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Refactoring related to iterators

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This commit is contained in:
Eric Coissac
2022-11-16 17:13:03 +01:00
parent 6f853da9df
commit 09fc426b67
29 changed files with 95 additions and 93 deletions
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14
pkg/obiformats/genbank_read.go
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@ -20,10 +20,10 @@ type gbstate int
const (
inHeader gbstate = 0
inEntry = 1
inDefinition = 2
inFeature = 3
inSequence = 4
inEntry gbstate = 1
inDefinition gbstate = 2
inFeature gbstate = 3
inSequence gbstate = 4
)
func _ParseGenbankFile(input <-chan _FileChunk, out obiiter.IBioSequenceBatch) {
@ -107,7 +107,7 @@ func _ParseGenbankFile(input <-chan _FileChunk, out obiiter.IBioSequenceBatch) {
}
func ReadGenbankBatch(reader io.Reader, options ...WithOption) obiiter.IBioSequenceBatch {
func ReadGenbank(reader io.Reader, options ...WithOption) obiiter.IBioSequenceBatch {
opt := MakeOptions(options)
entry_channel := make(chan _FileChunk, opt.BufferSize())
@ -130,7 +130,7 @@ func ReadGenbankBatch(reader io.Reader, options ...WithOption) obiiter.IBioSeque
return newIter
}
func ReadGenbankBatchFromFile(filename string, options ...WithOption) (obiiter.IBioSequenceBatch, error) {
func ReadGenbankFromFile(filename string, options ...WithOption) (obiiter.IBioSequenceBatch, error) {
var reader io.Reader
var greader io.Reader
var err error
@ -148,5 +148,5 @@ func ReadGenbankBatchFromFile(filename string, options ...WithOption) (obiiter.I
reader = greader
}
return ReadGenbankBatch(reader, options...), nil
return ReadGenbank(reader, options...), nil
}