Package evaluation of BioFindr on Julia 1.12.0-rc1.2 (995ff9db19*) started at 2025-07-14T23:36:29.846


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

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 9.22s


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

Installing BioFindr...
   Resolving package versions...
    Updating `~/.julia/environments/v1.12/Project.toml`
  [77580646] + BioFindr v1.0.5
    Updating `~/.julia/environments/v1.12/Manifest.toml`
  [a4c015fc] + ANSIColoredPrinters v0.0.1
  [621f4979] + AbstractFFTs v1.5.0
  [1520ce14] + AbstractTrees v0.4.5
  [79e6a3ab] + Adapt v4.3.0
  [66dad0bd] + AliasTables v1.1.3
  [ec485272] + ArnoldiMethod v0.4.0
  [13072b0f] + AxisAlgorithms v1.1.0
  [77580646] + BioFindr v1.0.5
  [d1d4a3ce] + BitFlags v0.1.9
  [324d7699] + CategoricalArrays v0.10.8
  [d360d2e6] + ChainRulesCore v1.25.2
  [944b1d66] + CodecZlib v0.7.8
  [3da002f7] + ColorTypes v0.12.1
  [34da2185] + Compat v4.17.0
  [f0e56b4a] + ConcurrentUtilities v2.5.0
  [a8cc5b0e] + Crayons v4.1.1
  [9a962f9c] + DataAPI v1.16.0
  [a93c6f00] + DataFrames v1.7.0
  [864edb3b] + DataStructures v0.18.22
  [e2d170a0] + DataValueInterfaces v1.0.0
  [31c24e10] + Distributions v0.25.120
  [ffbed154] + DocStringExtensions v0.9.5
  [e30172f5] + Documenter v1.14.1
  [460bff9d] + ExceptionUnwrapping v0.1.11
  [7a1cc6ca] + FFTW v1.9.0
  [5789e2e9] + FileIO v1.17.0
  [1a297f60] + FillArrays v1.13.0
  [53c48c17] + FixedPointNumbers v0.8.5
  [d7ba0133] + Git v1.4.0
  [86223c79] + Graphs v1.13.0
  [cd3eb016] + HTTP v1.10.17
  [076d061b] + HashArrayMappedTries v0.2.0
  [34004b35] + HypergeometricFunctions v0.3.28
  [b5f81e59] + IOCapture v0.2.5
  [d25df0c9] + Inflate v0.1.5
  [842dd82b] + InlineStrings v1.4.4
  [a98d9a8b] + Interpolations v0.16.1
  [41ab1584] + InvertedIndices v1.3.1
  [92d709cd] + IrrationalConstants v0.2.4
  [82899510] + IteratorInterfaceExtensions v1.0.0
  [033835bb] + JLD2 v0.5.15
  [692b3bcd] + JLLWrappers v1.7.0
  [682c06a0] + JSON v0.21.4
  [5ab0869b] + KernelDensity v0.6.10
  [b964fa9f] + LaTeXStrings v1.4.0
  [0e77f7df] + LazilyInitializedFields v1.3.0
  [16fef848] + LiveServer v1.5.0
  [2ab3a3ac] + LogExpFunctions v0.3.29
  [e6f89c97] + LoggingExtras v1.1.0
⌅ [6c6e2e6c] + MIMEs v0.1.4
  [1914dd2f] + MacroTools v0.5.16
  [d0879d2d] + MarkdownAST v0.1.2
  [739be429] + MbedTLS v1.1.9
  [fa8bd995] + MetaGraphsNext v0.7.3
  [e1d29d7a] + Missings v1.2.0
  [6fe1bfb0] + OffsetArrays v1.17.0
  [4d8831e6] + OpenSSL v1.5.0
  [bac558e1] + OrderedCollections v1.8.1
  [90014a1f] + PDMats v0.11.35
  [69de0a69] + Parsers v2.8.3
  [2dfb63ee] + PooledArrays v1.4.3
  [aea7be01] + PrecompileTools v1.3.2
  [21216c6a] + Preferences v1.4.3
  [08abe8d2] + PrettyTables v2.4.0
  [43287f4e] + PtrArrays v1.3.0
  [1fd47b50] + QuadGK v2.11.2
  [c84ed2f1] + Ratios v0.4.5
  [189a3867] + Reexport v1.2.2
  [2792f1a3] + RegistryInstances v0.1.0
  [ae029012] + Requires v1.3.1
  [79098fc4] + Rmath v0.8.0
  [321657f4] + ScientificTypes v3.1.0
  [30f210dd] + ScientificTypesBase v3.0.0
  [7e506255] + ScopedValues v1.3.0
  [91c51154] + SentinelArrays v1.4.8
  [777ac1f9] + SimpleBufferStream v1.2.0
  [699a6c99] + SimpleTraits v0.9.4
  [a2af1166] + SortingAlgorithms v1.2.1
  [276daf66] + SpecialFunctions v2.5.1
  [90137ffa] + StaticArrays v1.9.13
  [1e83bf80] + StaticArraysCore v1.4.3
  [64bff920] + StatisticalTraits v3.5.0
  [10745b16] + Statistics v1.11.1
  [82ae8749] + StatsAPI v1.7.1
  [2913bbd2] + StatsBase v0.34.5
  [4c63d2b9] + StatsFuns v1.5.0
  [892a3eda] + StringManipulation v0.4.1
  [3783bdb8] + TableTraits v1.0.1
  [bd369af6] + Tables v1.12.1
  [3bb67fe8] + TranscodingStreams v0.11.3
  [5c2747f8] + URIs v1.6.1
  [efce3f68] + WoodburyMatrices v1.0.0
  [2e619515] + Expat_jll v2.6.5+0
  [f5851436] + FFTW_jll v3.3.11+0
  [f8c6e375] + Git_jll v2.50.0+0
  [1d5cc7b8] + IntelOpenMP_jll v2025.0.4+0
  [94ce4f54] + Libiconv_jll v1.18.0+0
  [856f044c] + MKL_jll v2025.0.1+1
  [c8ffd9c3] + MbedTLS_jll v2.28.6+2
  [9bd350c2] + OpenSSH_jll v10.0.1+0
  [efe28fd5] + OpenSpecFun_jll v0.5.6+0
  [f50d1b31] + Rmath_jll v0.5.1+0
  [1317d2d5] + oneTBB_jll v2022.0.0+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 v1.6.0
  [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 v1.12.0
  [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
  [1a1011a3] + SharedArrays v1.11.0
  [6462fe0b] + Sockets v1.11.0
  [2f01184e] + SparseArrays v1.12.0
  [f489334b] + StyledStrings v1.11.0
  [4607b0f0] + SuiteSparse
  [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 v8.11.1+1
  [e37daf67] + LibGit2_jll v1.9.0+0
  [29816b5a] + LibSSH2_jll v1.11.3+1
  [14a3606d] + MozillaCACerts_jll v2025.5.20
  [4536629a] + OpenBLAS_jll v0.3.29+0
  [05823500] + OpenLibm_jll v0.8.5+0
  [458c3c95] + OpenSSL_jll v3.5.1+0
  [efcefdf7] + PCRE2_jll v10.44.0+1
  [bea87d4a] + SuiteSparse_jll v7.8.3+2
  [83775a58] + Zlib_jll v1.3.1+2
  [8e850b90] + libblastrampoline_jll v5.13.1+0
  [8e850ede] + nghttp2_jll v1.64.0+1
  [3f19e933] + p7zip_jll v17.5.0+2
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m`

Installation completed after 4.65s


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# Precompilation
#

Precompiling PkgEval dependencies...

Precompiling package dependencies...

Precompilation completed after 46.49s


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

     Testing BioFindr
        Test Could not use exact versions of packages in manifest, re-resolving. Note: if you do not check your manifest file into source control, then you can probably ignore this message. However, if you do check your manifest file into source control, then you probably want to pass the `allow_reresolve = false` kwarg when calling the `Pkg.test` function.
    Updating `/tmp/jl_HxXk2Y/Project.toml`
  [77580646] + BioFindr v1.0.5
  [a93c6f00] ↑ DataFrames v1.6.1 ⇒ v1.7.0
  [31c24e10] ↑ Distributions v0.25.107 ⇒ v0.25.120
  [5ab0869b] ↑ KernelDensity v0.6.8 ⇒ v0.6.10
  [321657f4] ↑ ScientificTypes v3.0.2 ⇒ v3.1.0
  [276daf66] ↑ SpecialFunctions v2.3.1 ⇒ v2.5.1
  [10745b16] ↑ Statistics v1.10.0 ⇒ v1.11.1
  [2913bbd2] ↑ StatsBase v0.34.2 ⇒ v0.34.5
  [de0858da] ~ Printf ⇒ v1.11.0
  [9a3f8284] ~ Random ⇒ v1.11.0
  [8dfed614] ~ Test ⇒ v1.11.0
    Updating `/tmp/jl_HxXk2Y/Manifest.toml`
  [a4c015fc] + ANSIColoredPrinters v0.0.1
  [1520ce14] + AbstractTrees v0.4.5
  [79e6a3ab] ↑ Adapt v4.0.1 ⇒ v4.3.0
  [66dad0bd] + AliasTables v1.1.3
  [ec485272] + ArnoldiMethod v0.4.0
  [77580646] + BioFindr v1.0.5
  [d1d4a3ce] + BitFlags v0.1.9
  [49dc2e85] - Calculus v0.5.1
  [d360d2e6] ↑ ChainRulesCore v1.20.1 ⇒ v1.25.2
  [944b1d66] + CodecZlib v0.7.8
  [3da002f7] ↑ ColorTypes v0.11.5 ⇒ v0.12.1
  [34da2185] ↑ Compat v4.12.0 ⇒ v4.17.0
  [f0e56b4a] + ConcurrentUtilities v2.5.0
  [a93c6f00] ↑ DataFrames v1.6.1 ⇒ v1.7.0
  [864edb3b] ↑ DataStructures v0.18.16 ⇒ v0.18.22
  [31c24e10] ↑ Distributions v0.25.107 ⇒ v0.25.120
  [ffbed154] ↑ DocStringExtensions v0.9.3 ⇒ v0.9.5
  [e30172f5] + Documenter v1.14.1
  [fa6b7ba4] - DualNumbers v0.6.8
  [460bff9d] + ExceptionUnwrapping v0.1.11
  [7a1cc6ca] ↑ FFTW v1.8.0 ⇒ v1.9.0
  [5789e2e9] + FileIO v1.17.0
  [1a297f60] ↑ FillArrays v1.9.3 ⇒ v1.13.0
  [d7ba0133] + Git v1.4.0
  [86223c79] + Graphs v1.13.0
  [cd3eb016] + HTTP v1.10.17
  [076d061b] + HashArrayMappedTries v0.2.0
  [34004b35] ↑ HypergeometricFunctions v0.3.23 ⇒ v0.3.28
  [b5f81e59] + IOCapture v0.2.5
  [d25df0c9] + Inflate v0.1.5
  [842dd82b] ↑ InlineStrings v1.4.1 ⇒ v1.4.4
  [a98d9a8b] ↑ Interpolations v0.15.1 ⇒ v0.16.1
  [41ab1584] ↑ InvertedIndices v1.3.0 ⇒ v1.3.1
  [92d709cd] ↑ IrrationalConstants v0.2.2 ⇒ v0.2.4
  [033835bb] + JLD2 v0.5.15
  [692b3bcd] ↑ JLLWrappers v1.5.0 ⇒ v1.7.0
  [682c06a0] + JSON v0.21.4
  [5ab0869b] ↑ KernelDensity v0.6.8 ⇒ v0.6.10
  [b964fa9f] ↑ LaTeXStrings v1.3.1 ⇒ v1.4.0
  [0e77f7df] + LazilyInitializedFields v1.3.0
  [16fef848] + LiveServer v1.5.0
  [2ab3a3ac] ↑ LogExpFunctions v0.3.26 ⇒ v0.3.29
  [e6f89c97] + LoggingExtras v1.1.0
⌅ [6c6e2e6c] + MIMEs v0.1.4
  [1914dd2f] + MacroTools v0.5.16
  [d0879d2d] + MarkdownAST v0.1.2
  [739be429] + MbedTLS v1.1.9
  [fa8bd995] + MetaGraphsNext v0.7.3
  [e1d29d7a] ↑ Missings v1.1.0 ⇒ v1.2.0
  [77ba4419] - NaNMath v1.0.2
  [6fe1bfb0] ↑ OffsetArrays v1.13.0 ⇒ v1.17.0
  [4d8831e6] + OpenSSL v1.5.0
  [bac558e1] ↑ OrderedCollections v1.6.3 ⇒ v1.8.1
  [90014a1f] ↑ PDMats v0.11.31 ⇒ v0.11.35
  [69de0a69] ↑ Parsers v2.8.1 ⇒ v2.8.3
  [aea7be01] ↑ PrecompileTools v1.2.0 ⇒ v1.3.2
  [21216c6a] ↑ Preferences v1.4.1 ⇒ v1.4.3
  [08abe8d2] ↑ PrettyTables v2.3.2 ⇒ v2.4.0
  [43287f4e] + PtrArrays v1.3.0
  [1fd47b50] ↑ QuadGK v2.9.4 ⇒ v2.11.2
  [2792f1a3] + RegistryInstances v0.1.0
  [ae029012] ↑ Requires v1.3.0 ⇒ v1.3.1
  [79098fc4] ↑ Rmath v0.7.1 ⇒ v0.8.0
  [321657f4] ↑ ScientificTypes v3.0.2 ⇒ v3.1.0
  [7e506255] + ScopedValues v1.3.0
  [91c51154] ↑ SentinelArrays v1.4.3 ⇒ v1.4.8
  [777ac1f9] + SimpleBufferStream v1.2.0
  [699a6c99] + SimpleTraits v0.9.4
  [276daf66] ↑ SpecialFunctions v2.3.1 ⇒ v2.5.1
  [90137ffa] ↑ StaticArrays v1.9.2 ⇒ v1.9.13
  [1e83bf80] ↑ StaticArraysCore v1.4.2 ⇒ v1.4.3
  [64bff920] ↑ StatisticalTraits v3.4.0 ⇒ v3.5.0
  [10745b16] ↑ Statistics v1.10.0 ⇒ v1.11.1
  [82ae8749] ↑ StatsAPI v1.7.0 ⇒ v1.7.1
  [2913bbd2] ↑ StatsBase v0.34.2 ⇒ v0.34.5
  [4c63d2b9] ↑ StatsFuns v1.3.0 ⇒ v1.5.0
  [892a3eda] ↑ StringManipulation v0.3.4 ⇒ v0.4.1
  [bd369af6] ↑ Tables v1.11.1 ⇒ v1.12.1
  [3bb67fe8] + TranscodingStreams v0.11.3
  [5c2747f8] + URIs v1.6.1
  [2e619515] + Expat_jll v2.6.5+0
  [f5851436] ↑ FFTW_jll v3.3.10+0 ⇒ v3.3.11+0
  [f8c6e375] + Git_jll v2.50.0+0
  [1d5cc7b8] ↑ IntelOpenMP_jll v2024.0.2+0 ⇒ v2025.0.4+0
  [94ce4f54] + Libiconv_jll v1.18.0+0
  [856f044c] ↑ MKL_jll v2024.0.0+0 ⇒ v2025.0.1+1
  [c8ffd9c3] ↑ MbedTLS_jll v2.28.2+1 ⇒ v2.28.6+2
  [9bd350c2] + OpenSSH_jll v10.0.1+0
  [efe28fd5] ↑ OpenSpecFun_jll v0.5.5+0 ⇒ v0.5.6+0
  [f50d1b31] ↑ Rmath_jll v0.4.0+0 ⇒ v0.5.1+0
  [1317d2d5] + oneTBB_jll v2022.0.0+0
  [0dad84c5] ↑ ArgTools v1.1.1 ⇒ v1.1.2
  [56f22d72] ~ Artifacts ⇒ v1.11.0
  [2a0f44e3] ~ Base64 ⇒ v1.11.0
  [ade2ca70] ~ Dates ⇒ v1.11.0
  [8ba89e20] ~ Distributed ⇒ v1.11.0
  [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
  [76f85450] ~ LibGit2 ⇒ v1.11.0
  [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
  [ca575930] ↑ NetworkOptions v1.2.0 ⇒ v1.3.0
  [44cfe95a] ↑ Pkg v1.10.0 ⇒ v1.13.0
  [de0858da] ~ Printf ⇒ v1.11.0
  [3fa0cd96] ~ REPL ⇒ v1.11.0
  [9a3f8284] ~ Random ⇒ v1.11.0
  [9e88b42a] ~ Serialization ⇒ v1.11.0
  [1a1011a3] ~ SharedArrays ⇒ v1.11.0
  [6462fe0b] ~ Sockets ⇒ v1.11.0
  [2f01184e] ↑ SparseArrays v1.10.0 ⇒ v1.12.0
  [f489334b] + StyledStrings v1.11.0
  [8dfed614] ~ Test ⇒ v1.11.0
  [cf7118a7] ~ UUIDs ⇒ v1.11.0
  [4ec0a83e] ~ Unicode ⇒ v1.11.0
  [e66e0078] ↑ CompilerSupportLibraries_jll v1.0.5+1 ⇒ v1.3.0+1
  [deac9b47] ↑ LibCURL_jll v8.4.0+0 ⇒ v8.11.1+1
  [e37daf67] ↑ LibGit2_jll v1.6.4+0 ⇒ v1.9.0+0
  [29816b5a] ↑ LibSSH2_jll v1.11.0+1 ⇒ v1.11.3+1
  [14a3606d] ↑ MozillaCACerts_jll v2023.1.10 ⇒ v2025.5.20
  [4536629a] ↑ OpenBLAS_jll v0.3.23+2 ⇒ v0.3.29+0
  [05823500] ↑ OpenLibm_jll v0.8.1+2 ⇒ v0.8.5+0
  [458c3c95] + OpenSSL_jll v3.5.1+0
  [efcefdf7] + PCRE2_jll v10.44.0+1
  [bea87d4a] ↑ SuiteSparse_jll v7.2.1+1 ⇒ v7.8.3+2
  [83775a58] ↑ Zlib_jll v1.2.13+1 ⇒ v1.3.1+2
  [8e850b90] ↑ libblastrampoline_jll v5.8.0+1 ⇒ v5.13.1+0
  [8e850ede] ↑ nghttp2_jll v1.52.0+1 ⇒ v1.64.0+1
  [3f19e933] ↑ p7zip_jll v17.4.0+2 ⇒ v17.5.0+2
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m`
        Test Successfully re-resolved
      Status `/tmp/jl_HxXk2Y/Project.toml`
  [77580646] BioFindr v1.0.5
  [a93c6f00] DataFrames v1.7.0
  [31c24e10] Distributions v0.25.120
  [5ab0869b] KernelDensity v0.6.10
  [321657f4] ScientificTypes v3.1.0
  [276daf66] SpecialFunctions v2.5.1
  [10745b16] Statistics v1.11.1
  [2913bbd2] StatsBase v0.34.5
  [de0858da] Printf v1.11.0
  [9a3f8284] Random v1.11.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_HxXk2Y/Manifest.toml`
  [a4c015fc] ANSIColoredPrinters v0.0.1
  [621f4979] AbstractFFTs v1.5.0
  [1520ce14] AbstractTrees v0.4.5
  [79e6a3ab] Adapt v4.3.0
  [66dad0bd] AliasTables v1.1.3
  [ec485272] ArnoldiMethod v0.4.0
  [13072b0f] AxisAlgorithms v1.1.0
  [77580646] BioFindr v1.0.5
  [d1d4a3ce] BitFlags v0.1.9
  [324d7699] CategoricalArrays v0.10.8
  [d360d2e6] ChainRulesCore v1.25.2
  [944b1d66] CodecZlib v0.7.8
  [3da002f7] ColorTypes v0.12.1
  [34da2185] Compat v4.17.0
  [f0e56b4a] ConcurrentUtilities v2.5.0
  [a8cc5b0e] Crayons v4.1.1
  [9a962f9c] DataAPI v1.16.0
  [a93c6f00] DataFrames v1.7.0
  [864edb3b] DataStructures v0.18.22
  [e2d170a0] DataValueInterfaces v1.0.0
  [31c24e10] Distributions v0.25.120
  [ffbed154] DocStringExtensions v0.9.5
  [e30172f5] Documenter v1.14.1
  [460bff9d] ExceptionUnwrapping v0.1.11
  [7a1cc6ca] FFTW v1.9.0
  [5789e2e9] FileIO v1.17.0
  [1a297f60] FillArrays v1.13.0
  [53c48c17] FixedPointNumbers v0.8.5
  [d7ba0133] Git v1.4.0
  [86223c79] Graphs v1.13.0
  [cd3eb016] HTTP v1.10.17
  [076d061b] HashArrayMappedTries v0.2.0
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        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading.
     Testing Running tests...
Precompiling packages...
  55096.6 ms  ✓ BioFindr
  1 dependency successfully precompiled in 61 seconds. 167 already precompiled.
Test Summary: | Pass  Total     Time
BioFindr.jl   |  145    145  2m01.0s
     Testing BioFindr tests passed 

Testing completed after 215.35s

PkgEval succeeded after 290.4s