8] TableTraits v1.0.1
  [bd369af6] Tables v1.12.0
⌅ [3bb67fe8] TranscodingStreams v0.10.10
  [7200193e] Twiddle v1.1.2
  [5c2747f8] URIs v1.5.2
  [228000da] XMLDict v0.4.1
  [528830af] Gumbo_jll v0.10.2+0
  [94ce4f54] Libiconv_jll v1.18.0+0
  [458c3c95] OpenSSL_jll v3.0.16+0
  [02c8fc9c] XML2_jll v2.13.6+1
  [0dad84c5] ArgTools v1.1.2
  [56f22d72] Artifacts v1.11.0
  [2a0f44e3] Base64 v1.11.0
  [ade2ca70] Dates v1.11.0
  [f43a241f] Downloads v1.6.0
  [7b1f6079] FileWatching v1.11.0
  [9fa8497b] Future v1.11.0
  [b77e0a4c] InteractiveUtils v1.11.0
  [b27032c2] LibCURL v0.6.4
  [76f85450] LibGit2 v1.11.0
  [8f399da3] Libdl v1.11.0
  [37e2e46d] LinearAlgebra v1.11.0
  [56ddb016] Logging v1.11.0
  [d6f4376e] Markdown v1.11.0
  [a63ad114] Mmap v1.11.0
  [ca575930] NetworkOptions v1.2.0
  [44cfe95a] Pkg v1.11.0
  [de0858da] Printf v1.11.0
  [9a3f8284] Random v1.11.0
  [ea8e919c] SHA v0.7.0
  [9e88b42a] Serialization v1.11.0
  [6462fe0b] Sockets 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 v1.1.1+0
  [deac9b47] LibCURL_jll v8.6.0+0
  [e37daf67] LibGit2_jll v1.7.2+0
  [29816b5a] LibSSH2_jll v1.11.0+1
  [c8ffd9c3] MbedTLS_jll v2.28.6+0
  [14a3606d] MozillaCACerts_jll v2023.12.12
  [4536629a] OpenBLAS_jll v0.3.27+1
  [83775a58] Zlib_jll v1.2.13+1
  [8e850b90] libblastrampoline_jll v5.11.0+0
  [8e850ede] nghttp2_jll v1.59.0+0
  [3f19e933] p7zip_jll v17.4.0+2
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading.
     Testing Running tests...
ERROR: LoadError: type GeneDataView has no field mem
Stacktrace:
  [1] getproperty
    @ ~/.julia/packages/GenomicAnnotations/iSJX6/src/genedataview.jl:18 [inlined]
  [2] _growend!(a::Vector{Gene}, delta::Int64)
    @ Base ./array.jl:1108
  [3] push!(a::Vector{Gene}, item::Gene)
    @ Base ./array.jl:1261
  [4] addgene!(chr::GenomicAnnotations.Record{Gene}, feature::Symbol, locus::Locus; kw::@Kwargs{})
    @ GenomicAnnotations ~/.julia/packages/GenomicAnnotations/iSJX6/src/record.jl:106
  [5] addgene!(chr::GenomicAnnotations.Record{Gene}, feature::Symbol, locus::Locus)
    @ GenomicAnnotations ~/.julia/packages/GenomicAnnotations/iSJX6/src/record.jl:98
  [6] parsechromosome!(stream::TranscodingStreams.NoopStream{IOBuffer}, record::GenomicAnnotations.Record{Gene})
    @ GenomicAnnotations.GenBank ~/.julia/packages/GenomicAnnotations/iSJX6/src/GenBank/reader.jl:177
  [7] tryread!
    @ ~/.julia/packages/GenomicAnnotations/iSJX6/src/GenBank/reader.jl:49 [inlined]
  [8] iterate(reader::GenomicAnnotations.GenBank.Reader{TranscodingStreams.NoopStream{IOBuffer}}, nextone::GenomicAnnotations.Record{Gene})
    @ GenomicAnnotations.GenBank ~/.julia/packages/GenomicAnnotations/iSJX6/src/GenBank/reader.jl:42
  [9] iterate
    @ ./generator.jl:45 [inlined]
 [10] grow_to!
    @ ./array.jl:864 [inlined]
 [11] collect(itr::Base.Generator{GenomicAnnotations.GenBank.Reader{TranscodingStreams.NoopStream{IOBuffer}}, typeof(identity)})
    @ Base ./array.jl:788
 [12] fetchseq_ncbi(ids::String, db::String; format::SeqFormat, range::Nothing, revstrand::Bool)
    @ BioFetch ~/.julia/packages/BioFetch/KUzgG/src/BioFetch.jl:87
 [13] fetchseq_ncbi
    @ ~/.julia/packages/BioFetch/KUzgG/src/BioFetch.jl:76 [inlined]
 [14] fetchseq(id::String, range::Nothing, revstrand::Bool; format::SeqFormat)
    @ BioFetch ~/.julia/packages/BioFetch/KUzgG/src/BioFetch.jl:67
 [15] fetchseq
    @ ~/.julia/packages/BioFetch/KUzgG/src/BioFetch.jl:61 [inlined]
 [16] top-level scope
    @ ~/.julia/packages/BioFetch/KUzgG/test/runtests.jl:7
 [17] include(fname::String)
    @ Main ./sysimg.jl:38
 [18] top-level scope
    @ none:6
in expression starting at /home/pkgeval/.julia/packages/BioFetch/KUzgG/test/runtests.jl:7

Testing failed after 66.88s

ERROR: LoadError: Package BioFetch errored during testing
Stacktrace:
 [1] pkgerror(msg::String)
   @ Pkg.Types /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Types.jl:68
 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.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/v1.11/Pkg/src/Operations.jl:2124
 [3] test
   @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2007 [inlined]
 [4] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.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/v1.11/Pkg/src/API.jl:481
 [5] test(pkgs::Vector{Pkg.Types.PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd})
   @ Pkg.API /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:159
 [6] test
   @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:147 [inlined]
 [7] #test#74
   @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:146 [inlined]
 [8] top-level scope
   @ /PkgEval.jl/scripts/evaluate.jl:219
in expression starting at /PkgEval.jl/scripts/evaluate.jl:210

PkgEval failed after 363.01s: package tests unexpectedly errored