Package evaluation of SpeciesInteractionNetworks on Julia 1.13.0-DEV.791 (d5209bd37d*) started at 2025-07-04T15:19:05.878


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

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 6.78s


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

Installing SpeciesInteractionNetworks...
   Resolving package versions...
   Installed Rmath_jll ─────────────────── v0.5.1+0
   Installed Extents ───────────────────── v0.1.6
   Installed DelimitedFiles ────────────── v1.9.1
   Installed URIs ──────────────────────── v1.6.1
   Installed AliasTables ───────────────── v1.1.3
   Installed HypergeometricFunctions ───── v0.3.28
   Installed FillArrays ────────────────── v1.13.0
   Installed DataStructures ────────────── v0.18.22
   Installed ConcurrentUtilities ───────── v2.5.0
   Installed CodecZlib ─────────────────── v0.7.8
   Installed ExceptionUnwrapping ───────── v0.1.11
   Installed OrderedCollections ────────── v1.8.1
   Installed Compat ────────────────────── v4.17.0
   Installed StatsBase ─────────────────── v0.34.5
   Installed TranscodingStreams ────────── v0.11.3
   Installed Combinatorics ─────────────── v1.0.3
   Installed IteratorInterfaceExtensions ─ v1.0.0
   Installed DataValueInterfaces ───────── v1.0.0
   Installed StatsAPI ──────────────────── v1.7.1
   Installed DataAPI ───────────────────── v1.16.0
   Installed Statistics ────────────────── v1.11.1
   Installed PrecompileTools ───────────── v1.3.2
   Installed IrrationalConstants ───────── v0.2.4
   Installed LoggingExtras ─────────────── v1.1.0
   Installed OpenSSL ───────────────────── v1.5.0
   Installed MbedTLS ───────────────────── v1.1.9
   Installed QuadGK ────────────────────── v2.11.2
   Installed HTTP ──────────────────────── v1.10.17
   Installed Mangal ────────────────────── v0.5.1
   Installed Requires ──────────────────── v1.3.1
   Installed OpenSpecFun_jll ───────────── v0.5.6+0
   Installed BitFlags ──────────────────── v0.1.9
   Installed LogExpFunctions ───────────── v0.3.29
   Installed Rmath ─────────────────────── v0.8.0
   Installed Parsers ───────────────────── v2.8.3
   Installed JSON ──────────────────────── v0.21.4
   Installed GeoFormatTypes ────────────── v0.4.4
   Installed Reexport ──────────────────── v1.2.2
   Installed Tables ────────────────────── v1.12.1
   Installed StatsFuns ─────────────────── v1.5.0
   Installed PtrArrays ─────────────────── v1.3.0
   Installed Preferences ───────────────── v1.4.3
   Installed SpecialFunctions ──────────── v2.5.1
   Installed SimpleBufferStream ────────── v1.2.0
   Installed Distributions ─────────────── v0.25.120
   Installed TestItems ─────────────────── v1.0.0
   Installed Missings ──────────────────── v1.2.0
   Installed JLLWrappers ───────────────── v1.7.0
   Installed TableTraits ───────────────── v1.0.1
   Installed MbedTLS_jll ───────────────── v2.28.6+2
   Installed SortingAlgorithms ─────────── v1.2.1
   Installed PDMats ────────────────────── v0.11.35
   Installed DocStringExtensions ───────── v0.9.5
   Installed GeoInterface ──────────────── v1.4.1
   Installed SpeciesInteractionNetworks ── v0.0.1
  Installing 3 artifacts
   Installed artifact Rmath       121.9 KiB
   Installed artifact OpenSpecFun 194.9 KiB
   Installed artifact MbedTLS     2.1 MiB
    Updating `~/.julia/environments/v1.13/Project.toml`
  [49e116ef] + SpeciesInteractionNetworks v0.0.1
    Updating `~/.julia/environments/v1.13/Manifest.toml`
  [66dad0bd] + AliasTables v1.1.3
  [d1d4a3ce] + BitFlags v0.1.9
  [944b1d66] + CodecZlib v0.7.8
  [861a8166] + Combinatorics v1.0.3
  [34da2185] + Compat v4.17.0
  [f0e56b4a] + ConcurrentUtilities v2.5.0
  [9a962f9c] + DataAPI v1.16.0
  [864edb3b] + DataStructures v0.18.22
  [e2d170a0] + DataValueInterfaces v1.0.0
  [8bb1440f] + DelimitedFiles v1.9.1
  [31c24e10] + Distributions v0.25.120
  [ffbed154] + DocStringExtensions v0.9.5
  [460bff9d] + ExceptionUnwrapping v0.1.11
  [411431e0] + Extents v0.1.6
  [1a297f60] + FillArrays v1.13.0
  [68eda718] + GeoFormatTypes v0.4.4
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  [cd3eb016] + HTTP v1.10.17
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  [92d709cd] + IrrationalConstants v0.2.4
  [82899510] + IteratorInterfaceExtensions v1.0.0
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  [2ab3a3ac] + LogExpFunctions v0.3.29
  [e6f89c97] + LoggingExtras v1.1.0
  [b8b640a6] + Mangal v0.5.1
  [739be429] + MbedTLS v1.1.9
  [e1d29d7a] + Missings v1.2.0
  [4d8831e6] + OpenSSL v1.5.0
  [bac558e1] + OrderedCollections v1.8.1
  [90014a1f] + PDMats v0.11.35
  [69de0a69] + Parsers v2.8.3
  [aea7be01] + PrecompileTools v1.3.2
  [21216c6a] + Preferences v1.4.3
  [43287f4e] + PtrArrays v1.3.0
  [1fd47b50] + QuadGK v2.11.2
  [189a3867] + Reexport v1.2.2
  [ae029012] + Requires v1.3.1
  [79098fc4] + Rmath v0.8.0
  [777ac1f9] + SimpleBufferStream v1.2.0
  [a2af1166] + SortingAlgorithms v1.2.1
  [276daf66] + SpecialFunctions v2.5.1
  [49e116ef] + SpeciesInteractionNetworks v0.0.1
  [10745b16] + Statistics v1.11.1
  [82ae8749] + StatsAPI v1.7.1
  [2913bbd2] + StatsBase v0.34.5
  [4c63d2b9] + StatsFuns v1.5.0
  [3783bdb8] + TableTraits v1.0.1
  [bd369af6] + Tables v1.12.1
  [1c621080] + TestItems v1.0.0
  [3bb67fe8] + TranscodingStreams v0.11.3
  [5c2747f8] + URIs v1.6.1
  [c8ffd9c3] + MbedTLS_jll v2.28.6+2
  [efe28fd5] + OpenSpecFun_jll v0.5.6+0
  [f50d1b31] + Rmath_jll v0.5.1+0
  [56f22d72] + Artifacts v1.11.0
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  [b77e0a4c] + InteractiveUtils v1.11.0
  [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0
  [8f399da3] + Libdl v1.11.0
  [37e2e46d] + LinearAlgebra v1.12.0
  [56ddb016] + Logging v1.11.0
  [d6f4376e] + Markdown v1.11.0
  [a63ad114] + Mmap v1.11.0
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  [2f01184e] + SparseArrays v1.12.0
  [f489334b] + StyledStrings v1.11.0
  [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 v1.3.0+1
  [14a3606d] + MozillaCACerts_jll v2025.5.20
  [4536629a] + OpenBLAS_jll v0.3.29+0
  [05823500] + OpenLibm_jll v0.8.5+0
  [458c3c95] + OpenSSL_jll v3.5.0+0
  [bea87d4a] + SuiteSparse_jll v7.10.1+0
  [83775a58] + Zlib_jll v1.3.1+2
  [8e850b90] + libblastrampoline_jll v5.13.1+0

Installation completed after 5.95s


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# Precompilation
#

Precompiling PkgEval dependencies...
Precompiling packages...
   5165.4 ms  ✓ TestEnv
  1 dependency successfully precompiled in 5 seconds. 26 already precompiled.

Precompiling package dependencies...

Precompilation completed after 198.98s


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

     Testing SpeciesInteractionNetworks
      Status `/tmp/jl_v5Lg4F/Project.toml`
  [49e116ef] SpeciesInteractionNetworks v0.0.1
  [10745b16] Statistics v1.11.1
  [f8b46487] TestItemRunner v1.1.0
  [37e2e46d] LinearAlgebra v1.12.0
  [9a3f8284] Random v1.11.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_v5Lg4F/Manifest.toml`
  [66dad0bd] AliasTables v1.1.3
  [d1d4a3ce] BitFlags v0.1.9
  [944b1d66] CodecZlib v0.7.8
  [861a8166] Combinatorics v1.0.3
  [34da2185] Compat v4.17.0
  [f0e56b4a] ConcurrentUtilities v2.5.0
  [9a962f9c] DataAPI v1.16.0
  [864edb3b] DataStructures v0.18.22
  [e2d170a0] DataValueInterfaces v1.0.0
  [8bb1440f] DelimitedFiles v1.9.1
  [31c24e10] Distributions v0.25.120
  [ffbed154] DocStringExtensions v0.9.5
  [460bff9d] ExceptionUnwrapping v0.1.11
  [411431e0] Extents v0.1.6
  [1a297f60] FillArrays v1.13.0
  [68eda718] GeoFormatTypes v0.4.4
  [cf35fbd7] GeoInterface v1.4.1
  [cd3eb016] HTTP v1.10.17
  [34004b35] HypergeometricFunctions v0.3.28
  [92d709cd] IrrationalConstants v0.2.4
  [82899510] IteratorInterfaceExtensions v1.0.0
  [692b3bcd] JLLWrappers v1.7.0
  [682c06a0] JSON v0.21.4
  [2ab3a3ac] LogExpFunctions v0.3.29
  [e6f89c97] LoggingExtras v1.1.0
  [b8b640a6] Mangal v0.5.1
  [739be429] MbedTLS v1.1.9
  [e1d29d7a] Missings v1.2.0
  [4d8831e6] OpenSSL v1.5.0
  [bac558e1] OrderedCollections v1.8.1
  [90014a1f] PDMats v0.11.35
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  [aea7be01] PrecompileTools v1.3.2
  [21216c6a] Preferences v1.4.3
  [43287f4e] PtrArrays v1.3.0
  [1fd47b50] QuadGK v2.11.2
  [189a3867] Reexport v1.2.2
  [ae029012] Requires v1.3.1
  [79098fc4] Rmath v0.8.0
  [777ac1f9] SimpleBufferStream v1.2.0
  [a2af1166] SortingAlgorithms v1.2.1
  [276daf66] SpecialFunctions v2.5.1
  [49e116ef] SpeciesInteractionNetworks v0.0.1
  [10745b16] Statistics v1.11.1
  [82ae8749] StatsAPI v1.7.1
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  [bd369af6] Tables v1.12.1
  [f8b46487] TestItemRunner v1.1.0
  [1c621080] TestItems v1.0.0
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  [5c2747f8] URIs v1.6.1
  [c8ffd9c3] MbedTLS_jll v2.28.6+2
  [efe28fd5] OpenSpecFun_jll v0.5.6+0
  [f50d1b31] Rmath_jll v0.5.1+0
  [0dad84c5] ArgTools v1.1.2
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  [b27032c2] LibCURL v0.6.4
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  [a63ad114] Mmap v1.11.0
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  [4607b0f0] SuiteSparse
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  [14a3606d] MozillaCACerts_jll v2025.5.20
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  [8e850ede] nghttp2_jll v1.65.0+0
  [3f19e933] p7zip_jll v17.5.0+2
     Testing Running tests...

The type promotion works as expected: Error During Test at /home/pkgeval/.julia/packages/SpeciesInteractionNetworks/ooTrR/src/data/mangal.jl:71
  Test threw exception
  Expression: eltype((mangalnetwork(problematic_network)).edges) <: AbstractFloat
  promotion of types Pair{String, Int64}, Pair{String, String} and Pair{String, Int64} failed to change any arguments
  Stacktrace:
    [1] error(::String, ::String, ::String)
      @ Base ./error.jl:54
    [2] sametype_error(input::Tuple{Pair{String, Int64}, Pair{String, String}, Pair{String, Int64}})
      @ Base ./promotion.jl:428
    [3] not_sametype(x::Tuple{Pair{String, Int64}, Pair{String, String}, Pair{String, Int64}}, y::Tuple{Pair{String, Int64}, Pair{String, String}, Pair{String, Int64}})
      @ Base ./promotion.jl:422
    [4] promote(x::Pair{String, Int64}, y::Pair{String, String}, z::Pair{String, Int64})
      @ Base ./promotion.jl:411
    [5] generate_request_query(::Pair{String, Int64}, ::Vararg{Pair})
      @ Mangal ~/.julia/packages/Mangal/MRArn/src/basics.jl:39
    [6] search_objects_by_query(::Type, ::Pair{String, Int64}, ::Vararg{Pair})
      @ Mangal ~/.julia/packages/Mangal/MRArn/src/basics.jl:61
    [7] interactions(::Pair{String, Int64}, ::Pair{String, String}, ::Pair{String, Int64})
      @ Mangal ~/.julia/packages/Mangal/MRArn/src/generators.jl:67
    [8] interactions(::Mangal.MangalNetwork, ::Pair{String, String}, ::Pair{String, Int64})
      @ Mangal ~/.julia/packages/Mangal/MRArn/src/interaction.jl:46
    [9] _slurp(::Mangal.MangalNetwork)
      @ SpeciesInteractionNetworks ~/.julia/packages/SpeciesInteractionNetworks/ooTrR/src/data/mangal.jl:10
   [10] mangalnetwork(::Mangal.MangalNetwork; taxonlevel::Bool)
      @ SpeciesInteractionNetworks ~/.julia/packages/SpeciesInteractionNetworks/ooTrR/src/data/mangal.jl:42
   [11] mangalnetwork(::Mangal.MangalNetwork)
      @ SpeciesInteractionNetworks ~/.julia/packages/SpeciesInteractionNetworks/ooTrR/src/data/mangal.jl:41
   [12] top-level scope
      @ ~/.julia/packages/SpeciesInteractionNetworks/ooTrR/src/data/mangal.jl:529
   [13] macro expansion
      @ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:738 [inlined]
ERROR: LoadError: promotion of types Pair{String, Int64}, Pair{String, String} and Pair{String, Int64} failed to change any arguments
Stacktrace:
  [1] error(::String, ::String, ::String)
    @ Base ./error.jl:54
  [2] sametype_error(input::Tuple{Pair{String, Int64}, Pair{String, String}, Pair{String, Int64}})
    @ Base ./promotion.jl:428
  [3] not_sametype(x::Tuple{Pair{String, Int64}, Pair{String, String}, Pair{String, Int64}}, y::Tuple{Pair{String, Int64}, Pair{String, String}, Pair{String, Int64}})
    @ Base ./promotion.jl:422
  [4] promote(x::Pair{String, Int64}, y::Pair{String, String}, z::Pair{String, Int64})
    @ Base ./promotion.jl:411
  [5] generate_request_query(::Pair{String, Int64}, ::Vararg{Pair})
    @ Mangal ~/.julia/packages/Mangal/MRArn/src/basics.jl:39
  [6] search_objects_by_query(::Type, ::Pair{String, Int64}, ::Vararg{Pair})
    @ Mangal ~/.julia/packages/Mangal/MRArn/src/basics.jl:61
  [7] interactions(::Pair{String, Int64}, ::Pair{String, String}, ::Pair{String, Int64})
    @ Mangal ~/.julia/packages/Mangal/MRArn/src/generators.jl:67
  [8] interactions(::Mangal.MangalNetwork, ::Pair{String, String}, ::Pair{String, Int64})
    @ Mangal ~/.julia/packages/Mangal/MRArn/src/interaction.jl:46
  [9] _slurp(::Mangal.MangalNetwork)
    @ SpeciesInteractionNetworks ~/.julia/packages/SpeciesInteractionNetworks/ooTrR/src/data/mangal.jl:10
 [10] mangalnetwork(::Mangal.MangalNetwork; taxonlevel::Bool)
    @ SpeciesInteractionNetworks ~/.julia/packages/SpeciesInteractionNetworks/ooTrR/src/data/mangal.jl:42
 [11] top-level scope
    @ ~/.julia/packages/SpeciesInteractionNetworks/ooTrR/src/data/mangal.jl:77
 [12] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [13] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
    @ Base ./loading.jl:2846
 [14] include_string(m::Module, txt::String, fname::String)
    @ Base ./loading.jl:2856
 [15] #run_testitem##6
    @ ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:118 [inlined]
 [16] withpath(f::TestItemRunner.var"#run_testitem##6#run_testitem##7"{String, String, Module}, path::String)
    @ TestItemRunner ~/.julia/packages/TestItemRunner/Q6zqe/src/vendored_code.jl:7
 [17] #run_testitem##4
    @ ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:117 [inlined]
 [18] cd(f::TestItemRunner.var"#run_testitem##4#run_testitem##5"{String, String, Module}, dir::String)
    @ Base.Filesystem ./file.jl:112
 [19] run_testitem(filepath::String, use_default_usings::Bool, setups::Vector{Symbol}, package_name::String, original_code::String, line::Int64, column::Int64, test_setup_module_set::TestItemRunner.TestSetupModuleSet, testsetups::Dict{Symbol, Any})
    @ TestItemRunner ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:116
 [20] run_tests(path::String; filter::Nothing, verbose::Bool)
    @ TestItemRunner ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:221
 [21] run_tests(path::String)
    @ TestItemRunner ~/.julia/packages/TestItemRunner/Q6zqe/src/TestItemRunner.jl:133
 [22] top-level scope
    @ ~/.julia/packages/SpeciesInteractionNetworks/ooTrR/test/runtests.jl:2
 [23] include(mapexpr::Function, mod::Module, _path::String)
    @ Base ./Base.jl:310
 [24] top-level scope
    @ none:6
 [25] eval(m::Module, e::Any)
    @ Core ./boot.jl:489
 [26] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:290
 [27] _start()
    @ Base ./client.jl:557
in expression starting at /home/pkgeval/.julia/packages/SpeciesInteractionNetworks/ooTrR/src/data/mangal.jl:77
in expression starting at /home/pkgeval/.julia/packages/SpeciesInteractionNetworks/ooTrR/test/runtests.jl:2

Testing failed after 129.63s

ERROR: LoadError: Package SpeciesInteractionNetworks 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:2423
  [3] test
    @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/Operations.jl:2278 [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:500
  [5] 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:164
  [6] test(pkgs::Vector{String}; kwargs::@Kwargs{julia_args::Cmd})
    @ Pkg.API /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:152
  [7] test
    @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:152 [inlined]
  [8] #test#81
    @ /opt/julia/share/julia/stdlib/v1.13/Pkg/src/API.jl:151 [inlined]
  [9] top-level scope
    @ /PkgEval.jl/scripts/evaluate.jl:219
 [10] include(mod::Module, _path::String)
    @ Base ./Base.jl:309
 [11] exec_options(opts::Base.JLOptions)
    @ Base ./client.jl:324
 [12] _start()
    @ Base ./client.jl:557
in expression starting at /PkgEval.jl/scripts/evaluate.jl:210

PkgEval failed after 382.07s: package tests unexpectedly errored