Package evaluation of MicrobiomeAnalysis on Julia 1.13.0-DEV.1080 (ed57414aec*) started at 2025-09-05T02:33:20.909 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 9.93s ################################################################################ # Installation # Installing MicrobiomeAnalysis... Resolving package versions... Updating `~/.julia/environments/v1.13/Project.toml` [09137a06] + MicrobiomeAnalysis v0.4.0 Updating `~/.julia/environments/v1.13/Manifest.toml` [621f4979] + AbstractFFTs v1.5.0 [7d9fca2a] + Arpack v0.5.4 [d1d4a3ce] + BitFlags v0.1.9 [336ed68f] + CSV v0.10.15 [944b1d66] + CodecZlib v0.7.8 [35d6a980] + ColorSchemes v3.30.0 [3da002f7] + ColorTypes v0.12.1 [c3611d14] + ColorVectorSpace v0.11.0 [5ae59095] + Colors v0.13.1 [34da2185] + Compat v4.18.0 [f0e56b4a] + ConcurrentUtilities v2.5.0 [d38c429a] + Contour v0.6.3 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.7.1 ⌅ [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 ⌅ [85a47980] + Dictionaries v0.3.29 [b4f34e82] + Distances v0.10.12 [ffbed154] + DocStringExtensions v0.9.5 [a58aae7d] + EcoBase v0.1.7 [460bff9d] + ExceptionUnwrapping v0.1.11 [c87230d0] + FFMPEG v0.4.4 [7a1cc6ca] + FFTW v1.9.0 [1746e360] + FdeSolver v1.0.9 [48062228] + 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To see why use `status --outdated -m` Installation completed after 6.17s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... ERROR: LoadError: The following 2 direct dependencies failed to precompile: Microbiome Failed to precompile Microbiome [3bd8f0ae-a0f2-5238-a5af-e1b399a4940c] to "/home/pkgeval/.julia/compiled/v1.13/Microbiome/jl_nxQS8d" (ProcessExited(1)). 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] #wait#585 @ ./task.jl:363 [inlined] [2] wait @ ./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] kwcall(::@NamedTuple{recursive::Bool, stats::Bool, spin::Bool}, ::typeof(InlineTest.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}}}}) @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:750 [5] #137 @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:26 [inlined] [6] redirect_stdio(f::ReTest.var"#137#138"; stdin::Nothing, stderr::Pipe, stdout::Pipe) @ Base ./stream.jl:1443 [7] kwcall(::@NamedTuple{stderr::Pipe, stdout::Pipe}, ::typeof(redirect_stdio), f::Function) @ Base ./stream.jl:1406 [8] macro expansion @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:25 [inlined] [9] macro expansion @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:73 [inlined] [10] macro expansion @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:23 [inlined] [11] macro expansion @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:121 [inlined] [12] top-level scope @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:118 [13] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [14] top-level scope @ ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1751 [15] include(mod::Module, _path::String) @ Base ./Base.jl:308 [16] 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::String) @ Base ./loading.jl:3019 [17] top-level scope @ stdin:5 [18] eval(m::Module, e::Any) @ Core ./boot.jl:489 [19] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2865 [20] include_string @ ./loading.jl:2875 [inlined] [21] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [22] _start() @ Base ./client.jl:563 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:489 [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/v1.13/Distributed/src/remotecall.jl:425 [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/v1.13/Distributed/src/process_messages.jl:70 [8] remotecall_fetch(::Function, ::Distributed.LocalProcess, ::Module, ::Vararg{Any}; kwargs::@Kwargs{}) @ Distributed /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:450 [9] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:449 [inlined] [10] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:492 [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/v1.13/Distributed/src/remotecall.jl:451 [2] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:449 [inlined] [3] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:492 [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:601 [2] macro expansion @ ./task.jl:634 [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: Failed to precompile ReTest [e0db7c4e-2690-44b9-bad6-7687da720f89] to "/home/pkgeval/.julia/compiled/v1.13/ReTest/jl_rbrd9c" (ProcessExited(1)). Stacktrace: [1] error(s::String) @ Base ./error.jl:44 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing) @ Base ./loading.jl:3306 [3] kwcall(::@NamedTuple{reasons::Dict{String, Int64}, loadable_exts::Nothing}, ::typeof(Base.compilecache), pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool) @ Base ./loading.jl:3184 [4] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})() @ Base ./loading.jl:2670 [5] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94 [6] #mkpidlock#7 @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined] [7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115 [8] #invokelatest_gr#234 @ ./reflection.jl:1335 [inlined] [9] invokelatest_gr @ ./reflection.jl:1327 [inlined] [10] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, pkg::Base.PkgId, srcpath::String; stale_age::Int64) @ Base ./loading.jl:3877 [11] maybe_cachefile_lock @ ./loading.jl:3874 [inlined] [12] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2656 [13] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2484 [14] macro expansion @ ./loading.jl:2412 [inlined] [15] macro expansion @ ./lock.jl:376 [inlined] [16] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2376 [17] require @ ./loading.jl:2352 [inlined] [18] eval_import_path @ ./module.jl:36 [inlined] [19] eval_import_path_all(at::Module, path::Expr, keyword::String) @ Base ./module.jl:60 [20] _eval_using(to::Module, path::Expr) @ Base ./module.jl:137 [21] top-level scope @ ~/.julia/packages/Microbiome/BvZqT/src/Microbiome.jl:74 [22] include(mod::Module, _path::String) @ Base ./Base.jl:308 [23] 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:3019 [24] top-level scope @ stdin:5 [25] eval(m::Module, e::Any) @ Core ./boot.jl:489 [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2865 [27] include_string @ ./loading.jl:2875 [inlined] [28] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [29] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/Microbiome/BvZqT/src/Microbiome.jl:1 in expression starting at stdin:5 MicrobiomeAnalysis Failed to precompile MicrobiomeAnalysis [09137a06-29c6-4e66-9476-ab7e4b8c7492] to "/home/pkgeval/.julia/compiled/v1.13/MicrobiomeAnalysis/jl_PCAwQh" (ProcessExited(1)). 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] #wait#585 @ ./task.jl:363 [inlined] [2] wait @ ./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] kwcall(::@NamedTuple{recursive::Bool, stats::Bool, spin::Bool}, ::typeof(InlineTest.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}}}}) @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:750 [5] #137 @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:26 [inlined] [6] redirect_stdio(f::ReTest.var"#137#138"; stdin::Nothing, stderr::Pipe, stdout::Pipe) @ Base ./stream.jl:1443 [7] kwcall(::@NamedTuple{stderr::Pipe, stdout::Pipe}, ::typeof(redirect_stdio), f::Function) @ Base ./stream.jl:1406 [8] macro expansion @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:25 [inlined] [9] macro expansion @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:73 [inlined] [10] macro expansion @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:23 [inlined] [11] macro expansion @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:121 [inlined] [12] top-level scope @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:118 [13] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [14] top-level scope @ ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1751 [15] include(mod::Module, _path::String) @ Base ./Base.jl:308 [16] 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::String) @ Base ./loading.jl:3019 [17] top-level scope @ stdin:5 [18] eval(m::Module, e::Any) @ Core ./boot.jl:489 [19] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2865 [20] include_string @ ./loading.jl:2875 [inlined] [21] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [22] _start() @ Base ./client.jl:563 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:489 [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/v1.13/Distributed/src/remotecall.jl:425 [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/v1.13/Distributed/src/process_messages.jl:70 [8] remotecall_fetch(::Function, ::Distributed.LocalProcess, ::Module, ::Vararg{Any}; kwargs::@Kwargs{}) @ Distributed /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:450 [9] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:449 [inlined] [10] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:492 [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/v1.13/Distributed/src/remotecall.jl:451 [2] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:449 [inlined] [3] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:492 [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:601 [2] macro expansion @ ./task.jl:634 [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: Failed to precompile ReTest [e0db7c4e-2690-44b9-bad6-7687da720f89] to "/home/pkgeval/.julia/compiled/v1.13/ReTest/jl_RnBsdZ" (ProcessExited(1)). Stacktrace: [1] error(s::String) @ Base ./error.jl:44 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing) @ Base ./loading.jl:3306 [3] kwcall(::@NamedTuple{reasons::Dict{String, Int64}, loadable_exts::Nothing}, ::typeof(Base.compilecache), pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool) @ Base ./loading.jl:3184 [4] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})() @ Base ./loading.jl:2670 [5] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94 [6] #mkpidlock#7 @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined] [7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115 [8] #invokelatest_gr#234 @ ./reflection.jl:1335 [inlined] [9] invokelatest_gr @ ./reflection.jl:1327 [inlined] [10] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, pkg::Base.PkgId, srcpath::String; stale_age::Int64) @ Base ./loading.jl:3877 [11] maybe_cachefile_lock @ ./loading.jl:3874 [inlined] [12] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2656 [13] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2484 [14] macro expansion @ ./loading.jl:2412 [inlined] [15] macro expansion @ ./lock.jl:376 [inlined] [16] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2376 [17] require @ ./loading.jl:2352 [inlined] [18] eval_import_path @ ./module.jl:36 [inlined] [19] eval_import_path_all(at::Module, path::Expr, keyword::String) @ Base ./module.jl:60 [20] _eval_using(to::Module, path::Expr) @ Base ./module.jl:137 [21] top-level scope @ ~/.julia/packages/Microbiome/BvZqT/src/Microbiome.jl:74 [22] include(mod::Module, _path::String) @ Base ./Base.jl:308 [23] 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::String) @ Base ./loading.jl:3019 [24] top-level scope @ stdin:5 [25] eval(m::Module, e::Any) @ Core ./boot.jl:489 [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2865 [27] include_string @ ./loading.jl:2875 [inlined] [28] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [29] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/Microbiome/BvZqT/src/Microbiome.jl:1 in expression starting at stdin:5 ERROR: LoadError: Failed to precompile Microbiome [3bd8f0ae-a0f2-5238-a5af-e1b399a4940c] to "/home/pkgeval/.julia/compiled/v1.13/Microbiome/jl_IgbUp6" (ProcessExited(1)). Stacktrace: [1] error(s::String) @ Base ./error.jl:44 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing) @ Base ./loading.jl:3306 [3] kwcall(::@NamedTuple{reasons::Dict{String, Int64}, loadable_exts::Nothing}, ::typeof(Base.compilecache), pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool) @ Base ./loading.jl:3184 [4] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})() @ Base ./loading.jl:2670 [5] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94 [6] #mkpidlock#7 @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined] [7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115 [8] #invokelatest_gr#234 @ ./reflection.jl:1335 [inlined] [9] invokelatest_gr @ ./reflection.jl:1327 [inlined] [10] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, pkg::Base.PkgId, srcpath::String; stale_age::Int64) @ Base ./loading.jl:3877 [11] maybe_cachefile_lock @ ./loading.jl:3874 [inlined] [12] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2656 [13] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2484 [14] macro expansion @ ./loading.jl:2412 [inlined] [15] macro expansion @ ./lock.jl:376 [inlined] [16] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2376 [17] require @ ./loading.jl:2352 [inlined] [18] eval_import_path @ ./module.jl:36 [inlined] [19] eval_import_path_all(at::Module, path::Expr, keyword::String) @ Base ./module.jl:60 [20] _eval_import(::Bool, ::Module, ::Expr, ::Expr, ::Vararg{Expr}) @ Base ./module.jl:101 [21] top-level scope @ ~/.julia/packages/MicrobiomeAnalysis/fZGRE/src/MicrobiomeAnalysis.jl:10 [22] include(mod::Module, _path::String) @ Base ./Base.jl:308 [23] 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:3019 [24] top-level scope @ stdin:5 [25] eval(m::Module, e::Any) @ Core ./boot.jl:489 [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2865 [27] include_string @ ./loading.jl:2875 [inlined] [28] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [29] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/MicrobiomeAnalysis/fZGRE/src/MicrobiomeAnalysis.jl:1 in expression starting at stdin:5 in expression starting at /PkgEval.jl/scripts/precompile.jl:37 Precompilation failed after 245.03s ################################################################################ # Testing # Testing MicrobiomeAnalysis Status `/tmp/jl_eFn16b/Project.toml` [336ed68f] CSV v0.10.15 [a93c6f00] DataFrames v1.7.1 ⌅ [864edb3b] DataStructures v0.18.22 [b4f34e82] Distances v0.10.12 [1746e360] FdeSolver v1.0.9 ⌅ [3bd8f0ae] Microbiome v0.9.4 [09137a06] MicrobiomeAnalysis v0.4.0 [c9137f73] MultiAssayExperiments v0.2.0 ⌅ [6f286f6a] MultivariateStats v0.9.0 [91a5bcdd] Plots v1.40.19 [189a3867] Reexport v1.2.2 [1bc83da4] SafeTestsets v0.1.0 [10745b16] Statistics v1.11.1 [b04b66ec] SummarizedExperiments v0.2.0 [9a3f8284] Random v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_eFn16b/Manifest.toml` [621f4979] AbstractFFTs v1.5.0 [7d9fca2a] Arpack v0.5.4 [d1d4a3ce] BitFlags v0.1.9 [336ed68f] CSV v0.10.15 [944b1d66] CodecZlib v0.7.8 [35d6a980] ColorSchemes v3.30.0 [3da002f7] ColorTypes v0.12.1 [c3611d14] ColorVectorSpace v0.11.0 [5ae59095] Colors v0.13.1 [34da2185] Compat v4.18.0 [f0e56b4a] ConcurrentUtilities v2.5.0 [d38c429a] Contour v0.6.3 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.7.1 ⌅ [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 ⌅ [85a47980] Dictionaries v0.3.29 [b4f34e82] Distances v0.10.12 [ffbed154] DocStringExtensions v0.9.5 [a58aae7d] EcoBase v0.1.7 [460bff9d] ExceptionUnwrapping v0.1.11 [c87230d0] FFMPEG v0.4.4 [7a1cc6ca] FFTW v1.9.0 [1746e360] FdeSolver v1.0.9 [48062228] FilePathsBase v0.9.24 [53c48c17] FixedPointNumbers v0.8.5 [1fa38f19] Format v1.3.7 [28b8d3ca] GR v0.73.17 [42e2da0e] Grisu v1.0.2 [cd3eb016] HTTP v1.10.17 [313cdc1a] Indexing v1.1.1 [842dd82b] InlineStrings v1.4.5 [bd334432] InlineTest v0.2.0 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.4 [82899510] IteratorInterfaceExtensions v1.0.0 [1019f520] JLFzf v0.1.11 [692b3bcd] JLLWrappers v1.7.1 [682c06a0] JSON v0.21.4 [b964fa9f] LaTeXStrings v1.4.0 [23fbe1c1] Latexify v0.16.9 [2ab3a3ac] LogExpFunctions v0.3.29 [e6f89c97] LoggingExtras v1.1.0 [1914dd2f] MacroTools v0.5.16 [739be429] MbedTLS v1.1.9 [442fdcdd] Measures v0.3.2 ⌅ [3bd8f0ae] Microbiome v0.9.4 [09137a06] MicrobiomeAnalysis v0.4.0 [e1d29d7a] Missings v1.2.0 [c9137f73] MultiAssayExperiments v0.2.0 ⌅ [6f286f6a] MultivariateStats v0.9.0 [77ba4419] NaNMath v1.1.3 [4d8831e6] OpenSSL v1.5.0 [bac558e1] OrderedCollections v1.8.1 [69de0a69] Parsers v2.8.3 [ccf2f8ad] PlotThemes v3.3.0 [995b91a9] PlotUtils v1.4.3 [91a5bcdd] Plots v1.40.19 [2dfb63ee] PooledArrays v1.4.3 [aea7be01] PrecompileTools v1.3.3 [21216c6a] Preferences v1.5.0 ⌅ [08abe8d2] PrettyTables v2.4.0 [e0db7c4e] ReTest v0.3.4 [3cdcf5f2] RecipesBase v1.3.4 [01d81517] RecipesPipeline v0.6.12 [189a3867] Reexport v1.2.2 [05181044] RelocatableFolders v1.0.1 [ae029012] Requires v1.3.1 [1bc83da4] SafeTestsets v0.1.0 [6c6a2e73] Scratch v1.3.0 [91c51154] SentinelArrays v1.4.8 [992d4aef] Showoff v1.0.3 [777ac1f9] SimpleBufferStream v1.2.0 [a2af1166] SortingAlgorithms v1.2.2 [276daf66] SpecialFunctions v2.5.1 [860ef19b] StableRNGs v1.0.3 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.1 ⌅ [2913bbd2] StatsBase v0.33.21 [892a3eda] StringManipulation v0.4.1 [b04b66ec] SummarizedExperiments v0.2.0 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [62fd8b95] TensorCore v0.1.1 [3bb67fe8] TranscodingStreams v0.11.3 [5c2747f8] URIs v1.6.1 [1cfade01] UnicodeFun v0.4.1 [1986cc42] Unitful v1.24.0 [45397f5d] UnitfulLatexify v1.7.0 [41fe7b60] Unzip v0.2.0 [ea10d353] WeakRefStrings v1.4.2 [76eceee3] WorkerUtilities v1.6.1 ⌅ [68821587] Arpack_jll v3.5.1+1 [6e34b625] Bzip2_jll v1.0.9+0 [83423d85] Cairo_jll v1.18.5+0 [ee1fde0b] Dbus_jll v1.16.2+0 [2702e6a9] EpollShim_jll v0.0.20230411+1 [2e619515] Expat_jll v2.7.1+0 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v6.8.2+1 [629bc702] Qt6Declarative_jll v6.8.2+1 [ce943373] Qt6ShaderTools_jll v6.8.2+1 [e99dba38] Qt6Wayland_jll v6.8.2+1 [a44049a8] Vulkan_Loader_jll v1.3.243+0 [a2964d1f] Wayland_jll v1.24.0+0 [ffd25f8a] XZ_jll v5.8.1+0 [f67eecfb] Xorg_libICE_jll v1.1.2+0 [c834827a] Xorg_libSM_jll v1.2.6+0 [4f6342f7] Xorg_libX11_jll v1.8.12+0 [0c0b7dd1] Xorg_libXau_jll v1.0.13+0 [935fb764] Xorg_libXcursor_jll v1.2.4+0 [a3789734] Xorg_libXdmcp_jll v1.1.6+0 [1082639a] Xorg_libXext_jll v1.3.7+0 [d091e8ba] Xorg_libXfixes_jll v6.0.1+0 [a51aa0fd] Xorg_libXi_jll v1.8.3+0 [d1454406] Xorg_libXinerama_jll v1.1.6+0 [ec84b674] Xorg_libXrandr_jll v1.5.5+0 [ea2f1a96] Xorg_libXrender_jll v0.9.12+0 [c7cfdc94] Xorg_libxcb_jll v1.17.1+0 [cc61e674] Xorg_libxkbfile_jll v1.1.3+0 [e920d4aa] Xorg_xcb_util_cursor_jll v0.1.5+0 [12413925] Xorg_xcb_util_image_jll v0.4.1+0 [2def613f] Xorg_xcb_util_jll v0.4.1+0 [975044d2] Xorg_xcb_util_keysyms_jll v0.4.1+0 [0d47668e] Xorg_xcb_util_renderutil_jll v0.3.10+0 [c22f9ab0] Xorg_xcb_util_wm_jll v0.4.2+0 [35661453] Xorg_xkbcomp_jll v1.4.7+0 [33bec58e] Xorg_xkeyboard_config_jll v2.44.0+0 [c5fb5394] Xorg_xtrans_jll v1.6.0+0 [35ca27e7] eudev_jll v3.2.14+0 [214eeab7] fzf_jll v0.61.1+0 [a4ae2306] libaom_jll v3.12.1+0 [0ac62f75] libass_jll v0.17.4+0 [1183f4f0] libdecor_jll v0.2.2+0 [2db6ffa8] libevdev_jll v1.13.4+0 [f638f0a6] libfdk_aac_jll v2.0.4+0 [36db933b] libinput_jll v1.28.1+0 [b53b4c65] libpng_jll v1.6.50+0 [f27f6e37] libvorbis_jll v1.3.8+0 [009596ad] mtdev_jll v1.1.7+0 [1317d2d5] oneTBB_jll v2022.0.0+0 [1270edf5] x264_jll v10164.0.1+0 [dfaa095f] x265_jll v4.1.0+0 [d8fb68d0] xkbcommon_jll v1.9.2+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 v1.12.0 [4af54fe1] LazyArtifacts v1.11.0 [b27032c2] LibCURL v0.6.4 [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 [44cfe95a] Pkg v1.13.0 [de0858da] Printf v1.11.0 [3fa0cd96] REPL v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.13.0 [f489334b] StyledStrings 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 v1.3.0+1 [deac9b47] LibCURL_jll v8.15.0+1 [e37daf67] LibGit2_jll v1.9.1+0 [29816b5a] LibSSH2_jll v1.11.3+1 [14a3606d] MozillaCACerts_jll v2025.8.12 [4536629a] OpenBLAS_jll v0.3.29+0 [05823500] OpenLibm_jll v0.8.7+0 [458c3c95] OpenSSL_jll v3.5.2+0 [efcefdf7] PCRE2_jll v10.46.0+0 [bea87d4a] SuiteSparse_jll v7.10.1+0 [83775a58] Zlib_jll v1.3.1+2 [3161d3a3] Zstd_jll v1.5.7+1 [8e850b90] libblastrampoline_jll v5.13.1+0 [8e850ede] nghttp2_jll v1.67.0+0 [3f19e933] p7zip_jll v17.6.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... Precompiling packages... ✗ ReTest ✗ Microbiome Info Given MicrobiomeAnalysis was explicitly requested, output will be shown live  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] #wait#585  @ ./task.jl:363 [inlined]  [2] wait  @ ./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] kwcall(::@NamedTuple{recursive::Bool, stats::Bool, spin::Bool}, ::typeof(InlineTest.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}}}})  @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:750  [5] #137  @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:26 [inlined]  [6] redirect_stdio(f::ReTest.var"#137#138"; stdin::Nothing, stderr::Pipe, stdout::Pipe)  @ Base ./stream.jl:1443  [7] kwcall(::@NamedTuple{stderr::Pipe, stdout::Pipe}, ::typeof(redirect_stdio), f::Function)  @ Base ./stream.jl:1406  [8] macro expansion  @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:25 [inlined]  [9] macro expansion  @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:73 [inlined]  [10] macro expansion  @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:23 [inlined]  [11] macro expansion  @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:121 [inlined]  [12] top-level scope  @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:118  [13] include(mapexpr::Function, mod::Module, _path::String)  @ Base ./Base.jl:309  [14] top-level scope  @ ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1751  [15] include(mod::Module, _path::String)  @ Base ./Base.jl:308  [16] 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::String)  @ Base ./loading.jl:3019  [17] top-level scope  @ stdin:5  [18] eval(m::Module, e::Any)  @ Core ./boot.jl:489  [19] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:2865  [20] include_string  @ ./loading.jl:2875 [inlined]  [21] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:328  [22] _start()  @ Base ./client.jl:563   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:489  [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/v1.13/Distributed/src/remotecall.jl:425 [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/v1.13/Distributed/src/process_messages.jl:70  [8] remotecall_fetch(::Function, ::Distributed.LocalProcess, ::Module, ::Vararg{Any}; kwargs::@Kwargs{})  @ Distributed /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:450  [9] remotecall_fetch  @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:449 [inlined]  [10] remotecall_fetch  @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:492 [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/v1.13/Distributed/src/remotecall.jl:451  [2] remotecall_fetch  @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:449 [inlined]  [3] remotecall_fetch  @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:492 [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:601  [2] macro expansion  @ ./task.jl:634 [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: Failed to precompile ReTest [e0db7c4e-2690-44b9-bad6-7687da720f89] to "/home/pkgeval/.julia/compiled/v1.13/ReTest/jl_49At43" (ProcessExited(1)). Stacktrace:  [1] error(s::String)  @ Base ./error.jl:44  [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing)  @ Base ./loading.jl:3306  [3] kwcall(::@NamedTuple{reasons::Dict{String, Int64}, loadable_exts::Nothing}, ::typeof(Base.compilecache), pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool)  @ Base ./loading.jl:3184  [4] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})()  @ Base ./loading.jl:2670  [5] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool})  @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94  [6] #mkpidlock#7  @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined]  [7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64})  @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115  [8] #invokelatest_gr#234  @ ./reflection.jl:1335 [inlined]  [9] invokelatest_gr  @ ./reflection.jl:1327 [inlined]  [10] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, pkg::Base.PkgId, srcpath::String; stale_age::Int64)  @ Base ./loading.jl:3877  [11] maybe_cachefile_lock  @ ./loading.jl:3874 [inlined]  [12] __require_prelocked(pkg::Base.PkgId, env::String)  @ Base ./loading.jl:2656  [13] _require_prelocked(uuidkey::Base.PkgId, env::String)  @ Base ./loading.jl:2484  [14] macro expansion  @ ./loading.jl:2412 [inlined]  [15] macro expansion  @ ./lock.jl:376 [inlined]  [16] __require(into::Module, mod::Symbol)  @ Base ./loading.jl:2376  [17] require  @ ./loading.jl:2352 [inlined]  [18] eval_import_path  @ ./module.jl:36 [inlined]  [19] eval_import_path_all(at::Module, path::Expr, keyword::String)  @ Base ./module.jl:60  [20] _eval_using(to::Module, path::Expr)  @ Base ./module.jl:137  [21] top-level scope  @ ~/.julia/packages/Microbiome/BvZqT/src/Microbiome.jl:74  [22] include(mod::Module, _path::String)  @ Base ./Base.jl:308  [23] 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::String)  @ Base ./loading.jl:3019  [24] top-level scope  @ stdin:5  [25] eval(m::Module, e::Any)  @ Core ./boot.jl:489  [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:2865  [27] include_string  @ ./loading.jl:2875 [inlined]  [28] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:328  [29] _start()  @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/Microbiome/BvZqT/src/Microbiome.jl:1 in expression starting at stdin:5 ERROR: LoadError: Failed to precompile Microbiome [3bd8f0ae-a0f2-5238-a5af-e1b399a4940c] to "/home/pkgeval/.julia/compiled/v1.13/Microbiome/jl_fcurfT" (ProcessExited(1)). Stacktrace:  [1] error(s::String)  @ Base ./error.jl:44  [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing)  @ Base ./loading.jl:3306  [3] kwcall(::@NamedTuple{reasons::Dict{String, Int64}, loadable_exts::Nothing}, ::typeof(Base.compilecache), pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool)  @ Base ./loading.jl:3184  [4] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})()  @ Base ./loading.jl:2670  [5] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool})  @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94  [6] #mkpidlock#7  @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined]  [7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64})  @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115  [8] #invokelatest_gr#234  @ ./reflection.jl:1335 [inlined]  [9] invokelatest_gr  @ ./reflection.jl:1327 [inlined]  [10] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, pkg::Base.PkgId, srcpath::String; stale_age::Int64)  @ Base ./loading.jl:3877  [11] maybe_cachefile_lock  @ ./loading.jl:3874 [inlined]  [12] __require_prelocked(pkg::Base.PkgId, env::String)  @ Base ./loading.jl:2656  [13] _require_prelocked(uuidkey::Base.PkgId, env::String)  @ Base ./loading.jl:2484  [14] macro expansion  @ ./loading.jl:2412 [inlined]  [15] macro expansion  @ ./lock.jl:376 [inlined]  [16] __require(into::Module, mod::Symbol)  @ Base ./loading.jl:2376  [17] require  @ ./loading.jl:2352 [inlined]  [18] eval_import_path  @ ./module.jl:36 [inlined]  [19] eval_import_path_all(at::Module, path::Expr, keyword::String)  @ Base ./module.jl:60  [20] _eval_import(::Bool, ::Module, ::Expr, ::Expr, ::Vararg{Expr})  @ Base ./module.jl:101  [21] top-level scope  @ ~/.julia/packages/MicrobiomeAnalysis/fZGRE/src/MicrobiomeAnalysis.jl:10  [22] include(mod::Module, _path::String)  @ Base ./Base.jl:308  [23] 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:3019  [24] top-level scope  @ stdin:5  [25] eval(m::Module, e::Any)  @ Core ./boot.jl:489  [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)  @ Base ./loading.jl:2865  [27] include_string  @ ./loading.jl:2875 [inlined]  [28] exec_options(opts::Base.JLOptions)  @ Base ./client.jl:328  [29] _start()  @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/MicrobiomeAnalysis/fZGRE/src/MicrobiomeAnalysis.jl:1 in expression starting at stdin:5 ✗ MicrobiomeAnalysis 0 dependencies successfully precompiled in 93 seconds. 223 already precompiled. Estimating alpha diversity: Error During Test at /home/pkgeval/.julia/packages/SafeTestsets/raUNr/src/SafeTestsets.jl:30 Got exception outside of a @test LoadError: The following 2 direct dependencies failed to precompile: Microbiome Failed to precompile Microbiome [3bd8f0ae-a0f2-5238-a5af-e1b399a4940c] to "/home/pkgeval/.julia/compiled/v1.13/Microbiome/jl_xaKvy3" (ProcessExited(1)). 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] #wait#585 @ ./task.jl:363 [inlined] [2] wait @ ./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] kwcall(::@NamedTuple{recursive::Bool, stats::Bool, spin::Bool}, ::typeof(InlineTest.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}}}}) @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:750 [5] #137 @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:26 [inlined] [6] redirect_stdio(f::ReTest.var"#137#138"; stdin::Nothing, stderr::Pipe, stdout::Pipe) @ Base ./stream.jl:1443 [7] kwcall(::@NamedTuple{stderr::Pipe, stdout::Pipe}, ::typeof(redirect_stdio), f::Function) @ Base ./stream.jl:1406 [8] macro expansion @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:25 [inlined] [9] macro expansion @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:73 [inlined] [10] macro expansion @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:23 [inlined] [11] macro expansion @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:121 [inlined] [12] top-level scope @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:118 [13] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [14] top-level scope @ ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1751 [15] include(mod::Module, _path::String) @ Base ./Base.jl:308 [16] 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::String) @ Base ./loading.jl:3019 [17] top-level scope @ stdin:5 [18] eval(m::Module, e::Any) @ Core ./boot.jl:489 [19] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2865 [20] include_string @ ./loading.jl:2875 [inlined] [21] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [22] _start() @ Base ./client.jl:563 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:489 [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/v1.13/Distributed/src/remotecall.jl:425 [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/v1.13/Distributed/src/process_messages.jl:70 [8] remotecall_fetch(::Function, ::Distributed.LocalProcess, ::Module, ::Vararg{Any}; kwargs::@Kwargs{}) @ Distributed /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:450 [9] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:449 [inlined] [10] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:492 [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/v1.13/Distributed/src/remotecall.jl:451 [2] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:449 [inlined] [3] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:492 [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:601 [2] macro expansion @ ./task.jl:634 [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: Failed to precompile ReTest [e0db7c4e-2690-44b9-bad6-7687da720f89] to "/home/pkgeval/.julia/compiled/v1.13/ReTest/jl_Zp5uwa" (ProcessExited(1)). Stacktrace: [1] error(s::String) @ Base ./error.jl:44 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing) @ Base ./loading.jl:3306 [3] kwcall(::@NamedTuple{reasons::Dict{String, Int64}, loadable_exts::Nothing}, ::typeof(Base.compilecache), pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool) @ Base ./loading.jl:3184 [4] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})() @ Base ./loading.jl:2670 [5] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94 [6] #mkpidlock#7 @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined] [7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115 [8] #invokelatest_gr#234 @ ./reflection.jl:1335 [inlined] [9] invokelatest_gr @ ./reflection.jl:1327 [inlined] [10] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, pkg::Base.PkgId, srcpath::String; stale_age::Int64) @ Base ./loading.jl:3877 [11] maybe_cachefile_lock @ ./loading.jl:3874 [inlined] [12] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2656 [13] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2484 [14] macro expansion @ ./loading.jl:2412 [inlined] [15] macro expansion @ ./lock.jl:376 [inlined] [16] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2376 [17] require @ ./loading.jl:2352 [inlined] [18] eval_import_path @ ./module.jl:36 [inlined] [19] eval_import_path_all(at::Module, path::Expr, keyword::String) @ Base ./module.jl:60 [20] _eval_using(to::Module, path::Expr) @ Base ./module.jl:137 [21] top-level scope @ ~/.julia/packages/Microbiome/BvZqT/src/Microbiome.jl:74 [22] include(mod::Module, _path::String) @ Base ./Base.jl:308 [23] 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:3019 [24] top-level scope @ stdin:5 [25] eval(m::Module, e::Any) @ Core ./boot.jl:489 [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2865 [27] include_string @ ./loading.jl:2875 [inlined] [28] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [29] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/Microbiome/BvZqT/src/Microbiome.jl:1 in expression starting at stdin:5 MicrobiomeAnalysis Failed to precompile MicrobiomeAnalysis [09137a06-29c6-4e66-9476-ab7e4b8c7492] to "/home/pkgeval/.julia/compiled/v1.13/MicrobiomeAnalysis/jl_T89a7c" (ProcessExited(1)). 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] #wait#585 @ ./task.jl:363 [inlined] [2] wait @ ./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] kwcall(::@NamedTuple{recursive::Bool, stats::Bool, spin::Bool}, ::typeof(InlineTest.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}}}}) @ ReTest ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:750 [5] #137 @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:26 [inlined] [6] redirect_stdio(f::ReTest.var"#137#138"; stdin::Nothing, stderr::Pipe, stdout::Pipe) @ Base ./stream.jl:1443 [7] kwcall(::@NamedTuple{stderr::Pipe, stdout::Pipe}, ::typeof(redirect_stdio), f::Function) @ Base ./stream.jl:1406 [8] macro expansion @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:25 [inlined] [9] macro expansion @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:73 [inlined] [10] macro expansion @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:23 [inlined] [11] macro expansion @ ~/.julia/packages/PrecompileTools/gn08A/src/workloads.jl:121 [inlined] [12] top-level scope @ ~/.julia/packages/ReTest/3Ikse/src/precompile.jl:118 [13] include(mapexpr::Function, mod::Module, _path::String) @ Base ./Base.jl:309 [14] top-level scope @ ~/.julia/packages/ReTest/3Ikse/src/ReTest.jl:1751 [15] include(mod::Module, _path::String) @ Base ./Base.jl:308 [16] 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::String) @ Base ./loading.jl:3019 [17] top-level scope @ stdin:5 [18] eval(m::Module, e::Any) @ Core ./boot.jl:489 [19] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2865 [20] include_string @ ./loading.jl:2875 [inlined] [21] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [22] _start() @ Base ./client.jl:563 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:489 [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/v1.13/Distributed/src/remotecall.jl:425 [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/v1.13/Distributed/src/process_messages.jl:70 [8] remotecall_fetch(::Function, ::Distributed.LocalProcess, ::Module, ::Vararg{Any}; kwargs::@Kwargs{}) @ Distributed /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:450 [9] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:449 [inlined] [10] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:492 [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/v1.13/Distributed/src/remotecall.jl:451 [2] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:449 [inlined] [3] remotecall_fetch @ /opt/julia/share/julia/stdlib/v1.13/Distributed/src/remotecall.jl:492 [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:601 [2] macro expansion @ ./task.jl:634 [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: Failed to precompile ReTest [e0db7c4e-2690-44b9-bad6-7687da720f89] to "/home/pkgeval/.julia/compiled/v1.13/ReTest/jl_49At43" (ProcessExited(1)). Stacktrace: [1] error(s::String) @ Base ./error.jl:44 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing) @ Base ./loading.jl:3306 [3] kwcall(::@NamedTuple{reasons::Dict{String, Int64}, loadable_exts::Nothing}, ::typeof(Base.compilecache), pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool) @ Base ./loading.jl:3184 [4] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})() @ Base ./loading.jl:2670 [5] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94 [6] #mkpidlock#7 @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined] [7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115 [8] #invokelatest_gr#234 @ ./reflection.jl:1335 [inlined] [9] invokelatest_gr @ ./reflection.jl:1327 [inlined] [10] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, pkg::Base.PkgId, srcpath::String; stale_age::Int64) @ Base ./loading.jl:3877 [11] maybe_cachefile_lock @ ./loading.jl:3874 [inlined] [12] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2656 [13] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2484 [14] macro expansion @ ./loading.jl:2412 [inlined] [15] macro expansion @ ./lock.jl:376 [inlined] [16] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2376 [17] require @ ./loading.jl:2352 [inlined] [18] eval_import_path @ ./module.jl:36 [inlined] [19] eval_import_path_all(at::Module, path::Expr, keyword::String) @ Base ./module.jl:60 [20] _eval_using(to::Module, path::Expr) @ Base ./module.jl:137 [21] top-level scope @ ~/.julia/packages/Microbiome/BvZqT/src/Microbiome.jl:74 [22] include(mod::Module, _path::String) @ Base ./Base.jl:308 [23] 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::String) @ Base ./loading.jl:3019 [24] top-level scope @ stdin:5 [25] eval(m::Module, e::Any) @ Core ./boot.jl:489 [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2865 [27] include_string @ ./loading.jl:2875 [inlined] [28] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [29] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/Microbiome/BvZqT/src/Microbiome.jl:1 in expression starting at stdin:5 ERROR: LoadError: Failed to precompile Microbiome [3bd8f0ae-a0f2-5238-a5af-e1b399a4940c] to "/home/pkgeval/.julia/compiled/v1.13/Microbiome/jl_fcurfT" (ProcessExited(1)). Stacktrace: [1] error(s::String) @ Base ./error.jl:44 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool; flags::Cmd, cacheflags::Base.CacheFlags, reasons::Dict{String, Int64}, loadable_exts::Nothing) @ Base ./loading.jl:3306 [3] kwcall(::@NamedTuple{reasons::Dict{String, Int64}, loadable_exts::Nothing}, ::typeof(Base.compilecache), pkg::Base.PkgId, path::String, internal_stderr::IO, internal_stdout::IO, keep_loaded_modules::Bool) @ Base ./loading.jl:3184 [4] (::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}})() @ Base ./loading.jl:2670 [5] mkpidlock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, at::String, pid::Int32; kwopts::@Kwargs{stale_age::Int64, wait::Bool}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:94 [6] #mkpidlock#7 @ /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:89 [inlined] [7] trymkpidlock(::Function, ::Vararg{Any}; kwargs::@Kwargs{stale_age::Int64}) @ FileWatching.Pidfile /opt/julia/share/julia/stdlib/v1.13/FileWatching/src/pidfile.jl:115 [8] #invokelatest_gr#234 @ ./reflection.jl:1335 [inlined] [9] invokelatest_gr @ ./reflection.jl:1327 [inlined] [10] maybe_cachefile_lock(f::Base.var"#__require_prelocked##0#__require_prelocked##1"{Base.PkgId, String, Dict{String, Int64}}, pkg::Base.PkgId, srcpath::String; stale_age::Int64) @ Base ./loading.jl:3877 [11] maybe_cachefile_lock @ ./loading.jl:3874 [inlined] [12] __require_prelocked(pkg::Base.PkgId, env::String) @ Base ./loading.jl:2656 [13] _require_prelocked(uuidkey::Base.PkgId, env::String) @ Base ./loading.jl:2484 [14] macro expansion @ ./loading.jl:2412 [inlined] [15] macro expansion @ ./lock.jl:376 [inlined] [16] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2376 [17] require @ ./loading.jl:2352 [inlined] [18] eval_import_path @ ./module.jl:36 [inlined] [19] eval_import_path_all(at::Module, path::Expr, keyword::String) @ Base ./module.jl:60 [20] _eval_import(::Bool, ::Module, ::Expr, ::Expr, ::Vararg{Expr}) @ Base ./module.jl:101 [21] top-level scope @ ~/.julia/packages/MicrobiomeAnalysis/fZGRE/src/MicrobiomeAnalysis.jl:10 [22] include(mod::Module, _path::String) @ Base ./Base.jl:308 [23] 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:3019 [24] top-level scope @ stdin:5 [25] eval(m::Module, e::Any) @ Core ./boot.jl:489 [26] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) @ Base ./loading.jl:2865 [27] include_string @ ./loading.jl:2875 [inlined] [28] exec_options(opts::Base.JLOptions) @ Base ./client.jl:328 [29] _start() @ Base ./client.jl:563 in expression starting at /home/pkgeval/.julia/packages/MicrobiomeAnalysis/fZGRE/src/MicrobiomeAnalysis.jl:1 in expression starting at stdin:5 in expression starting at /home/pkgeval/.julia/packages/MicrobiomeAnalysis/fZGRE/test/test_alpha.jl:1 Test Summary: | Error Total Time Estimating alpha diversity | 1 1 1m33.7s RNG of the outermost testset: Random.Xoshiro(0xa067fea95777d35b, 0x61430844af408365, 0x299b15fab5faa257, 0xb739162ea686edad, 0x96c820a380cf08f8) ERROR: LoadError: Some tests did not pass: 0 passed, 0 failed, 1 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/MicrobiomeAnalysis/fZGRE/test/runtests.jl:3 Testing failed after 106.69s ERROR: LoadError: Package MicrobiomeAnalysis errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.13/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/v1.13/Pkg/src/Operations.jl:2673 [3] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2522 [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/v1.13/Pkg/src/API.jl:538 [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/v1.13/Pkg/src/API.jl:515 [6] test(pkgs::Vector{PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:168 [7] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkgs::Vector{PackageSpec}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:157 [8] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156 [9] test @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:156 [inlined] [10] kwcall(::@NamedTuple{julia_args::Cmd}, ::typeof(Pkg.API.test), pkg::String) @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:155 [11] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 [12] include(mod::Module, _path::String) @ Base ./Base.jl:308 [13] exec_options(opts::Base.JLOptions) @ Base ./client.jl:330 [14] _start() @ Base ./client.jl:563 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 387.87s: package fails to precompile