Package evaluation to load BiobakeryUtils on Julia 1.14.0-DEV.2114 (cccbcd9611*) started at 2026-05-05T14:30:02.619


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


Set-up completed after 0.12s


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

Installing BiobakeryUtils...
   Resolving package versions...
   Installed Conda ─ v1.10.3
    Updating `~/.julia/environments/v1.14/Project.toml`
  [fa5322f5] + BiobakeryUtils v0.7.0
    Updating `~/.julia/environments/v1.14/Manifest.toml`
  [66dad0bd] + AliasTables v1.1.3
  [7d9fca2a] + Arpack v0.5.4
  [fa5322f5] + BiobakeryUtils v0.7.0
  [336ed68f] + CSV v0.10.16
  [944b1d66] + CodecZlib v0.7.8
  [34da2185] + Compat v4.18.1
  [8f4d0f93] + Conda v1.10.3
  [9a962f9c] + DataAPI v1.16.0
  [864edb3b] + DataStructures v0.19.4
  [e2d170a0] + DataValueInterfaces v1.0.0
⌅ [85a47980] + Dictionaries v0.3.29
  [b4f34e82] + Distances v0.10.12
  [31c24e10] + Distributions v0.25.125
  [ffbed154] + DocStringExtensions v0.9.5
  [a58aae7d] + EcoBase v0.1.7
  [48062228] + FilePathsBase v0.9.24
  [1a297f60] + FillArrays v1.16.0
  [34004b35] + HypergeometricFunctions v0.3.28
  [313cdc1a] + Indexing v1.1.1
  [842dd82b] + InlineStrings v1.4.5
  [bd334432] + InlineTest v0.2.0
  [92d709cd] + IrrationalConstants v0.2.6
  [82899510] + IteratorInterfaceExtensions v1.0.0
  [692b3bcd] + JLLWrappers v1.7.1
  [682c06a0] + JSON v1.5.2
  [2ab3a3ac] + LogExpFunctions v0.3.29
  [3bd8f0ae] + Microbiome v0.10.1
  [e1d29d7a] + Missings v1.2.0
  [6f286f6a] + MultivariateStats v0.10.4
  [bac558e1] + OrderedCollections v1.8.1
  [90014a1f] + PDMats v0.11.37
  [69de0a69] + Parsers v2.8.4
  [2dfb63ee] + PooledArrays v1.4.3
  [aea7be01] + PrecompileTools v1.3.3
  [21216c6a] + Preferences v1.5.2
  [43287f4e] + PtrArrays v1.4.0
  [1fd47b50] + QuadGK v2.11.3
⌅ [e0db7c4e] + ReTest v0.3.4
  [3cdcf5f2] + RecipesBase v1.3.4
  [189a3867] + Reexport v1.2.2
  [79098fc4] + Rmath v0.9.0
  [91c51154] + SentinelArrays v1.4.9
  [a2af1166] + SortingAlgorithms v1.2.2
  [276daf66] + SpecialFunctions v2.7.2
  [10745b16] + Statistics v1.11.1
  [82ae8749] + StatsAPI v1.8.0
  [2913bbd2] + StatsBase v0.34.10
  [4c63d2b9] + StatsFuns v1.5.2
  [ec057cc2] + StructUtils v2.8.1
  [3783bdb8] + TableTraits v1.0.1
  [bd369af6] + Tables v1.12.1
  [3bb67fe8] + TranscodingStreams v0.11.3
  [81def892] + VersionParsing v1.3.0
  [ea10d353] + WeakRefStrings v1.4.3
  [76eceee3] + WorkerUtilities v1.6.1
⌅ [68821587] + Arpack_jll v3.5.2+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
  [8ba89e20] + Distributed v1.11.0
  [f43a241f] + Downloads v1.7.0
  [7b1f6079] + FileWatching v1.11.0
  [9fa8497b] + Future v1.11.0
  [b77e0a4c] + InteractiveUtils v1.11.0
  [ac6e5ff7] + JuliaSyntaxHighlighting v1.13.0
  [b27032c2] + LibCURL v1.0.0
  [8f399da3] + Libdl v1.11.0
  [37e2e46d] + LinearAlgebra v1.13.0
  [56ddb016] + Logging v1.11.0
  [d6f4376e] + Markdown v1.11.0
  [a63ad114] + Mmap v1.11.0
  [ca575930] + NetworkOptions v1.3.0
  [de0858da] + Printf 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 v1.13.0
  [4607b0f0] + SuiteSparse
  [fa267f1f] + TOML v1.0.3
  [8dfed614] + Test v1.11.0
  [cf7118a7] + UUIDs v1.11.0
  [4ec0a83e] + Unicode v1.11.0
  [e66e0078] + CompilerSupportLibraries_jll v1.5.1+0
  [deac9b47] + LibCURL_jll v8.19.0+0
  [29816b5a] + LibSSH2_jll v1.11.3+1
  [14a3606d] + MozillaCACerts_jll v2026.3.19
  [4536629a] + OpenBLAS_jll v0.3.33+0
  [05823500] + OpenLibm_jll v0.8.7+0
  [458c3c95] + OpenSSL_jll v3.5.6+0
  [bea87d4a] + SuiteSparse_jll v7.10.1+0
  [83775a58] + Zlib_jll v1.3.2+0
  [3161d3a3] + Zstd_jll v1.5.7+1
  [8e850b90] + libblastrampoline_jll v5.15.0+0
  [8e850ede] + nghttp2_jll v1.69.0+0
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m`
    Building Conda → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/8f06b0cfa4c514c7b9546756dbae91fcfbc92dc9/build.log`

Installation completed after 13.15s


################################################################################
# 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 project...
WARNING: Imported binding Test.pop_testset was undeclared at import time during import to Testset.
WARNING: Imported binding Test.push_testset was undeclared at import time during import to Testset.
┌ Error: Precompilation failed, this is the captured stdout (114 chars):
└ @ ReTest ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:36
                                   Pass  |  Time / Compile / GC |   Alloc   ΔRSS |
ReTest._ReTestPrecompileTests:

┌ Error: And this is the captured stderr (0 chars):
└ @ ReTest ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:39

ERROR: LoadError: TaskFailedException
Stacktrace:
  [1] maybe_record_enqueued!(t::Task)
    @ Base ./task.jl:363 [inlined]
  [2] schedule(t::Task)
    @ Base ./task.jl:360 [inlined]
  [3] retest(::Union{Regex, AbstractString, Integer, Module, Symbol, Tuple, ReTest.Pattern, AbstractArray, Pair{Module, <:Union{Regex, AbstractString, Integer, Symbol, Tuple, ReTest.Pattern, AbstractArray}}}, ::Vararg{Union{Regex, AbstractString, Integer, Module, Symbol, Tuple, ReTest.Pattern, AbstractArray, Pair{Module, <:Union{Regex, AbstractString, Integer, Symbol, Tuple, ReTest.Pattern, AbstractArray}}}}; dry::Bool, stats::Bool, shuffle::Bool, group::Bool, verbose::Bool, recursive::Bool, id::Nothing, strict::Bool, dup::Bool, static::Nothing, load::Bool, seed::Bool, marks::Bool, tag::Vector{Symbol}, spin::Bool, clear::Bool)
    @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1186
  [4] #137
    @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:26 [inlined]
  [5] redirect_stdio(f::ReTest.var"#137#138"; stdin::Nothing, stderr::Pipe, stdout::Pipe)
    @ Base ./stream.jl:1451
  [6] macro expansion
    @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:25 [inlined]
  [7] macro expansion
    @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:73 [inlined]
  [8] macro expansion
    @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:23 [inlined]
  [9] macro expansion
    @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:121 [inlined]
 [10] top-level scope
    @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:118
 [11] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:327
 [12] top-level scope
    @ ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1751
 [13] include(mod::Module, _path::String)
    @ Base ./Base.jl:326
 [14] include_package_for_output(pkg::Base.PkgId, input::String, syntax_version::VersionNumber, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)
    @ Base ./loading.jl:3271
 [15] top-level scope
    @ stdin:5
 [16] eval(m::Module, e::Any)
    @ Core ./boot.jl:517
 [17] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:3113
 [18] materialize(bc::Base.Broadcast.Broadcasted{Base.Broadcast.DefaultArrayStyle{1}, Nothing, Type{Symbol}, Tuple{Vector{SubString{String}}}})
    @ Base.Broadcast ./loading.jl:3123 [inlined]
 [19] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:350
 [20] _start()
    @ Base ./client.jl:593

    nested task error: TaskFailedException
    
        nested task error: UndefVarError: `push_testset` not defined in `ReTest.Testset`
        Suggestion: this global was defined as `Test.push_testset` but not assigned a value.
        Stacktrace:
          [1] top-level scope
            @ ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:517
          [2] macro expansion
            @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:12 [inlined]
          [3] macro expansion
            @ ~/.julia/packages/ReTest/3Ikse/src/testset.jl:517 [inlined]
          [4] eval(m::Module, e::Any)
            @ Core ./boot.jl:517
          [5] (::ReTest.var"#110#111"{ReTest.Testset.Format})(mod::Module, ts::ReTest.TestsetExpr, pat::ReTest.And, chan::@NamedTuple{out::Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, compute::Channel{Nothing}, preview::Nothing})
            @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1154
          [6] #local_remotecall_thunk##0
            @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:427 [inlined]
          [7] run_work_thunk(thunk::Distributed.var"#local_remotecall_thunk##0#local_remotecall_thunk##1"{ReTest.var"#110#111"{ReTest.Testset.Format}, Tuple{Module, ReTest.TestsetExpr, ReTest.And, @NamedTuple{out::Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, compute::Channel{Nothing}, preview::Nothing}}, @Kwargs{}}, print_error::Bool)
            @ Distributed /opt/julia/share/julia/stdlib/v1.14/Distributed/src/process_messages.jl:70
          [8] remotecall_fetch(::Function, ::Distributed.LocalProcess, ::Module, ::Vararg{Any}; kwargs::@Kwargs{})
            @ Distributed /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:452
          [9] remotecall_fetch
            @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:451 [inlined]
         [10] remotecall_fetch
            @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:494 [inlined]
         [11] (::ReTest.var"#106#107"{Int64, ReTest.Testset.Format, Nothing, ReTest.Testset.ReTestSet, Base.Threads.Atomic{Bool}, Channel{Nothing}, Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, Vector{Any}, ReTest.And, Module})()
            @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1151
        Stacktrace:
         [1] remotecall_fetch(::Function, ::Distributed.LocalProcess, ::Module, ::Vararg{Any}; kwargs::@Kwargs{})
           @ Distributed /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:453
         [2] remotecall_fetch
           @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:451 [inlined]
         [3] remotecall_fetch
           @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:494 [inlined]
         [4] (::ReTest.var"#106#107"{Int64, ReTest.Testset.Format, Nothing, ReTest.Testset.ReTestSet, Base.Threads.Atomic{Bool}, Channel{Nothing}, Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, Vector{Any}, ReTest.And, Module})()
           @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1151
    Stacktrace:
     [1] sync_end(c::Channel{Any})
       @ Base ./task.jl:630
     [2] put!(c::Channel{Any}, v::Task)
       @ Base ./task.jl:663 [inlined]
     [3] (::ReTest.var"#96#97"{Bool, ReTest.Testset.Format, Bool, Base.RefValue{Int64}, Bool, ReTest.var"#take_latest!#91", Nothing, ReentrantLock, Bool, ReTest.Testset.ReTestSet, Base.Threads.Atomic{Bool}, Base.RefValue{Exception}, Channel{Nothing}, Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, Vector{Any}, ReTest.And, Module})()
       @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1104
in expression starting at /home/pkgeval/.julia/packages/ReTest/3Ikse/src/precompile.jl:19
in expression starting at /home/pkgeval/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1
in expression starting at stdin:5
              ✗ ReTest
ERROR: LoadError: Precompiled image Base.PkgId(Base.UUID("e0db7c4e-2690-44b9-bad6-7687da720f89"), "ReTest") not available with flags CacheFlags(; use_pkgimages=false, debug_level=1, check_bounds=1, inline=true, opt_level=0)
Stacktrace:
  [1] error(s::String)
    @ Base ./error.jl:56
  [2] __require_prelocked(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2818
  [3] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:2672
  [4] macro expansion
    @ ./loading.jl:2599 [inlined]
  [5] String(s::Symbol)
    @ Base ./lock.jl:376 [inlined]
  [6] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2563
  [7] require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2539 [inlined]
  [8] eval_import_path(at::Module, from::Nothing, path::Expr, keyword::String)
    @ Base ./module.jl:36 [inlined]
  [9] eval_import_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
 [10] _eval_using(to::Module, path::Expr, flags::UInt8)
    @ Base ./module.jl:137 [inlined]
 [11] top-level scope
    @ ~/.julia/packages/Microbiome/StzgY/src/Microbiome.jl:74
 [12] include(mod::Module, _path::String)
    @ Base ./Base.jl:326
 [13] include_package_for_output(pkg::Base.PkgId, input::String, syntax_version::VersionNumber, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)
    @ Base ./loading.jl:3271
 [14] top-level scope
    @ stdin:5
 [15] eval(m::Module, e::Any)
    @ Core ./boot.jl:517
 [16] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:3113
 [17] materialize(bc::Base.Broadcast.Broadcasted{Base.Broadcast.DefaultArrayStyle{1}, Nothing, Type{Symbol}, Tuple{Vector{SubString{String}}}})
    @ Base.Broadcast ./loading.jl:3123 [inlined]
 [18] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:350
 [19] _start()
    @ Base ./client.jl:593
in expression starting at /home/pkgeval/.julia/packages/Microbiome/StzgY/src/Microbiome.jl:1
in expression starting at stdin:5
              ✗ Microbiome
ERROR: LoadError: Precompiled image Base.PkgId(Base.UUID("3bd8f0ae-a0f2-5238-a5af-e1b399a4940c"), "Microbiome") not available with flags CacheFlags(; use_pkgimages=false, debug_level=1, check_bounds=1, inline=true, opt_level=0)
Stacktrace:
  [1] error(s::String)
    @ Base ./error.jl:56
  [2] __require_prelocked(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2818
  [3] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:2672
  [4] macro expansion
    @ ./loading.jl:2599 [inlined]
  [5] String(s::Symbol)
    @ Base ./lock.jl:376 [inlined]
  [6] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2563
  [7] require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2539 [inlined]
  [8] eval_import_path(at::Module, from::Nothing, path::Expr, keyword::String)
    @ Base ./module.jl:36 [inlined]
  [9] eval_import_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
 [10] _eval_using(to::Module, path::Expr, flags::UInt8)
    @ Base ./module.jl:137 [inlined]
 [11] top-level scope
    @ ~/.julia/packages/BiobakeryUtils/ypFMk/src/BiobakeryUtils.jl:30
 [12] include(mod::Module, _path::String)
    @ Base ./Base.jl:326
 [13] include_package_for_output(pkg::Base.PkgId, input::String, syntax_version::VersionNumber, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)
    @ Base ./loading.jl:3271
 [14] top-level scope
    @ stdin:5
 [15] eval(m::Module, e::Any)
    @ Core ./boot.jl:517
 [16] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:3113
 [17] materialize(bc::Base.Broadcast.Broadcasted{Base.Broadcast.DefaultArrayStyle{1}, Nothing, Type{Symbol}, Tuple{Vector{SubString{String}}}})
    @ Base.Broadcast ./loading.jl:3123 [inlined]
 [18] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:350
 [19] _start()
    @ Base ./client.jl:593
in expression starting at /home/pkgeval/.julia/packages/BiobakeryUtils/ypFMk/src/BiobakeryUtils.jl:1
in expression starting at stdin:5
              ✗ BiobakeryUtils

Precompilation completed after 44.61s


################################################################################
# Loading
#

Loading BiobakeryUtils...
WARNING: Imported binding Test.pop_testset was undeclared at import time during import to Testset.
WARNING: Imported binding Test.push_testset was undeclared at import time during import to Testset.
┌ Error: Precompilation failed, this is the captured stdout (114 chars):
└ @ ReTest ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:36
                                   Pass  |  Time / Compile / GC |   Alloc   ΔRSS |
ReTest._ReTestPrecompileTests:

┌ Error: And this is the captured stderr (0 chars):
└ @ ReTest ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:39

ERROR: LoadError: TaskFailedException
Stacktrace:
  [1] maybe_record_enqueued!(t::Task)
    @ Base ./task.jl:363 [inlined]
  [2] schedule(t::Task)
    @ Base ./task.jl:360 [inlined]
  [3] retest(::Union{Regex, AbstractString, Integer, Module, Symbol, Tuple, ReTest.Pattern, AbstractArray, Pair{Module, <:Union{Regex, AbstractString, Integer, Symbol, Tuple, ReTest.Pattern, AbstractArray}}}, ::Vararg{Union{Regex, AbstractString, Integer, Module, Symbol, Tuple, ReTest.Pattern, AbstractArray, Pair{Module, <:Union{Regex, AbstractString, Integer, Symbol, Tuple, ReTest.Pattern, AbstractArray}}}}; dry::Bool, stats::Bool, shuffle::Bool, group::Bool, verbose::Bool, recursive::Bool, id::Nothing, strict::Bool, dup::Bool, static::Nothing, load::Bool, seed::Bool, marks::Bool, tag::Vector{Symbol}, spin::Bool, clear::Bool)
    @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1186
  [4] #137
    @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:26 [inlined]
  [5] redirect_stdio(f::ReTest.var"#137#138"; stdin::Nothing, stderr::Pipe, stdout::Pipe)
    @ Base ./stream.jl:1451
  [6] macro expansion
    @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:25 [inlined]
  [7] macro expansion
    @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:73 [inlined]
  [8] macro expansion
    @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:23 [inlined]
  [9] macro expansion
    @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:121 [inlined]
 [10] top-level scope
    @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:118
 [11] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:327
 [12] top-level scope
    @ ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1751
 [13] include(mod::Module, _path::String)
    @ Base ./Base.jl:326
 [14] include_package_for_output(pkg::Base.PkgId, input::String, syntax_version::VersionNumber, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)
    @ Base ./loading.jl:3271
 [15] top-level scope
    @ stdin:5
 [16] eval(m::Module, e::Any)
    @ Core ./boot.jl:517
 [17] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:3113
 [18] materialize(bc::Base.Broadcast.Broadcasted{Base.Broadcast.DefaultArrayStyle{1}, Nothing, Type{Symbol}, Tuple{Vector{SubString{String}}}})
    @ Base.Broadcast ./loading.jl:3123 [inlined]
 [19] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:350
 [20] _start()
    @ Base ./client.jl:593

    nested task error: TaskFailedException
    
        nested task error: UndefVarError: `push_testset` not defined in `ReTest.Testset`
        Suggestion: this global was defined as `Test.push_testset` but not assigned a value.
        Stacktrace:
          [1] top-level scope
            @ ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:517
          [2] macro expansion
            @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:12 [inlined]
          [3] macro expansion
            @ ~/.julia/packages/ReTest/3Ikse/src/testset.jl:517 [inlined]
          [4] eval(m::Module, e::Any)
            @ Core ./boot.jl:517
          [5] (::ReTest.var"#110#111"{ReTest.Testset.Format})(mod::Module, ts::ReTest.TestsetExpr, pat::ReTest.And, chan::@NamedTuple{out::Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, compute::Channel{Nothing}, preview::Nothing})
            @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1154
          [6] #local_remotecall_thunk##0
            @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:427 [inlined]
          [7] run_work_thunk(thunk::Distributed.var"#local_remotecall_thunk##0#local_remotecall_thunk##1"{ReTest.var"#110#111"{ReTest.Testset.Format}, Tuple{Module, ReTest.TestsetExpr, ReTest.And, @NamedTuple{out::Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, compute::Channel{Nothing}, preview::Nothing}}, @Kwargs{}}, print_error::Bool)
            @ Distributed /opt/julia/share/julia/stdlib/v1.14/Distributed/src/process_messages.jl:70
          [8] remotecall_fetch(::Function, ::Distributed.LocalProcess, ::Module, ::Vararg{Any}; kwargs::@Kwargs{})
            @ Distributed /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:452
          [9] remotecall_fetch
            @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:451 [inlined]
         [10] remotecall_fetch
            @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:494 [inlined]
         [11] (::ReTest.var"#106#107"{Int64, ReTest.Testset.Format, Nothing, ReTest.Testset.ReTestSet, Base.Threads.Atomic{Bool}, Channel{Nothing}, Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, Vector{Any}, ReTest.And, Module})()
            @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1151
        Stacktrace:
         [1] remotecall_fetch(::Function, ::Distributed.LocalProcess, ::Module, ::Vararg{Any}; kwargs::@Kwargs{})
           @ Distributed /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:453
         [2] remotecall_fetch
           @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:451 [inlined]
         [3] remotecall_fetch
           @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:494 [inlined]
         [4] (::ReTest.var"#106#107"{Int64, ReTest.Testset.Format, Nothing, ReTest.Testset.ReTestSet, Base.Threads.Atomic{Bool}, Channel{Nothing}, Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, Vector{Any}, ReTest.And, Module})()
           @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1151
    Stacktrace:
     [1] sync_end(c::Channel{Any})
       @ Base ./task.jl:630
     [2] put!(c::Channel{Any}, v::Task)
       @ Base ./task.jl:663 [inlined]
     [3] (::ReTest.var"#96#97"{Bool, ReTest.Testset.Format, Bool, Base.RefValue{Int64}, Bool, ReTest.var"#take_latest!#91", Nothing, ReentrantLock, Bool, ReTest.Testset.ReTestSet, Base.Threads.Atomic{Bool}, Base.RefValue{Exception}, Channel{Nothing}, Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, Vector{Any}, ReTest.And, Module})()
       @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1104
in expression starting at /home/pkgeval/.julia/packages/ReTest/3Ikse/src/precompile.jl:19
in expression starting at /home/pkgeval/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1
in expression starting at stdin:5
ERROR: LoadError: Precompiled image Base.PkgId(Base.UUID("e0db7c4e-2690-44b9-bad6-7687da720f89"), "ReTest") not available with flags CacheFlags(; use_pkgimages=false, debug_level=1, check_bounds=1, inline=true, opt_level=0)
Stacktrace:
  [1] error(s::String)
    @ Base ./error.jl:56
  [2] __require_prelocked(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2818
  [3] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:2672
  [4] macro expansion
    @ ./loading.jl:2599 [inlined]
  [5] String(s::Symbol)
    @ Base ./lock.jl:376 [inlined]
  [6] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2563
  [7] require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2539 [inlined]
  [8] eval_import_path(at::Module, from::Nothing, path::Expr, keyword::String)
    @ Base ./module.jl:36 [inlined]
  [9] eval_import_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
 [10] _eval_using(to::Module, path::Expr, flags::UInt8)
    @ Base ./module.jl:137 [inlined]
 [11] top-level scope
    @ ~/.julia/packages/Microbiome/StzgY/src/Microbiome.jl:74
 [12] include(mod::Module, _path::String)
    @ Base ./Base.jl:326
 [13] include_package_for_output(pkg::Base.PkgId, input::String, syntax_version::VersionNumber, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)
    @ Base ./loading.jl:3271
 [14] top-level scope
    @ stdin:5
 [15] eval(m::Module, e::Any)
    @ Core ./boot.jl:517
 [16] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:3113
 [17] materialize(bc::Base.Broadcast.Broadcasted{Base.Broadcast.DefaultArrayStyle{1}, Nothing, Type{Symbol}, Tuple{Vector{SubString{String}}}})
    @ Base.Broadcast ./loading.jl:3123 [inlined]
 [18] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:350
 [19] _start()
    @ Base ./client.jl:593
in expression starting at /home/pkgeval/.julia/packages/Microbiome/StzgY/src/Microbiome.jl:1
in expression starting at stdin:5
ERROR: LoadError: Precompiled image Base.PkgId(Base.UUID("3bd8f0ae-a0f2-5238-a5af-e1b399a4940c"), "Microbiome") not available with flags CacheFlags(; use_pkgimages=false, debug_level=1, check_bounds=1, inline=true, opt_level=0)
Stacktrace:
  [1] error(s::String)
    @ Base ./error.jl:56
  [2] __require_prelocked(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2818
  [3] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:2672
  [4] macro expansion
    @ ./loading.jl:2599 [inlined]
  [5] String(s::Symbol)
    @ Base ./lock.jl:376 [inlined]
  [6] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2563
  [7] require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2539 [inlined]
  [8] eval_import_path(at::Module, from::Nothing, path::Expr, keyword::String)
    @ Base ./module.jl:36 [inlined]
  [9] eval_import_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
 [10] _eval_using(to::Module, path::Expr, flags::UInt8)
    @ Base ./module.jl:137 [inlined]
 [11] top-level scope
    @ ~/.julia/packages/BiobakeryUtils/ypFMk/src/BiobakeryUtils.jl:30
 [12] include(mod::Module, _path::String)
    @ Base ./Base.jl:326
 [13] include_package_for_output(pkg::Base.PkgId, input::String, syntax_version::VersionNumber, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)
    @ Base ./loading.jl:3271
 [14] top-level scope
    @ stdin:5
 [15] eval(m::Module, e::Any)
    @ Core ./boot.jl:517
 [16] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:3113
 [17] materialize(bc::Base.Broadcast.Broadcasted{Base.Broadcast.DefaultArrayStyle{1}, Nothing, Type{Symbol}, Tuple{Vector{SubString{String}}}})
    @ Base.Broadcast ./loading.jl:3123 [inlined]
 [18] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:350
 [19] _start()
    @ Base ./client.jl:593
in expression starting at /home/pkgeval/.julia/packages/BiobakeryUtils/ypFMk/src/BiobakeryUtils.jl:1
in expression starting at stdin:5
  3 dependencies had output during precompilation:
┌ BiobakeryUtils
│  [Output was shown above]
└  
┌ Microbiome
│  ERROR: LoadError: Precompiled image Base.PkgId(Base.UUID("e0db7c4e-2690-44b9-bad6-7687da720f89"), "ReTest") not available with flags CacheFlags(; use_pkgimages=false, debug_level=1, check_bounds=1, inline=true, opt_level=0)
│  Stacktrace:
│    [1] error(s::String)
│      @ Base ./error.jl:56
│    [2] __require_prelocked(pkg::Base.PkgId, env::String)
│      @ Base ./loading.jl:2818
│    [3] _require_prelocked(uuidkey::Base.PkgId, env::String)
│      @ Base ./loading.jl:2672
│    [4] macro expansion
│      @ ./loading.jl:2599 [inlined]
│    [5] String(s::Symbol)
│      @ Base ./lock.jl:376 [inlined]
│    [6] __require(into::Module, mod::Symbol)
│      @ Base ./loading.jl:2563
│    [7] require(into::Module, mod::Symbol)
│      @ Base ./loading.jl:2539 [inlined]
│    [8] eval_import_path(at::Module, from::Nothing, path::Expr, keyword::String)
│      @ Base ./module.jl:36 [inlined]
│    [9] eval_import_path_all(at::Module, path::Expr, keyword::String)
│      @ Base ./module.jl:60
│   [10] _eval_using(to::Module, path::Expr, flags::UInt8)
│      @ Base ./module.jl:137 [inlined]
│   [11] top-level scope
│      @ ~/.julia/packages/Microbiome/StzgY/src/Microbiome.jl:74
│   [12] include(mod::Module, _path::String)
│      @ Base ./Base.jl:326
│   [13] include_package_for_output(pkg::Base.PkgId, input::String, syntax_version::VersionNumber, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)
│      @ Base ./loading.jl:3271
│   [14] top-level scope
│      @ stdin:5
│   [15] eval(m::Module, e::Any)
│      @ Core ./boot.jl:517
│   [16] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
│      @ Base ./loading.jl:3113
│   [17] materialize(bc::Base.Broadcast.Broadcasted{Base.Broadcast.DefaultArrayStyle{1}, Nothing, Type{Symbol}, Tuple{Vector{SubString{String}}}})
│      @ Base.Broadcast ./loading.jl:3123 [inlined]
│   [18] exec_options(opts::Base.JLOptions)
│      @ Base ./client.jl:350
│   [19] _start()
│      @ Base ./client.jl:593
│  in expression starting at /home/pkgeval/.julia/packages/Microbiome/StzgY/src/Microbiome.jl:1
│  in expression starting at stdin:5
└  
┌ ReTest
│  WARNING: Imported binding Test.pop_testset was undeclared at import time during import to Testset.
│  WARNING: Imported binding Test.push_testset was undeclared at import time during import to Testset.
│  ┌ Error: Precompilation failed, this is the captured stdout (114 chars):
│  └ @ ReTest ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:36
│                                     Pass  |  Time / Compile / GC |   Alloc   ΔRSS |
│  ReTest._ReTestPrecompileTests:
│  
│  ┌ Error: And this is the captured stderr (0 chars):
│  └ @ ReTest ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:39
│  
│  ERROR: LoadError: TaskFailedException
│  Stacktrace:
│    [1] maybe_record_enqueued!(t::Task)
│      @ Base ./task.jl:363 [inlined]
│    [2] schedule(t::Task)
│      @ Base ./task.jl:360 [inlined]
│    [3] retest(::Union{Regex, AbstractString, Integer, Module, Symbol, Tuple, ReTest.Pattern, AbstractArray, Pair{Module, <:Union{Regex, AbstractString, Integer, Symbol, Tuple, ReTest.Pattern, AbstractArray}}}, ::Vararg{Union{Regex, AbstractString, Integer, Module, Symbol, Tuple, ReTest.Pattern, AbstractArray, Pair{Module, <:Union{Regex, AbstractString, Integer, Symbol, Tuple, ReTest.Pattern, AbstractArray}}}}; dry::Bool, stats::Bool, shuffle::Bool, group::Bool, verbose::Bool, recursive::Bool, id::Nothing, strict::Bool, dup::Bool, static::Nothing, load::Bool, seed::Bool, marks::Bool, tag::Vector{Symbol}, spin::Bool, clear::Bool)
│      @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1186
│    [4] #137
│      @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:26 [inlined]
│    [5] redirect_stdio(f::ReTest.var"#137#138"; stdin::Nothing, stderr::Pipe, stdout::Pipe)
│      @ Base ./stream.jl:1451
│    [6] macro expansion
│      @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:25 [inlined]
│    [7] macro expansion
│      @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:73 [inlined]
│    [8] macro expansion
│      @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:23 [inlined]
│    [9] macro expansion
│      @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:121 [inlined]
│   [10] top-level scope
│      @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:118
│   [11] include(mapexpr::Function, mod::Module, _path::String)
│      @ Base ./Base.jl:327
│   [12] top-level scope
│      @ ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1751
│   [13] include(mod::Module, _path::String)
│      @ Base ./Base.jl:326
│   [14] include_package_for_output(pkg::Base.PkgId, input::String, syntax_version::VersionNumber, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing)
│      @ Base ./loading.jl:3271
│   [15] top-level scope
│      @ stdin:5
│   [16] eval(m::Module, e::Any)
│      @ Core ./boot.jl:517
│   [17] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
│      @ Base ./loading.jl:3113
│   [18] materialize(bc::Base.Broadcast.Broadcasted{Base.Broadcast.DefaultArrayStyle{1}, Nothing, Type{Symbol}, Tuple{Vector{SubString{String}}}})
│      @ Base.Broadcast ./loading.jl:3123 [inlined]
│   [19] exec_options(opts::Base.JLOptions)
│      @ Base ./client.jl:350
│   [20] _start()
│      @ Base ./client.jl:593
│  
│      nested task error: TaskFailedException
│      
│          nested task error: UndefVarError: `push_testset` not defined in `ReTest.Testset`
│          Suggestion: this global was defined as `Test.push_testset` but not assigned a value.
│          Stacktrace:
│            [1] top-level scope
│              @ ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:517
│            [2] macro expansion
│              @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:12 [inlined]
│            [3] macro expansion
│              @ ~/.julia/packages/ReTest/3Ikse/src/testset.jl:517 [inlined]
│            [4] eval(m::Module, e::Any)
│              @ Core ./boot.jl:517
│            [5] (::ReTest.var"#110#111"{ReTest.Testset.Format})(mod::Module, ts::ReTest.TestsetExpr, pat::ReTest.And, chan::@NamedTuple{out::Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, compute::Channel{Nothing}, preview::Nothing})
│              @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1154
│            [6] #local_remotecall_thunk##0
│              @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:427 [inlined]
│            [7] run_work_thunk(thunk::Distributed.var"#local_remotecall_thunk##0#local_remotecall_thunk##1"{ReTest.var"#110#111"{ReTest.Testset.Format}, Tuple{Module, ReTest.TestsetExpr, ReTest.And, @NamedTuple{out::Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, compute::Channel{Nothing}, preview::Nothing}}, @Kwargs{}}, print_error::Bool)
│              @ Distributed /opt/julia/share/julia/stdlib/v1.14/Distributed/src/process_messages.jl:70
│            [8] remotecall_fetch(::Function, ::Distributed.LocalProcess, ::Module, ::Vararg{Any}; kwargs::@Kwargs{})
│              @ Distributed /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:452
│            [9] remotecall_fetch
│              @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:451 [inlined]
│           [10] remotecall_fetch
│              @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:494 [inlined]
│           [11] (::ReTest.var"#106#107"{Int64, ReTest.Testset.Format, Nothing, ReTest.Testset.ReTestSet, Base.Threads.Atomic{Bool}, Channel{Nothing}, Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, Vector{Any}, ReTest.And, Module})()
│              @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1151
│          Stacktrace:
│           [1] remotecall_fetch(::Function, ::Distributed.LocalProcess, ::Module, ::Vararg{Any}; kwargs::@Kwargs{})
│             @ Distributed /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:453
│           [2] remotecall_fetch
│             @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:451 [inlined]
│           [3] remotecall_fetch
│             @ /opt/julia/share/julia/stdlib/v1.14/Distributed/src/remotecall.jl:494 [inlined]
│           [4] (::ReTest.var"#106#107"{Int64, ReTest.Testset.Format, Nothing, ReTest.Testset.ReTestSet, Base.Threads.Atomic{Bool}, Channel{Nothing}, Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, Vector{Any}, ReTest.And, Module})()
│             @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1151
│      Stacktrace:
│       [1] sync_end(c::Channel{Any})
│         @ Base ./task.jl:630
│       [2] put!(c::Channel{Any}, v::Task)
│         @ Base ./task.jl:663 [inlined]
│       [3] (::ReTest.var"#96#97"{Bool, ReTest.Testset.Format, Bool, Base.RefValue{Int64}, Bool, ReTest.var"#take_latest!#91", Nothing, ReentrantLock, Bool, ReTest.Testset.ReTestSet, Base.Threads.Atomic{Bool}, Base.RefValue{Exception}, Channel{Nothing}, Distributed.RemoteChannel{Channel{Union{Nothing, ReTest.Testset.ReTestSet}}}, Vector{Any}, ReTest.And, Module})()
│         @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1104
│  in expression starting at /home/pkgeval/.julia/packages/ReTest/3Ikse/src/precompile.jl:19
│  in expression starting at /home/pkgeval/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1
│  in expression starting at stdin:5
└  
ERROR: The following 3 packages failed to precompile:

BiobakeryUtils 
Failed to precompile BiobakeryUtils [fa5322f5-bd84-5069-834a-abf3230fb8f8] to "/home/pkgeval/.julia/compiled/v1.14/BiobakeryUtils/jl_rDdWFP" (ProcessExited(1)).

Microbiome 
Failed to precompile Microbiome [3bd8f0ae-a0f2-5238-a5af-e1b399a4940c] to "/home/pkgeval/.julia/compiled/v1.14/Microbiome/jl_SIJsI4" (ProcessExited(1)).

ReTest 
Failed to precompile ReTest [e0db7c4e-2690-44b9-bad6-7687da720f89] to "/home/pkgeval/.julia/compiled/v1.14/ReTest/jl_RaAFgA" (ProcessExited(1)).


Loading failed after 35.42s

ERROR: LoadError: failed process: Process(`/opt/julia/bin/julia -C native -J/opt/julia/lib/julia/sys.so -g1 --check-bounds=yes --inline=yes --check-bounds=yes --pkgimages=existing -e 'using BiobakeryUtils'`, ProcessExited(1)) [1]

Stacktrace:
 [1] spawn_opts_inherit()
   @ Base ./process.jl:612 [inlined]
 [2] run(::Cmd; wait::Bool)
   @ Base ./process.jl:525
 [3] run(::Cmd)
   @ Base ./process.jl:522
 [4] top-level scope
   @ /PkgEval.jl/scripts/evaluate.jl:197
 [5] include(mod::Module, _path::String)
   @ Base ./Base.jl:326
 [6] exec_options(opts::Base.JLOptions)
   @ Base ./client.jl:352
 [7] _start()
   @ Base ./client.jl:593
in expression starting at /PkgEval.jl/scripts/evaluate.jl:188

PkgEval failed after 111.68s: package fails to precompile