Package evaluation to test GCTAccess on Julia 1.14.0-DEV.1299 (6d6224db99*) started at 2025-11-25T17:48:46.025


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

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 11.23s


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

Installing GCTAccess...
   Resolving package versions...
    Updating `~/.julia/environments/v1.14/Project.toml`
  [1826ff36] + GCTAccess v0.1.0
    Updating `~/.julia/environments/v1.14/Manifest.toml`
  [6e4b80f9] + BenchmarkTools v1.6.3
⌅ [336ed68f] + CSV v0.9.11
  [da1fd8a2] + CodeTracking v2.0.2
  [944b1d66] + CodecZlib v0.7.8
  [34da2185] + Compat v4.18.1
  [807dbc54] + Compiler v0.1.1
  [a8cc5b0e] + Crayons v4.1.1
  [9a962f9c] + DataAPI v1.16.0
  [a93c6f00] + DataFrames v1.8.1
  [864edb3b] + DataStructures v0.19.3
  [e2d170a0] + DataValueInterfaces v1.0.0
  [48062228] + FilePathsBase v0.9.24
  [1826ff36] + GCTAccess v0.1.0
  [842dd82b] + InlineStrings v1.4.5
  [41ab1584] + InvertedIndices v1.3.1
  [82899510] + IteratorInterfaceExtensions v1.0.0
  [682c06a0] + JSON v1.3.0
  [aa1ae85d] + JuliaInterpreter v0.10.7
  [b964fa9f] + LaTeXStrings v1.4.0
  [6f1432cf] + LoweredCodeUtils v3.4.4
  [e1d29d7a] + Missings v1.2.0
  [bac558e1] + OrderedCollections v1.8.1
  [69de0a69] + Parsers v2.8.3
  [2dfb63ee] + PooledArrays v1.4.3
  [aea7be01] + PrecompileTools v1.3.3
  [21216c6a] + Preferences v1.5.0
  [08abe8d2] + PrettyTables v3.1.2
  [189a3867] + Reexport v1.2.2
  [ae029012] + Requires v1.3.1
  [295af30f] + Revise v3.12.2
  [91c51154] + SentinelArrays v1.4.8
  [a2af1166] + SortingAlgorithms v1.2.2
  [10745b16] + Statistics v1.11.1
  [892a3eda] + StringManipulation v0.4.2
  [ec057cc2] + StructUtils v2.6.0
  [3783bdb8] + TableTraits v1.0.1
  [bd369af6] + Tables v1.12.1
  [3bb67fe8] + TranscodingStreams v0.11.3
  [ea10d353] + WeakRefStrings v1.4.2
  [56f22d72] + Artifacts v1.11.0
  [2a0f44e3] + Base64 v1.11.0
  [ade2ca70] + Dates v1.11.0
  [7b1f6079] + FileWatching v1.11.0
  [9fa8497b] + Future v1.11.0
  [b77e0a4c] + InteractiveUtils v1.11.0
  [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0
  [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
  [a63ad114] + Mmap v1.11.0
  [ca575930] + NetworkOptions v1.3.0
  [de0858da] + Printf v1.11.0
  [9abbd945] + Profile v1.11.0
  [3fa0cd96] + REPL v1.11.0
  [9a3f8284] + Random v1.11.0
  [ea8e919c] + SHA v1.0.0
  [6462fe0b] + Sockets v1.11.0
  [f489334b] + StyledStrings v1.13.0
  [fa267f1f] + TOML v1.0.3
  [cf7118a7] + UUIDs v1.11.0
  [4ec0a83e] + Unicode v1.11.0
  [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1
  [e37daf67] + LibGit2_jll v1.9.1+0
  [29816b5a] + LibSSH2_jll v1.11.3+1
  [4536629a] + OpenBLAS_jll v0.3.29+0
  [458c3c95] + OpenSSL_jll v3.5.4+0
  [efcefdf7] + PCRE2_jll v10.47.0+0
  [83775a58] + Zlib_jll v1.3.1+2
  [8e850b90] + libblastrampoline_jll v5.15.0+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 4.81s


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

Precompiling PkgEval dependencies...

┌ Error: Failed to use TestEnv.jl; test dependencies will not be precompiled
│   exception =
│    UndefVarError: `project_rel_path` not defined in `TestEnv`
│    Suggestion: this global was defined as `Pkg.Operations.project_rel_path` but not assigned a value.
│    Stacktrace:
│     [1] get_test_dir(ctx::Pkg.Types.Context, pkgspec::PackageSpec)
│       @ TestEnv ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:75
│     [2] test_dir_has_project_file
│       @ ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:52 [inlined]
│     [3] maybe_gen_project_override!
│       @ ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/common.jl:83 [inlined]
│     [4] activate(pkg::String; allow_reresolve::Bool)
│       @ TestEnv ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/activate_set.jl:12
│     [5] activate(pkg::String)
│       @ TestEnv ~/.julia/packages/TestEnv/i9lgt/src/julia-1.11/activate_set.jl:9
│     [6] top-level scope
│       @ /PkgEval.jl/scripts/precompile.jl:24
│     [7] include(mod::Module, _path::String)
│       @ Base ./Base.jl:309
│     [8] exec_options(opts::Base.JLOptions)
│       @ Base ./client.jl:344
│     [9] _start()
│       @ Base ./client.jl:577
└ @ Main /PkgEval.jl/scripts/precompile.jl:26
Precompiling package dependencies...
Precompiling packages...
  14902.7 ms  ✓ CSV
ERROR: LoadError: InitError: TypeError: in typeassert, expected Tuple{Vector{UInt8}, Int64, Int64, Union{Nothing, String}}, got a value of type Nothing
Stacktrace:
  [1] getsource(x::Any, buffer_in_memory::Bool)
    @ CSV ~/.julia/packages/CSV/9LsxT/src/utils.jl:295
  [2] macro expansion
    @ ~/.julia/packages/CSV/9LsxT/src/context.jl:324 [inlined]
  [3] Context
    @ ./none:0 [inlined]
  [4] CSV.Context(source::CSV.Arg, header::CSV.Arg, normalizenames::CSV.Arg, datarow::CSV.Arg, skipto::CSV.Arg, footerskip::CSV.Arg, transpose::CSV.Arg, comment::CSV.Arg, ignoreemptyrows::CSV.Arg, ignoreemptylines::CSV.Arg, select::CSV.Arg, drop::CSV.Arg, limit::CSV.Arg, buffer_in_memory::CSV.Arg, threaded::CSV.Arg, ntasks::CSV.Arg, tasks::CSV.Arg, rows_to_check::CSV.Arg, lines_to_check::CSV.Arg, missingstrings::CSV.Arg, missingstring::CSV.Arg, delim::CSV.Arg, ignorerepeated::CSV.Arg, quoted::CSV.Arg, quotechar::CSV.Arg, openquotechar::CSV.Arg, closequotechar::CSV.Arg, escapechar::CSV.Arg, dateformat::CSV.Arg, dateformats::CSV.Arg, decimal::CSV.Arg, truestrings::CSV.Arg, falsestrings::CSV.Arg, type::CSV.Arg, types::CSV.Arg, typemap::CSV.Arg, pool::CSV.Arg, downcast::CSV.Arg, lazystrings::CSV.Arg, stringtype::CSV.Arg, strict::CSV.Arg, silencewarnings::CSV.Arg, maxwarnings::CSV.Arg, debug::CSV.Arg, parsingdebug::CSV.Arg, validate::CSV.Arg, streaming::CSV.Arg)
    @ CSV ~/.julia/packages/CSV/9LsxT/src/context.jl:0
  [5] CSV.Context(source::IOBuffer; header::Int64, normalizenames::Bool, datarow::Int64, skipto::Int64, footerskip::Int64, transpose::Bool, comment::Nothing, ignoreemptyrows::Bool, ignoreemptylines::Nothing, select::Nothing, drop::Nothing, limit::Nothing, buffer_in_memory::Bool, threaded::Nothing, ntasks::Nothing, tasks::Nothing, rows_to_check::Int64, lines_to_check::Nothing, missingstrings::Vector{String}, missingstring::String, delim::Nothing, ignorerepeated::Bool, quoted::Bool, quotechar::Char, openquotechar::Nothing, closequotechar::Nothing, escapechar::Char, dateformat::Nothing, dateformats::Nothing, decimal::UInt8, truestrings::Vector{String}, falsestrings::Vector{String}, type::Nothing, types::Nothing, typemap::Dict{Type, Type}, pool::Float64, downcast::Bool, lazystrings::Bool, stringtype::Type{InlineStrings.InlineString}, strict::Bool, silencewarnings::Bool, maxwarnings::Int64, debug::Bool, parsingdebug::Bool, validate::Bool)
    @ CSV ~/.julia/packages/CSV/9LsxT/src/context.jl:199
  [6] CSV.Context(source::IOBuffer)
    @ CSV ~/.julia/packages/CSV/9LsxT/src/context.jl:147
  [7] __init__()
    @ CSV ~/.julia/packages/CSV/9LsxT/src/CSV.jl:98
  [8] run_module_init(mod::Module, i::Int64)
    @ Base ./loading.jl:1467
  [9] register_restored_modules(sv::Core.SimpleVector, pkg::Base.PkgId, path::String)
    @ Base ./loading.jl:1455
 [10] _include_from_serialized(pkg::Base.PkgId, path::String, ocachepath::Nothing, depmods::Vector{Any}; register::Bool)
    @ Base ./loading.jl:1343
 [11] _include_from_serialized
    @ ./loading.jl:1300 [inlined]
 [12] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String, build_id::UInt128, stalecheck::Bool; reasons::Dict{String, Int64}, DEPOT_PATH::Vector{String})
    @ Base ./loading.jl:2175
 [13] _require_search_from_serialized
    @ ./loading.jl:2069 [inlined]
 [14] __require_prelocked(pkg::Base.PkgId, env::String)
    @ Base ./loading.jl:2719
 [15] _require_prelocked(uuidkey::Base.PkgId, env::String)
    @ Base ./loading.jl:2585
 [16] macro expansion
    @ ./loading.jl:2513 [inlined]
 [17] macro expansion
    @ ./lock.jl:376 [inlined]
 [18] __require(into::Module, mod::Symbol)
    @ Base ./loading.jl:2477
 [19] require
    @ ./loading.jl:2453 [inlined]
 [20] eval_import_path
    @ ./module.jl:36 [inlined]
 [21] eval_import_path_all(at::Module, path::Expr, keyword::String)
    @ Base ./module.jl:60
 [22] _eval_import(::Bool, ::Module, ::Expr, ::Expr, ::Vararg{Expr})
    @ Base ./module.jl:101
 [23] top-level scope
    @ ~/.julia/packages/GCTAccess/gI3F5/src/read.jl:1
 [24] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:310
 [25] top-level scope
    @ ~/.julia/packages/GCTAccess/gI3F5/src/GCTAccess.jl:3
 [26] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [27] include_package_for_output(pkg::Base.PkgId, input::String, 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:3157
 [28] top-level scope
    @ stdin:5
 [29] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [30] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:3003
 [31] include_string
    @ ./loading.jl:3013 [inlined]
 [32] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:342
 [33] _start()
    @ Base ./client.jl:577
during initialization of module CSV
in expression starting at /home/pkgeval/.julia/packages/GCTAccess/gI3F5/src/read.jl:1
in expression starting at /home/pkgeval/.julia/packages/GCTAccess/gI3F5/src/GCTAccess.jl:1
in expression starting at stdin:5

Precompilation completed after 40.96s


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

     Testing GCTAccess
      Status `/tmp/jl_jo6F0k/Project.toml`
  [6e4b80f9] BenchmarkTools v1.6.3
⌅ [336ed68f] CSV v0.9.11
  [a93c6f00] DataFrames v1.8.1
  [1826ff36] GCTAccess v0.1.0
  [295af30f] Revise v3.12.2
      Status `/tmp/jl_jo6F0k/Manifest.toml`
  [6e4b80f9] BenchmarkTools v1.6.3
⌅ [336ed68f] CSV v0.9.11
  [da1fd8a2] CodeTracking v2.0.2
  [944b1d66] CodecZlib v0.7.8
  [34da2185] Compat v4.18.1
  [807dbc54] Compiler v0.1.1
  [a8cc5b0e] Crayons v4.1.1
  [9a962f9c] DataAPI v1.16.0
  [a93c6f00] DataFrames v1.8.1
  [864edb3b] DataStructures v0.19.3
  [e2d170a0] DataValueInterfaces v1.0.0
  [48062228] FilePathsBase v0.9.24
  [1826ff36] GCTAccess v0.1.0
  [842dd82b] InlineStrings v1.4.5
  [41ab1584] InvertedIndices v1.3.1
  [82899510] IteratorInterfaceExtensions v1.0.0
  [682c06a0] JSON v1.3.0
  [aa1ae85d] JuliaInterpreter v0.10.7
  [b964fa9f] LaTeXStrings v1.4.0
  [6f1432cf] LoweredCodeUtils v3.4.4
  [e1d29d7a] Missings v1.2.0
  [bac558e1] OrderedCollections v1.8.1
  [69de0a69] Parsers v2.8.3
  [2dfb63ee] PooledArrays v1.4.3
  [aea7be01] PrecompileTools v1.3.3
  [21216c6a] Preferences v1.5.0
  [08abe8d2] PrettyTables v3.1.2
  [189a3867] Reexport v1.2.2
  [ae029012] Requires v1.3.1
  [295af30f] Revise v3.12.2
  [91c51154] SentinelArrays v1.4.8
  [a2af1166] SortingAlgorithms v1.2.2
  [10745b16] Statistics v1.11.1
  [892a3eda] StringManipulation v0.4.2
  [ec057cc2] StructUtils v2.6.0
  [3783bdb8] TableTraits v1.0.1
  [bd369af6] Tables v1.12.1
  [3bb67fe8] TranscodingStreams v0.11.3
  [ea10d353] WeakRefStrings v1.4.2
  [56f22d72] Artifacts v1.11.0
  [2a0f44e3] Base64 v1.11.0
  [ade2ca70] Dates v1.11.0
  [7b1f6079] FileWatching v1.11.0
  [9fa8497b] Future v1.11.0
  [b77e0a4c] InteractiveUtils v1.11.0
  [ac6e5ff7] JuliaSyntaxHighlighting v1.12.0
  [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
  [a63ad114] Mmap v1.11.0
  [ca575930] NetworkOptions v1.3.0
  [de0858da] Printf v1.11.0
  [9abbd945] Profile v1.11.0
  [3fa0cd96] REPL v1.11.0
  [9a3f8284] Random v1.11.0
  [ea8e919c] SHA v1.0.0
  [6462fe0b] Sockets v1.11.0
  [f489334b] StyledStrings v1.13.0
  [fa267f1f] TOML v1.0.3
  [cf7118a7] UUIDs v1.11.0
  [4ec0a83e] Unicode v1.11.0
  [e66e0078] CompilerSupportLibraries_jll v1.3.0+1
  [e37daf67] LibGit2_jll v1.9.1+0
  [29816b5a] LibSSH2_jll v1.11.3+1
  [4536629a] OpenBLAS_jll v0.3.29+0
  [458c3c95] OpenSSL_jll v3.5.4+0
  [efcefdf7] PCRE2_jll v10.47.0+0
  [83775a58] Zlib_jll v1.3.1+2
  [8e850b90] libblastrampoline_jll v5.15.0+0
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading.
     Testing Running tests...
ERROR: LoadError: IOError: mkdir("/home/pkgeval/Downloads/GCTAccess.test/"; mode=0o777): no such file or directory (ENOENT)
Stacktrace:
  [1] _uv_error(prefix::String, c::Int32)
    @ Base ./libuv.jl:114
  [2] uv_error
    @ ./libuv.jl:113 [inlined]
  [3] mkdir(path::String; mode::UInt16)
    @ Base.Filesystem ./file.jl:185
  [4] mkdir(path::String)
    @ Base.Filesystem ./file.jl:177
  [5] top-level scope
    @ ~/.julia/packages/GCTAccess/gI3F5/test/runtests.jl:9
  [6] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:310
  [7] top-level scope
    @ none:6
  [8] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
  [9] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:310
 [10] _start()
    @ Base ./client.jl:577
in expression starting at /home/pkgeval/.julia/packages/GCTAccess/gI3F5/test/runtests.jl:9

Testing failed after 15.57s

ERROR: LoadError: Package GCTAccess errored during testing
Stacktrace:
  [1] pkgerror(msg::String)
    @ Pkg.Types /opt/julia/share/julia/stdlib/v1.14/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/v1.14/Pkg/src/Operations.jl:2946
  [3] test
    @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/Operations.jl:2795 [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/v1.14/Pkg/src/API.jl:572
  [5] kwcall(::@NamedTuple{julia_args::Cmd, io::IOContext{IO}}, ::typeof(Pkg.API.test), ctx::Pkg.Types.Context, pkgs::Vector{PackageSpec})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:548
  [6] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:172
  [7] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:161
  [8] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160
  [9] test
    @ /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:160 [inlined]
 [10] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String)
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.14/Pkg/src/API.jl:159
 [11] top-level scope
    @ /PkgEval.jl/scripts/evaluate.jl:219
 [12] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [13] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:344
 [14] _start()
    @ Base ./client.jl:577
in expression starting at /PkgEval.jl/scripts/evaluate.jl:210

PkgEval failed after 93.04s: package tests unexpectedly errored