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rename the iterator class

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This commit is contained in:
Eric Coissac
2023-01-22 22:04:17 +01:00
parent 4592855095
commit f97f92df72
37 changed files with 399 additions and 354 deletions
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6
pkg/obitools/obirefidx/obirefidx.go
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@@ -32,7 +32,7 @@ func IndexSequence(seqidx int,
// r := 0
// w := 0
for i, ref := range references {
lcs, alilength := obialign.FastLCSScore(sequence, ref, -1 , &matrix)
lcs, alilength := obialign.FastLCSScore(sequence, ref, -1, &matrix)
score[i] = alilength - lcs
}
@@ -88,7 +88,7 @@ func IndexSequence(seqidx int,
return obitag_index
}
func IndexReferenceDB(iterator obiiter.IBioSequenceBatch) obiiter.IBioSequenceBatch {
func IndexReferenceDB(iterator obiiter.IBioSequence) obiiter.IBioSequence {
references := iterator.Load()
refcounts := make(
@@ -118,7 +118,7 @@ func IndexReferenceDB(iterator obiiter.IBioSequenceBatch) obiiter.IBioSequenceBa
bar := progressbar.NewOptions(len(references), pbopt...)
limits := make(chan [2]int)
indexed := obiiter.MakeIBioSequenceBatch()
indexed := obiiter.MakeIBioSequence()
go func() {
for i := 0; i < len(references); i += 10 {
limits <- [2]int{i, goutils.MinInt(i+10, len(references))}