Package evaluation of LineageCollapse on Julia 1.11.4 (a71dd056e0*) started at 2025-04-08T14:13:14.956


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# Set-up
#

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 8.52s


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# Installation
#

Installing LineageCollapse...
   Resolving package versions...
    Updating `~/.julia/environments/v1.11/Project.toml`
  [e38bdfdf] + LineageCollapse v0.0.13
    Updating `~/.julia/environments/v1.11/Manifest.toml`
  [66dad0bd] + AliasTables v1.1.3
  [7e6ae17a] + BioSequences v3.4.1
  [3c28c6f8] + BioSymbols v5.1.3
  [336ed68f] + CSV v0.10.15
  [aaaa29a8] + Clustering v0.15.8
  [944b1d66] + CodecZlib v0.7.8
  [34da2185] + Compat v4.16.0
  [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
  [b4f34e82] + Distances v0.10.12
  [ffbed154] + DocStringExtensions v0.9.4
  [48062228] + FilePathsBase v0.9.24
  [842dd82b] + InlineStrings v1.4.3
  [41ab1584] + InvertedIndices v1.3.1
  [92d709cd] + IrrationalConstants v0.2.4
  [82899510] + IteratorInterfaceExtensions v1.0.0
  [b964fa9f] + LaTeXStrings v1.4.0
  [e38bdfdf] + LineageCollapse v0.0.13
  [2ab3a3ac] + LogExpFunctions v0.3.29
  [e1d29d7a] + Missings v1.2.0
  [b8a86587] + NearestNeighbors v0.4.21
  [bac558e1] + OrderedCollections v1.8.0
  [69de0a69] + Parsers v2.8.1
  [2dfb63ee] + PooledArrays v1.4.3
⌅ [aea7be01] + PrecompileTools v1.2.1
  [21216c6a] + Preferences v1.4.3
  [08abe8d2] + PrettyTables v2.4.0
  [92933f4c] + ProgressMeter v1.10.4
  [43287f4e] + PtrArrays v1.3.0
  [189a3867] + Reexport v1.2.2
  [91c51154] + SentinelArrays v1.4.8
  [a2af1166] + SortingAlgorithms v1.2.1
  [90137ffa] + StaticArrays v1.9.13
  [1e83bf80] + StaticArraysCore v1.4.3
  [10745b16] + Statistics v1.11.1
  [82ae8749] + StatsAPI v1.7.0
  [2913bbd2] + StatsBase v0.34.4
  [88034a9c] + StringDistances v0.11.3
  [892a3eda] + StringManipulation v0.4.1
  [3783bdb8] + TableTraits v1.0.1
  [bd369af6] + Tables v1.12.0
  [3bb67fe8] + TranscodingStreams v0.11.3
  [7200193e] + Twiddle v1.1.2
  [ea10d353] + WeakRefStrings v1.4.2
  [76eceee3] + WorkerUtilities v1.6.1
  [56f22d72] + Artifacts v1.11.0
  [2a0f44e3] + Base64 v1.11.0
  [ade2ca70] + Dates v1.11.0
  [8ba89e20] + Distributed v1.11.0
  [9fa8497b] + Future v1.11.0
  [b77e0a4c] + InteractiveUtils v1.11.0
  [8f399da3] + Libdl v1.11.0
  [37e2e46d] + LinearAlgebra 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 v0.7.0
  [9e88b42a] + Serialization v1.11.0
  [6462fe0b] + Sockets v1.11.0
  [2f01184e] + SparseArrays v1.11.0
  [fa267f1f] + TOML v1.0.3
  [cf7118a7] + UUIDs v1.11.0
  [4ec0a83e] + Unicode v1.11.0
  [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0
  [4536629a] + OpenBLAS_jll v0.3.27+1
  [bea87d4a] + SuiteSparse_jll v7.7.0+0
  [83775a58] + Zlib_jll v1.2.13+1
  [8e850b90] + libblastrampoline_jll v5.11.0+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 4.16s


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# Precompilation
#

Precompiling PkgEval dependencies...

Precompiling package dependencies...

Precompilation completed after 37.35s


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# Testing
#

     Testing LineageCollapse
      Status `/tmp/jl_F8WJKB/Project.toml`
  [7e6ae17a] BioSequences v3.4.1
  [336ed68f] CSV v0.10.15
  [aaaa29a8] Clustering v0.15.8
  [a93c6f00] DataFrames v1.7.0
  [e38bdfdf] LineageCollapse v0.0.13
  [92933f4c] ProgressMeter v1.10.4
  [88034a9c] StringDistances v0.11.3
  [37e2e46d] LinearAlgebra v1.11.0
  [2f01184e] SparseArrays v1.11.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_F8WJKB/Manifest.toml`
  [66dad0bd] AliasTables v1.1.3
  [7e6ae17a] BioSequences v3.4.1
  [3c28c6f8] BioSymbols v5.1.3
  [336ed68f] CSV v0.10.15
  [aaaa29a8] Clustering v0.15.8
  [944b1d66] CodecZlib v0.7.8
  [34da2185] Compat v4.16.0
  [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
  [b4f34e82] Distances v0.10.12
  [ffbed154] DocStringExtensions v0.9.4
  [48062228] FilePathsBase v0.9.24
  [842dd82b] InlineStrings v1.4.3
  [41ab1584] InvertedIndices v1.3.1
  [92d709cd] IrrationalConstants v0.2.4
  [82899510] IteratorInterfaceExtensions v1.0.0
  [b964fa9f] LaTeXStrings v1.4.0
  [e38bdfdf] LineageCollapse v0.0.13
  [2ab3a3ac] LogExpFunctions v0.3.29
  [e1d29d7a] Missings v1.2.0
  [b8a86587] NearestNeighbors v0.4.21
  [bac558e1] OrderedCollections v1.8.0
  [69de0a69] Parsers v2.8.1
  [2dfb63ee] PooledArrays v1.4.3
⌅ [aea7be01] PrecompileTools v1.2.1
  [21216c6a] Preferences v1.4.3
  [08abe8d2] PrettyTables v2.4.0
  [92933f4c] ProgressMeter v1.10.4
  [43287f4e] PtrArrays v1.3.0
  [189a3867] Reexport v1.2.2
  [91c51154] SentinelArrays v1.4.8
  [a2af1166] SortingAlgorithms v1.2.1
  [90137ffa] StaticArrays v1.9.13
  [1e83bf80] StaticArraysCore v1.4.3
  [10745b16] Statistics v1.11.1
  [82ae8749] StatsAPI v1.7.0
  [2913bbd2] StatsBase v0.34.4
  [88034a9c] StringDistances v0.11.3
  [892a3eda] StringManipulation v0.4.1
  [3783bdb8] TableTraits v1.0.1
  [bd369af6] Tables v1.12.0
  [3bb67fe8] TranscodingStreams v0.11.3
  [7200193e] Twiddle v1.1.2
  [ea10d353] WeakRefStrings v1.4.2
  [76eceee3] WorkerUtilities v1.6.1
  [56f22d72] Artifacts v1.11.0
  [2a0f44e3] Base64 v1.11.0
  [ade2ca70] Dates v1.11.0
  [8ba89e20] Distributed v1.11.0
  [9fa8497b] Future v1.11.0
  [b77e0a4c] InteractiveUtils v1.11.0
  [8f399da3] Libdl v1.11.0
  [37e2e46d] LinearAlgebra v1.11.0
  [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 v0.7.0
  [9e88b42a] Serialization v1.11.0
  [6462fe0b] Sockets v1.11.0
  [2f01184e] SparseArrays v1.11.0
  [fa267f1f] TOML v1.0.3
  [8dfed614] Test v1.11.0
  [cf7118a7] UUIDs v1.11.0
  [4ec0a83e] Unicode v1.11.0
  [e66e0078] CompilerSupportLibraries_jll v1.1.1+0
  [4536629a] OpenBLAS_jll v0.3.27+1
  [bea87d4a] SuiteSparse_jll v7.7.0+0
  [83775a58] Zlib_jll v1.2.13+1
  [8e850b90] libblastrampoline_jll v5.11.0+0
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading.
     Testing Running tests...
[ Info: Processing 5 rows
[ Info: Dropped missing CDR3 rows: 4
[ Info: Dropped stop codons: 3
[ Info: Processing 5 rows
[ Info: Dropped missing CDR3 rows: 4
[ Info: Dropped stop codons: 3
[ Info: Dropped short (≤4) D region sequences: 0
[ Info: Processing 5 rows
[ Info: Dropped missing CDR3 rows: 4
[ Info: Dropped stop codons: 3
[ Info: Deduplicated using sequence only: 2
[ Info: Processing 5 rows
[ Info: Dropped missing CDR3 rows: 4
[ Info: Dropped stop codons: 3
[ Info: Deduplicated using sequence and barcode: 3
[ Info: Processing 2 rows
[ Info: Dropped missing CDR3 rows: 2
[ Info: Dropped stop codons: 2
[ Info: Dropped short (≤3) D region sequences: 1
[ Info: Processing 2 rows
[ Info: Dropped missing CDR3 rows: 0
[ Info: Dropped stop codons: 0
[ Info: Deduplicated using sequence only: 2
[ Info: Deduplicated using sequence and barcode: 3
[ Info: Deduplicated using sequence only: 2
Test Summary:      | Pass  Total     Time
LineageCollapse.jl |   78     78  3m04.5s
     Testing LineageCollapse tests passed 

Testing completed after 194.88s

PkgEval succeeded after 255.76s