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refactoring of the file chunck writing

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This commit is contained in:
Eric Coissac
2024-11-29 18:15:03 +01:00
parent 69ef1758a2
commit 00b0edc15a
16 changed files with 71 additions and 98 deletions
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5
pkg/obiformats/fastaseq_read.go
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@@ -205,7 +205,7 @@ func FastaChunkParser() func(string, io.Reader) (obiseq.BioSequenceSlice, error)
}
func _ParseFastaFile(
input ChannelSeqFileChunk,
input ChannelFileChunk,
out obiiter.IBioSequence,
) {
@@ -213,6 +213,7 @@ func _ParseFastaFile(
for chunks := range input {
sequences, err := parser(chunks.Source, chunks.Raw)
// log.Warnf("Chunck(%d:%d) -%d- ", chunks.Order, l, sequences.Len())
if err != nil {
log.Fatalf("File %s : Cannot parse the fasta file : %v", chunks.Source, err)
@@ -234,7 +235,7 @@ func ReadFasta(reader io.Reader, options ...WithOption) (obiiter.IBioSequence, e
buff := make([]byte, 1024*1024)
chkchan := ReadSeqFileChunk(
chkchan := ReadFileChunk(
opt.Source(),
reader,
buff,