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Reduce memory allocation events

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Former-commit-id: fbdb2afc857b02adc2593e2278d3bd838e99b0b2
This commit is contained in:
Eric Coissac
2024-06-22 21:01:53 +02:00
parent 54a138196c
commit e6b87ecd02
19 changed files with 166 additions and 75 deletions
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6
pkg/obiformats/fastqseq_read.go
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@ -112,7 +112,7 @@ func _storeSequenceQuality(bytes *bytes.Buffer, out *obiseq.BioSequence, quality
}
for i := 0; i < len(q); i++ {
q[i] = q[i] - quality_shift
q[i] -= quality_shift
}
out.SetQualities(q)
}
@ -309,7 +309,9 @@ func ReadFastq(reader io.Reader, options ...WithOption) (obiiter.IBioSequence, e
nworker := opt.ParallelWorkers()
chunkorder := obiutils.AtomicCounter()
chkchan := ReadSeqFileChunk(reader, _EndOfLastFastqEntry)
buff := make([]byte, 1024*1024*1024)
chkchan := ReadSeqFileChunk(reader, buff, _EndOfLastFastqEntry)
for i := 0; i < nworker; i++ {
out.Add(1)