Package evaluation of Bio on Julia 1.10.8 (92f03a4775*) started at 2025-02-25T10:14:08.922


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

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 5.2s


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

Installing Bio...
   Resolving package versions...
   Installed CodecZlib ─ v0.6.0
    Updating `~/.julia/environments/v1.10/Project.toml`
  [3637df68] + Bio v1.0.1
    Updating `~/.julia/environments/v1.10/Manifest.toml`
  [1520ce14] + AbstractTrees v0.4.5
⌅ [67c07d97] + Automa v0.7.0
  [28d598bf] + BGZFStreams v0.3.2
  [b99e7846] + BinaryProvider v0.5.10
  [3637df68] + Bio v1.0.1
⌅ [00701ae9] + BioAlignments v1.0.1
  [37cfa864] + BioCore v2.0.5
⌅ [7e6ae17a] + BioSequences v1.1.0
⌅ [a0d4ced5] + BioServices v0.3.2
⌅ [de9282ab] + BioStructures v0.4.0
⌅ [3c28c6f8] + BioSymbols v3.1.0
  [fa51a905] + BioTools v1.2.0
  [e1450e63] + BufferedStreams v1.2.2
⌅ [944b1d66] + CodecZlib v0.6.0
⌅ [3da002f7] + ColorTypes v0.9.1
⌅ [861a8166] + Combinatorics v0.7.0
⌅ [34da2185] + Compat v2.2.1
⌅ [864edb3b] + DataStructures v0.17.20
  [8bb1440f] + DelimitedFiles v1.9.1
  [8f5d6c58] + EzXML v1.2.0
⌅ [53c48c17] + FixedPointNumbers v0.7.1
⌅ [1fa38f19] + Format v0.8.0
  [9bc6ac9d] + GeneticVariation v0.4.1
⌅ [899a7d2d] + GenomicFeatures v1.0.4
  [708ec375] + Gumbo v0.8.3
⌅ [cd3eb016] + HTTP v0.8.19
  [1cb3b9ac] + IndexableBitVectors v1.0.0
  [83e8ac13] + IniFile v0.5.1
  [524e6230] + IntervalTrees v1.1.0
  [c8e1da08] + IterTools v1.10.0
  [692b3bcd] + JLLWrappers v1.7.0
  [682c06a0] + JSON v0.21.4
  [2ec943e9] + Libz v1.0.1
  [739be429] + MbedTLS v1.1.9
  [bac558e1] + OrderedCollections v1.8.0
  [69de0a69] + Parsers v2.8.1
⌅ [f27b6e38] + Polynomials v0.6.1
  [aea7be01] + PrecompileTools v1.2.1
  [21216c6a] + Preferences v1.4.3
⌅ [3cdcf5f2] + RecipesBase v0.7.0
  [69024149] + StringEncodings v0.3.7
⌅ [3bb67fe8] + TranscodingStreams v0.9.13
  [7200193e] + Twiddle v1.1.2
  [30578b45] + URIParser v0.4.1
  [228000da] + XMLDict v0.4.1
  [ddb6d928] + YAML v0.4.12
  [528830af] + Gumbo_jll v0.10.2+0
  [94ce4f54] + Libiconv_jll v1.18.0+0
  [02c8fc9c] + XML2_jll v2.13.6+1
  [0dad84c5] + ArgTools v1.1.1
  [56f22d72] + Artifacts
  [2a0f44e3] + Base64
  [ade2ca70] + Dates
  [8ba89e20] + Distributed
  [f43a241f] + Downloads v1.6.0
  [7b1f6079] + FileWatching
  [b77e0a4c] + InteractiveUtils
  [b27032c2] + LibCURL v0.6.4
  [76f85450] + LibGit2
  [8f399da3] + Libdl
  [37e2e46d] + LinearAlgebra
  [56ddb016] + Logging
  [d6f4376e] + Markdown
  [a63ad114] + Mmap
  [ca575930] + NetworkOptions v1.2.0
  [44cfe95a] + Pkg v1.10.0
  [de0858da] + Printf
  [3fa0cd96] + REPL
  [9a3f8284] + Random
  [ea8e919c] + SHA v0.7.0
  [9e88b42a] + Serialization
  [1a1011a3] + SharedArrays
  [6462fe0b] + Sockets
  [2f01184e] + SparseArrays v1.10.0
  [10745b16] + Statistics v1.10.0
  [fa267f1f] + TOML v1.0.3
  [a4e569a6] + Tar v1.10.0
  [8dfed614] + Test
  [cf7118a7] + UUIDs
  [4ec0a83e] + Unicode
  [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0
  [deac9b47] + LibCURL_jll v8.4.0+0
  [e37daf67] + LibGit2_jll v1.6.4+0
  [29816b5a] + LibSSH2_jll v1.11.0+1
  [c8ffd9c3] + MbedTLS_jll v2.28.2+1
  [14a3606d] + MozillaCACerts_jll v2023.1.10
  [4536629a] + OpenBLAS_jll v0.3.23+4
  [bea87d4a] + SuiteSparse_jll v7.2.1+1
  [83775a58] + Zlib_jll v1.2.13+1
  [8e850b90] + libblastrampoline_jll v5.11.0+0
  [8e850ede] + nghttp2_jll v1.52.0+1
  [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`
    Building CodecZlib → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/05916673a2627dd91b4969ff8ba6941bc85a960e/build.log`

Installation completed after 11.87s


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# Precompilation
#

Precompiling PkgEval dependencies...

Precompiling package dependencies...

Precompilation completed after 80.41s


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# Testing
#

     Testing Bio
      Status `/tmp/jl_xLYzRq/Project.toml`
  [3637df68] Bio v1.0.1
⌅ [00701ae9] BioAlignments v1.0.1
  [37cfa864] BioCore v2.0.5
⌅ [7e6ae17a] BioSequences v1.1.0
⌅ [a0d4ced5] BioServices v0.3.2
⌅ [de9282ab] BioStructures v0.4.0
  [fa51a905] BioTools v1.2.0
  [9bc6ac9d] GeneticVariation v0.4.1
⌅ [899a7d2d] GenomicFeatures v1.0.4
  [44cfe95a] Pkg v1.10.0
  [8dfed614] Test
      Status `/tmp/jl_xLYzRq/Manifest.toml`
  [1520ce14] AbstractTrees v0.4.5
⌅ [67c07d97] Automa v0.7.0
  [28d598bf] BGZFStreams v0.3.2
  [b99e7846] BinaryProvider v0.5.10
  [3637df68] Bio v1.0.1
⌅ [00701ae9] BioAlignments v1.0.1
  [37cfa864] BioCore v2.0.5
⌅ [7e6ae17a] BioSequences v1.1.0
⌅ [a0d4ced5] BioServices v0.3.2
⌅ [de9282ab] BioStructures v0.4.0
⌅ [3c28c6f8] BioSymbols v3.1.0
  [fa51a905] BioTools v1.2.0
  [e1450e63] BufferedStreams v1.2.2
⌅ [944b1d66] CodecZlib v0.6.0
⌅ [3da002f7] ColorTypes v0.9.1
⌅ [861a8166] Combinatorics v0.7.0
⌅ [34da2185] Compat v2.2.1
⌅ [864edb3b] DataStructures v0.17.20
  [8bb1440f] DelimitedFiles v1.9.1
  [8f5d6c58] EzXML v1.2.0
⌅ [53c48c17] FixedPointNumbers v0.7.1
⌅ [1fa38f19] Format v0.8.0
  [9bc6ac9d] GeneticVariation v0.4.1
⌅ [899a7d2d] GenomicFeatures v1.0.4
  [708ec375] Gumbo v0.8.3
⌅ [cd3eb016] HTTP v0.8.19
  [1cb3b9ac] IndexableBitVectors v1.0.0
  [83e8ac13] IniFile v0.5.1
  [524e6230] IntervalTrees v1.1.0
  [c8e1da08] IterTools v1.10.0
  [692b3bcd] JLLWrappers v1.7.0
  [682c06a0] JSON v0.21.4
  [2ec943e9] Libz v1.0.1
  [739be429] MbedTLS v1.1.9
  [bac558e1] OrderedCollections v1.8.0
  [69de0a69] Parsers v2.8.1
⌅ [f27b6e38] Polynomials v0.6.1
  [aea7be01] PrecompileTools v1.2.1
  [21216c6a] Preferences v1.4.3
⌅ [3cdcf5f2] RecipesBase v0.7.0
  [69024149] StringEncodings v0.3.7
⌅ [3bb67fe8] TranscodingStreams v0.9.13
  [7200193e] Twiddle v1.1.2
  [30578b45] URIParser v0.4.1
  [228000da] XMLDict v0.4.1
  [ddb6d928] YAML v0.4.12
  [528830af] Gumbo_jll v0.10.2+0
  [94ce4f54] Libiconv_jll v1.18.0+0
  [02c8fc9c] XML2_jll v2.13.6+1
  [0dad84c5] ArgTools v1.1.1
  [56f22d72] Artifacts
  [2a0f44e3] Base64
  [ade2ca70] Dates
  [8ba89e20] Distributed
  [f43a241f] Downloads v1.6.0
  [7b1f6079] FileWatching
  [b77e0a4c] InteractiveUtils
  [b27032c2] LibCURL v0.6.4
  [76f85450] LibGit2
  [8f399da3] Libdl
  [37e2e46d] LinearAlgebra
  [56ddb016] Logging
  [d6f4376e] Markdown
  [a63ad114] Mmap
  [ca575930] NetworkOptions v1.2.0
  [44cfe95a] Pkg v1.10.0
  [de0858da] Printf
  [3fa0cd96] REPL
  [9a3f8284] Random
  [ea8e919c] SHA v0.7.0
  [9e88b42a] Serialization
  [1a1011a3] SharedArrays
  [6462fe0b] Sockets
  [2f01184e] SparseArrays v1.10.0
  [10745b16] Statistics v1.10.0
  [fa267f1f] TOML v1.0.3
  [a4e569a6] Tar v1.10.0
  [8dfed614] Test
  [cf7118a7] UUIDs
  [4ec0a83e] Unicode
  [e66e0078] CompilerSupportLibraries_jll v1.1.1+0
  [deac9b47] LibCURL_jll v8.4.0+0
  [e37daf67] LibGit2_jll v1.6.4+0
  [29816b5a] LibSSH2_jll v1.11.0+1
  [c8ffd9c3] MbedTLS_jll v2.28.2+1
  [14a3606d] MozillaCACerts_jll v2023.1.10
  [4536629a] OpenBLAS_jll v0.3.23+4
  [bea87d4a] SuiteSparse_jll v7.2.1+1
  [83775a58] Zlib_jll v1.2.13+1
  [8e850b90] libblastrampoline_jll v5.11.0+0
  [8e850ede] nghttp2_jll v1.52.0+1
  [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: ParseError:
# Error @ /home/pkgeval/.julia/packages/Bio/sLeRG/test/runtests.jl:9:5
    "BioServices"
    "BioTools"
#   └────────┘ ── Expected `]`
Stacktrace:
 [1] top-level scope
   @ ~/.julia/packages/Bio/sLeRG/test/runtests.jl:9
 [2] include(fname::String)
   @ Base.MainInclude ./client.jl:494
 [3] top-level scope
   @ none:6
in expression starting at /home/pkgeval/.julia/packages/Bio/sLeRG/test/runtests.jl:9

Testing failed after 8.37s

ERROR: LoadError: Package Bio errored during testing
Stacktrace:
 [1] pkgerror(msg::String)
   @ Pkg.Types /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Types.jl:70
 [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/v1.10/Pkg/src/Operations.jl:2034
 [3] test
   @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1915 [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::Base.PipeEndpoint})
   @ Pkg.API /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:444
 [5] test(pkgs::Vector{Pkg.Types.PackageSpec}; io::Base.PipeEndpoint, kwargs::@Kwargs{julia_args::Cmd})
   @ Pkg.API /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:159
 [6] test
   @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:147 [inlined]
 [7] #test#74
   @ /opt/julia/share/julia/stdlib/v1.10/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 118.27s: package tests unexpectedly errored