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1.6.0-DEV-7d3dac44dc.log
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1.6.0-DEV-7d3dac44dc.log
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Julia Version 1.6.0-DEV.1148
Commit 7d3dac44dc (2020-10-06 21:26 UTC)
Platform Info:
OS: Linux (x86_64-pc-linux-gnu)
CPU: AMD EPYC 7502 32-Core Processor
WORD_SIZE: 64
LIBM: libopenlibm
LLVM: libLLVM-10.0.1 (ORCJIT, znver2)
Environment:
JULIA_DEPOT_PATH = ::/usr/local/share/julia
JULIA_NUM_THREADS = 2
Resolving package versions...
Installed StableRNGs ────────── v0.1.2
Installed Compat ────────────── v3.18.0
Installed TranscodingStreams ── v0.9.5
Installed Twiddle ───────────── v1.1.2
Installed IndexableBitVectors ─ v1.0.0
Installed ReadDatastores ────── v0.4.0
Installed DataStructures ────── v0.18.7
Installed BioSequences ──────── v2.0.5
Installed FASTX ─────────────── v1.1.3
Installed Combinatorics ─────── v1.0.2
Installed BioSymbols ────────── v4.0.4
Installed OrderedCollections ── v1.3.1
Installed Automa ────────────── v0.8.0
Installed BioGenerics ───────── v0.1.0
Updating `~/.julia/environments/v1.6/Project.toml`
[70a005b8] + ReadDatastores v0.4.0
Updating `~/.julia/environments/v1.6/Manifest.toml`
[67c07d97] + Automa v0.8.0
[47718e42] + BioGenerics v0.1.0
[7e6ae17a] + BioSequences v2.0.5
[3c28c6f8] + BioSymbols v4.0.4
[861a8166] + Combinatorics v1.0.2
[34da2185] + Compat v3.18.0
[864edb3b] + DataStructures v0.18.7
[c2308a5c] + FASTX v1.1.3
[1cb3b9ac] + IndexableBitVectors v1.0.0
[bac558e1] + OrderedCollections v1.3.1
[70a005b8] + ReadDatastores v0.4.0
[860ef19b] + StableRNGs v0.1.2
[3bb67fe8] + TranscodingStreams v0.9.5
[7200193e] + Twiddle v1.1.2
[56f22d72] + Artifacts
[2a0f44e3] + Base64
[ade2ca70] + Dates
[8bb1440f] + DelimitedFiles
[8ba89e20] + Distributed
[b77e0a4c] + InteractiveUtils
[76f85450] + LibGit2
[8f399da3] + Libdl
[37e2e46d] + LinearAlgebra
[56ddb016] + Logging
[d6f4376e] + Markdown
[a63ad114] + Mmap
[44cfe95a] + Pkg
[de0858da] + Printf
[3fa0cd96] + REPL
[9a3f8284] + Random
[ea8e919c] + SHA
[9e88b42a] + Serialization
[1a1011a3] + SharedArrays
[6462fe0b] + Sockets
[2f01184e] + SparseArrays
[10745b16] + Statistics
[fa267f1f] + TOML
[8dfed614] + Test
[cf7118a7] + UUIDs
[4ec0a83e] + Unicode
Testing ReadDatastores
Status `/tmp/jl_9IG7vX/Project.toml`
[7e6ae17a] BioSequences v2.0.5
[c2308a5c] FASTX v1.1.3
[70a005b8] ReadDatastores v0.4.0
[8dfed614] Test
Status `/tmp/jl_9IG7vX/Manifest.toml`
[67c07d97] Automa v0.8.0
[47718e42] BioGenerics v0.1.0
[7e6ae17a] BioSequences v2.0.5
[3c28c6f8] BioSymbols v4.0.4
[861a8166] Combinatorics v1.0.2
[34da2185] Compat v3.18.0
[864edb3b] DataStructures v0.18.7
[c2308a5c] FASTX v1.1.3
[1cb3b9ac] IndexableBitVectors v1.0.0
[bac558e1] OrderedCollections v1.3.1
[70a005b8] ReadDatastores v0.4.0
[860ef19b] StableRNGs v0.1.2
[3bb67fe8] TranscodingStreams v0.9.5
[7200193e] Twiddle v1.1.2
[56f22d72] Artifacts
[2a0f44e3] Base64
[ade2ca70] Dates
[8bb1440f] DelimitedFiles
[8ba89e20] Distributed
[b77e0a4c] InteractiveUtils
[76f85450] LibGit2
[8f399da3] Libdl
[37e2e46d] LinearAlgebra
[56ddb016] Logging
[d6f4376e] Markdown
[a63ad114] Mmap
[44cfe95a] Pkg
[de0858da] Printf
[3fa0cd96] REPL
[9a3f8284] Random
[ea8e919c] SHA
[9e88b42a] Serialization
[1a1011a3] SharedArrays
[6462fe0b] Sockets
[2f01184e] SparseArrays
[10745b16] Statistics
[fa267f1f] TOML
[8dfed614] Test
[cf7118a7] UUIDs
[4ec0a83e] Unicode
Testing Running tests...
[ Info: Compiling bit-parallel GC counter for LongSequence{<:NucleicAcidAlphabet}
[ Info: Compiling bit-parallel mismatch counter for LongSequence{<:NucleicAcidAlphabet}
[ Info: Compiling bit-parallel match counter for LongSequence{<:NucleicAcidAlphabet}
[ Info: Compiling bit-parallel ambiguity counter...
[ Info: For a single LongSequence{<:NucleicAcidAlphabet}
[ Info: For a pair of LongSequence{<:NucleicAcidAlphabet}s
[ Info: Compiling bit-parallel certainty counter for LongSequence{<:NucleicAcidAlphabet}
[ Info: Compiling bit-parallel gap counter for LongSequence{<:NucleicAcidAlphabet}
[ 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
Paired read datastores | 38 38
[ 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
Long read datastores | 36 36
[ 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
Linked read datastores | 20 20
Test Summary: | Pass Total
Error Messages | 6 6
Testing ReadDatastores tests passed