Package evaluation to test GeneFinder on Julia 1.11.8 (29b3528cce*) started at 2026-01-20T02:20:01.448


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# Set-up
#

Installing PkgEval dependencies (TestEnv)...
  Activating project at `~/.julia/environments/v1.11`

Set-up completed after 8.9s


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# Installation
#

Installing GeneFinder...
   Resolving package versions...
    Updating `~/.julia/environments/v1.11/Project.toml`
  [2bc6ee46] + GeneFinder v0.8.0
    Updating `~/.julia/environments/v1.11/Manifest.toml`
  [f861b655] + BioMarkovChains v1.0.0
⌅ [7e6ae17a] + BioSequences v3.4.2
  [3c28c6f8] + BioSymbols v5.2.0
  [2bc6ee46] + GeneFinder v0.8.0
  [c8e1da08] + IterTools v1.10.0
  [445028e4] + Kmers v1.2.0
⌅ [aea7be01] + PrecompileTools v1.2.1
  [21216c6a] + Preferences v1.5.1
  [1e83bf80] + StaticArraysCore v1.4.4
  [7200193e] + Twiddle v1.1.2
  [2ef45bd6] + VectorizedKmers v0.9.2
  [ade2ca70] + Dates v1.11.0
  [de0858da] + Printf v1.11.0
  [9a3f8284] + Random v1.11.0
  [ea8e919c] + SHA v0.7.0
  [fa267f1f] + TOML v1.0.3
  [4ec0a83e] + Unicode v1.11.0
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m`

Installation completed after 5.18s


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# Precompilation
#

Precompiling PkgEval dependencies...

Precompiling package dependencies...
Precompiling project...
   1270.6 ms  ✓ VectorizedKmers → BioSequencesExt
  15986.3 ms  ✓ FASTX → BioSequencesExt
   5202.0 ms  ✓ BioMarkovChains
   9544.6 ms  ✓ GeneFinder
  4 dependencies successfully precompiled in 33 seconds. 45 already precompiled.

Precompilation completed after 48.98s


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# Testing
#

     Testing GeneFinder
      Status `/tmp/jl_0pHj2w/Project.toml`
  [4c88cf16] Aqua v0.8.14
  [f861b655] BioMarkovChains v1.0.0
⌅ [7e6ae17a] BioSequences v3.4.2
  [c2308a5c] FASTX v2.1.7
  [2bc6ee46] GeneFinder v0.8.0
  [445028e4] Kmers v1.2.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_0pHj2w/Manifest.toml`
  [4c88cf16] Aqua v0.8.14
  [67c07d97] Automa v1.1.0
  [47718e42] BioGenerics v0.1.5
  [f861b655] BioMarkovChains v1.0.0
⌅ [7e6ae17a] BioSequences v3.4.2
  [3c28c6f8] BioSymbols v5.2.0
  [34da2185] Compat v4.18.1
  [c2308a5c] FASTX v2.1.7
  [2bc6ee46] GeneFinder v0.8.0
  [c8e1da08] IterTools v1.10.0
  [445028e4] Kmers v1.2.0
⌅ [aea7be01] PrecompileTools v1.2.1
  [21216c6a] Preferences v1.5.1
  [fdea26ae] SIMD v3.7.2
  [1e83bf80] StaticArraysCore v1.4.4
  [354b36f9] StringViews v1.3.6
  [3bb67fe8] TranscodingStreams v0.11.3
  [7200193e] Twiddle v1.1.2
  [2ef45bd6] VectorizedKmers v0.9.2
  [0dad84c5] ArgTools v1.1.2
  [56f22d72] Artifacts v1.11.0
  [2a0f44e3] Base64 v1.11.0
  [ade2ca70] Dates v1.11.0
  [f43a241f] Downloads v1.6.0
  [7b1f6079] FileWatching v1.11.0
  [b77e0a4c] InteractiveUtils v1.11.0
  [b27032c2] LibCURL v0.6.4
  [76f85450] LibGit2 v1.11.0
  [8f399da3] Libdl v1.11.0
  [56ddb016] Logging v1.11.0
  [d6f4376e] Markdown v1.11.0
  [ca575930] NetworkOptions v1.2.0
  [44cfe95a] Pkg v1.11.0
  [de0858da] Printf v1.11.0
  [9a3f8284] Random v1.11.0
  [ea8e919c] SHA v0.7.0
  [9e88b42a] Serialization 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
  [deac9b47] LibCURL_jll v8.6.0+0
  [e37daf67] LibGit2_jll v1.7.2+0
  [29816b5a] LibSSH2_jll v1.11.0+1
  [c8ffd9c3] MbedTLS_jll v2.28.6+0
  [14a3606d] MozillaCACerts_jll v2023.12.12
  [83775a58] Zlib_jll v1.2.13+1
  [8e850ede] nghttp2_jll v1.59.0+0
  [3f19e933] p7zip_jll v17.4.0+2
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading.
     Testing Running tests...
Precompiling StringViewsExt...
   1339.1 ms  ✓ Kmers → StringViewsExt
  1 dependency successfully precompiled in 2 seconds. 12 already precompiled.
Test Summary:    | Pass  Total  Time
ORF Construction |   19     19  0.3s
Test Summary:   | Pass  Total  Time
ORF Comparisons |   12     12  2.1s
Test Summary: | Pass  Total  Time
ORFCollection |   18     18  0.5s
Test Summary:       | Pass  Total  Time
Sequence Extraction |   15     15  1.9s
Test Summary: | Pass  Total  Time
Translation   |   13     13  1.5s
Test Summary:             | Pass  Total  Time
ORFCollection Comparisons |    4      4  2.2s
Test Summary:  | Pass  Total  Time
Set Operations |    7      7  1.0s
Test Summary: | Pass  Total  Time
NaiveFinder   |   10     10  0.1s
Test Summary:   | Pass  Total  Time
NaiveFinderLazy |    4      4  0.1s
Test Summary:  | Pass  Total  Time
NaiveCollector |    4      4  1.7s
Test Summary:              | Pass  Total  Time
Lambda Phage (Integration) |  203    203  3.8s
Test Summary: | Pass  Total  Time
Edge Cases    |    7      7  0.0s
Test Summary: | Pass  Total     Time
Aqua tests    |    5      5  2m51.2s
Test Summary:   | Pass  Total  Time
Writing methods |  105    105  2.1s
     Testing GeneFinder tests passed 

Testing completed after 207.49s

PkgEval succeeded after 278.74s