Package evaluation of ReadDatastores on Julia 1.11.4 (a71dd056e0*) started at 2025-04-08T08:55:23.052


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# Set-up
#

Installing PkgEval dependencies (TestEnv)...

Set-up completed after 9.1s


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# Installation
#

Installing ReadDatastores...
   Resolving package versions...
    Updating `~/.julia/environments/v1.11/Project.toml`
  [70a005b8] + ReadDatastores v0.4.0
    Updating `~/.julia/environments/v1.11/Manifest.toml`
⌅ [67c07d97] + Automa v0.8.4
  [47718e42] + BioGenerics v0.1.5
⌅ [7e6ae17a] + BioSequences v2.0.6
⌅ [3c28c6f8] + BioSymbols v4.0.4
  [861a8166] + Combinatorics v1.0.2
⌅ [c2308a5c] + FASTX v1.2.0
  [1cb3b9ac] + IndexableBitVectors v1.0.0
  [70a005b8] + ReadDatastores v0.4.0
⌅ [860ef19b] + StableRNGs v0.1.2
⌅ [3bb67fe8] + TranscodingStreams v0.9.13
  [7200193e] + Twiddle v1.1.2
  [2a0f44e3] + Base64 v1.11.0
  [b77e0a4c] + InteractiveUtils v1.11.0
  [56ddb016] + Logging v1.11.0
  [d6f4376e] + Markdown v1.11.0
  [de0858da] + Printf v1.11.0
  [9a3f8284] + Random v1.11.0
  [ea8e919c] + SHA v0.7.0
  [9e88b42a] + Serialization v1.11.0
  [8dfed614] + Test v1.11.0
  [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 To see why use `status --outdated -m`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 2.34s


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# Precompilation
#

Precompiling PkgEval dependencies...

Precompiling package dependencies...

Precompilation completed after 57.67s


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# Testing
#

     Testing ReadDatastores
      Status `/tmp/jl_ziTG4D/Project.toml`
⌅ [7e6ae17a] BioSequences v2.0.6
⌅ [c2308a5c] FASTX v1.2.0
  [70a005b8] ReadDatastores v0.4.0
  [8dfed614] Test v1.11.0
      Status `/tmp/jl_ziTG4D/Manifest.toml`
⌅ [67c07d97] Automa v0.8.4
  [47718e42] BioGenerics v0.1.5
⌅ [7e6ae17a] BioSequences v2.0.6
⌅ [3c28c6f8] BioSymbols v4.0.4
  [861a8166] Combinatorics v1.0.2
⌅ [c2308a5c] FASTX v1.2.0
  [1cb3b9ac] IndexableBitVectors v1.0.0
  [70a005b8] ReadDatastores v0.4.0
⌅ [860ef19b] StableRNGs v0.1.2
⌅ [3bb67fe8] TranscodingStreams v0.9.13
  [7200193e] Twiddle v1.1.2
  [2a0f44e3] Base64 v1.11.0
  [b77e0a4c] InteractiveUtils v1.11.0
  [56ddb016] Logging v1.11.0
  [d6f4376e] Markdown v1.11.0
  [de0858da] Printf v1.11.0
  [9a3f8284] Random v1.11.0
  [ea8e919c] SHA v0.7.0
  [9e88b42a] Serialization v1.11.0
  [8dfed614] Test v1.11.0
  [4ec0a83e] Unicode v1.11.0
        Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading.
     Testing Running tests...
[ Info: Building paired read datastore from FASTQ files
[ Info: Writing paired reads to datastore
[ Info: Done writing paired read sequences to datastore
[ Info: 0 read pairs were discarded due to a too short sequence
[ Info: 8 reads were truncated to 300 base pairs
[ Info: Created paired sequence datastore with 10 sequence pairs
[ Info: Building paired read datastore from FASTQ files
[ Info: Writing paired reads to datastore
[ Info: Done writing paired read sequences to datastore
[ Info: 0 read pairs were discarded due to a too short sequence
[ Info: 8 reads were truncated to 300 base pairs
[ Info: Created paired sequence datastore with 10 sequence pairs
Test Summary:          | Pass  Total   Time
Paired read datastores |   38     38  13.4s
[ Info: Building long read datastore from FASTQ file
[ Info: Writing long reads to datastore
[ Info: Done writing long read sequences to datastore
[ Info: 0 reads were discarded due to a too short sequence
[ Info: Writing index to datastore
[ Info: Built long read datastore with 10 reads
[ Info: Resizing buffer!
[ Info: Resizing buffer!
[ Info: Resizing buffer!
[ Info: Resizing buffer!
[ Info: Building long read datastore from FASTQ file
[ Info: Writing long reads to datastore
[ Info: Done writing long read sequences to datastore
[ Info: 0 reads were discarded due to a too short sequence
[ Info: Writing index to datastore
[ Info: Built long read datastore with 10 reads
[ Info: Resizing buffer!
[ Info: Resizing buffer!
[ Info: Resizing buffer!
[ Info: Resizing buffer!
Test Summary:        | Pass  Total  Time
Long read datastores |   36     36  4.1s
[ Info: Building tag sorted chunks of 10 pairs
[ Info: Dumping 10 tag-sorted read pairs to chunk 0
[ Info: Dumped
[ Info: Processed 10 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 1
[ Info: Dumped
[ Info: Processed 20 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 2
[ Info: Dumped
[ Info: Processed 30 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 3
[ Info: Dumped
[ Info: Processed 40 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 4
[ Info: Dumped
[ Info: Processed 50 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 5
[ Info: Dumped
[ Info: Processed 60 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 6
[ Info: Dumped
[ Info: Processed 70 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 7
[ Info: Dumped
[ Info: Processed 80 read pairs so far
[ Info: Dumping 3 tag-sorted read pairs to chunk 8
[ Info: Dumped
[ Info: Processed 83 read pairs so far
[ Info: Finished building tag sorted chunks
[ Info: Performing merge from disk
[ Info: Leaving space for 83 read_tag entries
[ Info: Chunk 6 is finished
[ Info: Chunk 8 is finished
[ Info: Chunk 0 is finished
[ Info: Chunk 7 is finished
[ Info: Chunk 4 is finished
[ Info: Chunk 3 is finished
[ Info: Chunk 5 is finished
[ Info: Chunk 2 is finished
[ Info: Chunk 1 is finished
[ Info: Finished merge from disk
[ Info: Writing 83 read tag entries
[ Info: Created linked sequence datastore with 83 sequence pairs
[ Info: Building tag sorted chunks of 10 pairs
[ Info: Dumping 10 tag-sorted read pairs to chunk 0
[ Info: Dumped
[ Info: Processed 10 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 1
[ Info: Dumped
[ Info: Processed 20 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 2
[ Info: Dumped
[ Info: Processed 30 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 3
[ Info: Dumped
[ Info: Processed 40 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 4
[ Info: Dumped
[ Info: Processed 50 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 5
[ Info: Dumped
[ Info: Processed 60 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 6
[ Info: Dumped
[ Info: Processed 70 read pairs so far
[ Info: Dumping 10 tag-sorted read pairs to chunk 7
[ Info: Dumped
[ Info: Processed 80 read pairs so far
[ Info: Dumping 3 tag-sorted read pairs to chunk 8
[ Info: Dumped
[ Info: Processed 83 read pairs so far
[ Info: Finished building tag sorted chunks
[ Info: Performing merge from disk
[ Info: Leaving space for 83 read_tag entries
[ Info: Chunk 6 is finished
[ Info: Chunk 8 is finished
[ Info: Chunk 0 is finished
[ Info: Chunk 7 is finished
[ Info: Chunk 4 is finished
[ Info: Chunk 3 is finished
[ Info: Chunk 5 is finished
[ Info: Chunk 2 is finished
[ Info: Chunk 1 is finished
[ Info: Finished merge from disk
[ Info: Writing 83 read tag entries
[ Info: Created linked sequence datastore with 83 sequence pairs
Test Summary:          | Pass  Total   Time
Linked read datastores |   20     20  11.9s
Test Summary:  | Pass  Total  Time
Error Messages |    6      6  0.2s
     Testing ReadDatastores tests passed 

Testing completed after 35.29s

PkgEval succeeded after 110.98s