Package evaluation to test FlxQTL on Julia 1.14.0-DEV.24 (d5fb6bbb43*) started at 2025-11-02T17:07:08.672


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

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 9.87s


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

Installing FlxQTL...
   Resolving package versions...
   Installed FlxQTL ─ v3.0.1
    Updating `~/.julia/environments/v1.14/Project.toml`
  [ede81e08] + FlxQTL v3.0.1
    Updating `~/.julia/environments/v1.14/Manifest.toml`
  [66dad0bd] + AliasTables v1.1.3
  [9a962f9c] + DataAPI v1.16.0
  [864edb3b] + DataStructures v0.19.1
  [8bb1440f] + DelimitedFiles v1.9.1
  [31c24e10] + Distributions v0.25.122
  [ffbed154] + DocStringExtensions v0.9.5
  [1a297f60] + FillArrays v1.14.0
  [ede81e08] + FlxQTL v3.0.1
  [34004b35] + HypergeometricFunctions v0.3.28
  [92d709cd] + IrrationalConstants v0.2.6
  [692b3bcd] + JLLWrappers v1.7.1
  [2ab3a3ac] + LogExpFunctions v0.3.29
  [30fc2ffe] + LossFunctions v1.1.1
  [e1d29d7a] + Missings v1.2.0
  [bac558e1] + OrderedCollections v1.8.1
  [90014a1f] + PDMats v0.11.36
  [aea7be01] + PrecompileTools v1.3.3
  [21216c6a] + Preferences v1.5.0
  [43287f4e] + PtrArrays v1.3.0
  [1fd47b50] + QuadGK v2.11.2
  [189a3867] + Reexport v1.2.2
  [79098fc4] + Rmath v0.9.0
  [a2af1166] + SortingAlgorithms v1.2.2
  [276daf66] + SpecialFunctions v2.6.1
  [90137ffa] + StaticArrays v1.9.15
  [1e83bf80] + StaticArraysCore v1.4.4
  [10745b16] + Statistics v1.11.1
  [82ae8749] + StatsAPI v1.7.1
  [2913bbd2] + StatsBase v0.34.7
  [4c63d2b9] + StatsFuns v1.5.2
  [efe28fd5] + OpenSpecFun_jll v0.5.6+0
  [f50d1b31] + Rmath_jll v0.5.1+0
  [56f22d72] + Artifacts v1.11.0
  [2a0f44e3] + Base64 v1.11.0
  [ade2ca70] + Dates v1.11.0
  [8ba89e20] + Distributed v1.11.0
  [ac6e5ff7] + JuliaSyntaxHighlighting v1.12.0
  [8f399da3] + Libdl v1.11.0
  [37e2e46d] + LinearAlgebra v1.13.0
  [d6f4376e] + Markdown v1.11.0
  [a63ad114] + Mmap v1.11.0
  [de0858da] + Printf v1.11.0
  [9a3f8284] + Random v1.11.0
  [ea8e919c] + SHA v1.0.0
  [9e88b42a] + Serialization v1.11.0
  [6462fe0b] + Sockets v1.11.0
  [2f01184e] + SparseArrays v1.13.0
  [f489334b] + StyledStrings v1.11.0
  [4607b0f0] + SuiteSparse
  [fa267f1f] + TOML v1.0.3
  [4ec0a83e] + Unicode v1.11.0
  [e66e0078] + CompilerSupportLibraries_jll v1.3.0+1
  [4536629a] + OpenBLAS_jll v0.3.29+0
  [05823500] + OpenLibm_jll v0.8.7+0
  [bea87d4a] + SuiteSparse_jll v7.10.1+0
  [8e850b90] + libblastrampoline_jll v5.15.0+0

Installation completed after 6.04s


################################################################################
# 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/nGMfF/src/julia-1.11/common.jl:75
│     [2] test_dir_has_project_file
│       @ ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/common.jl:52 [inlined]
│     [3] maybe_gen_project_override!
│       @ ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/common.jl:83 [inlined]
│     [4] activate(pkg::String; allow_reresolve::Bool)
│       @ TestEnv ~/.julia/packages/TestEnv/nGMfF/src/julia-1.11/activate_set.jl:12
│     [5] activate(pkg::String)
│       @ TestEnv ~/.julia/packages/TestEnv/nGMfF/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...
   1818.4 ms  ✓ LossFunctions
   5614.4 ms  ✓ FlxQTL
  2 dependencies successfully precompiled in 8 seconds. 51 already precompiled.

Precompilation completed after 21.35s


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

     Testing FlxQTL
      Status `/tmp/jl_NNtLBw/Project.toml`
  [8bb1440f] DelimitedFiles v1.9.1
  [31c24e10] Distributions v0.25.122
  [ede81e08] FlxQTL v3.0.1
  [30fc2ffe] LossFunctions v1.1.1
  [90137ffa] StaticArrays v1.9.15
  [10745b16] Statistics v1.11.1
  [2913bbd2] StatsBase v0.34.7
  [8ba89e20] Distributed v1.11.0
  [37e2e46d] LinearAlgebra v1.13.0
  [9a3f8284] Random v1.11.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_NNtLBw/Manifest.toml`
  [66dad0bd] AliasTables v1.1.3
  [9a962f9c] DataAPI v1.16.0
  [864edb3b] DataStructures v0.19.1
  [8bb1440f] DelimitedFiles v1.9.1
  [31c24e10] Distributions v0.25.122
  [ffbed154] DocStringExtensions v0.9.5
  [1a297f60] FillArrays v1.14.0
  [ede81e08] FlxQTL v3.0.1
  [34004b35] HypergeometricFunctions v0.3.28
  [92d709cd] IrrationalConstants v0.2.6
  [692b3bcd] JLLWrappers v1.7.1
  [2ab3a3ac] LogExpFunctions v0.3.29
  [30fc2ffe] LossFunctions v1.1.1
  [e1d29d7a] Missings v1.2.0
  [bac558e1] OrderedCollections v1.8.1
  [90014a1f] PDMats v0.11.36
  [aea7be01] PrecompileTools v1.3.3
  [21216c6a] Preferences v1.5.0
  [43287f4e] PtrArrays v1.3.0
  [1fd47b50] QuadGK v2.11.2
  [189a3867] Reexport v1.2.2
  [79098fc4] Rmath v0.9.0
  [a2af1166] SortingAlgorithms v1.2.2
  [276daf66] SpecialFunctions v2.6.1
  [90137ffa] StaticArrays v1.9.15
  [1e83bf80] StaticArraysCore v1.4.4
  [10745b16] Statistics v1.11.1
  [82ae8749] StatsAPI v1.7.1
  [2913bbd2] StatsBase v0.34.7
  [4c63d2b9] StatsFuns v1.5.2
  [efe28fd5] OpenSpecFun_jll v0.5.6+0
  [f50d1b31] Rmath_jll v0.5.1+0
  [56f22d72] Artifacts v1.11.0
  [2a0f44e3] Base64 v1.11.0
  [ade2ca70] Dates v1.11.0
  [8ba89e20] Distributed v1.11.0
  [b77e0a4c] InteractiveUtils v1.11.0
  [ac6e5ff7] JuliaSyntaxHighlighting v1.12.0
  [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
  [de0858da] Printf v1.11.0
  [9a3f8284] Random v1.11.0
  [ea8e919c] SHA v1.0.0
  [9e88b42a] Serialization v1.11.0
  [6462fe0b] Sockets v1.11.0
  [2f01184e] SparseArrays v1.13.0
  [f489334b] StyledStrings v1.11.0
  [4607b0f0] SuiteSparse
  [fa267f1f] TOML v1.0.3
  [8dfed614] Test v1.11.0
  [4ec0a83e] Unicode v1.11.0
  [e66e0078] CompilerSupportLibraries_jll v1.3.0+1
  [4536629a] OpenBLAS_jll v0.3.29+0
  [05823500] OpenLibm_jll v0.8.7+0
  [bea87d4a] SuiteSparse_jll v7.10.1+0
  [8e850b90] libblastrampoline_jll v5.15.0+0
     Testing Running tests...
Positive definiteness dropping chromosome 1 is true.
Positive definiteness dropping chromosome 2 is true.
Test Passed
Test Passed
Kinship dropping chromosome 1 is corrected to be positive definite:isposdef(K_loco[:,:,l])
Kinship dropping chromosome 2 is corrected to be positive definite:isposdef(K_loco[:,:,l])
Test Passed
Test Passed
Kinship dropping chromosome 1 is corrected to be positive definite:isposdef(K_loco[:,:,l])
Kinship dropping chromosome 2 is corrected to be positive definite:isposdef(K_loco[:,:,l])
Test Passed
Test Passed
Test PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedKinship dropping chromosome 1 is corrected to be positive definite
Kinship dropping chromosome 2 is corrected to be positive definite
  0.074972 seconds (366.07 k allocations: 33.606 MiB)
  0.001894 seconds (7.56 k allocations: 667.641 KiB)
  0.075006 seconds (366.07 k allocations: 33.606 MiB)
  0.001587 seconds (7.30 k allocations: 642.328 KiB)
  0.006291 seconds (29.81 k allocations: 2.754 MiB)
  0.451048 seconds (172.81 k allocations: 14.746 MiB, 92.77% gc time)
  0.005225 seconds (29.81 k allocations: 2.754 MiB)
  0.039399 seconds (243.07 k allocations: 20.747 MiB)
  0.006603 seconds (29.81 k allocations: 2.754 MiB)
  0.024773 seconds (121.17 k allocations: 10.375 MiB)
  0.006733 seconds (29.81 k allocations: 2.754 MiB)
  0.039032 seconds (116.08 k allocations: 9.936 MiB, 39.15% gc time)
Test PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest Passed 15.145438 seconds (47.18 M allocations: 7.414 GiB, 6.55% gc time)
  0.024143 seconds (82.19 k allocations: 12.380 MiB)
 15.845096 seconds (47.18 M allocations: 7.415 GiB, 6.50% gc time)
 15.673208 seconds (47.18 M allocations: 7.415 GiB, 6.09% gc time)
Test PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest PassedTest Passed
Test Passed
  9.876993 seconds (30.18 M allocations: 4.778 GiB, 7.63% gc time)
  0.840444 seconds (2.70 M allocations: 396.086 MiB, 8.20% gc time)
  7.584682 seconds (23.17 M allocations: 3.641 GiB, 7.61% gc time)
 44.151917 seconds (143.73 M allocations: 20.444 GiB, 7.66% gc time)
  7.836506 seconds (23.17 M allocations: 3.642 GiB, 7.68% gc time)
 45.766489 seconds (143.73 M allocations: 20.444 GiB, 7.73% gc time)
  7.883703 seconds (23.17 M allocations: 3.642 GiB, 7.82% gc time)
 43.655139 seconds (143.73 M allocations: 20.444 GiB, 7.87% gc time)
 10.045122 seconds (30.18 M allocations: 4.779 GiB, 7.43% gc time)
  0.745817 seconds (2.70 M allocations: 396.089 MiB, 8.45% gc time)
 10.450078 seconds (30.18 M allocations: 4.779 GiB, 7.51% gc time)
  0.911257 seconds (2.70 M allocations: 396.090 MiB, 7.26% gc time)
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
  7.723598 seconds (23.17 M allocations: 3.641 GiB, 8.22% gc time)
 40.247137 seconds (125.85 M allocations: 18.057 GiB, 7.99% gc time)
  7.269725 seconds (23.17 M allocations: 3.642 GiB, 8.37% gc time)
  7.255927 seconds (23.17 M allocations: 3.642 GiB, 7.78% gc time)
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Passed
Test Summary: | Pass  Total      Time
FlxQTL.jl     |  244    244  20m28.3s
     Testing FlxQTL tests passed 

Testing completed after 1097.24s

PkgEval succeeded after 1325.12s