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Patch a bug in obliclean for d>1 leading to some instability in the result

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Eric Coissac
2025-08-07 17:01:38 -04:00
parent 730d448fc3
commit 412b54822c
1 changed files with 17 additions and 12 deletions
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7
pkg/obitools/obiclean/graph.go
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@@ -354,6 +354,7 @@ func extendSimilarityGraph(seqs *[]*seqPCR, step int, workers int) int {
son := (*seqs)[i]
for j := i + 1; j < nseq; j++ {
father := (*seqs)[j]
if father.Count > son.Count {
d, _, _, _ := obialign.D1Or0(son.Sequence, father.Sequence)
if d < 0 {
@@ -370,6 +371,7 @@ func extendSimilarityGraph(seqs *[]*seqPCR, step int, workers int) int {
}
}
}
lineChan := make(chan int)
// idxChan := make(chan [][]Ratio)
@@ -411,7 +413,10 @@ func FilterGraphOnRatio(seqs *[]*seqPCR, ratio float64) {
j := 0
for i, s2 := range e {
e[j] = e[i]
if (c1 / float64((*seqs)[s2.Father].Weight)) <= math.Pow(ratio, float64(e[i].Dist)) {
// log.Warnf("ratio %f, dist: %d, threshold %f",
// c1/float64((*seqs)[s2.Father].Weight),
// e[i].Dist, math.Pow(ratio, float64(e[i].Dist)))
if (c1 / float64((*seqs)[s2.Father].Weight)) < math.Pow(ratio, float64(e[i].Dist)) {
j++
} else {
(*seqs)[s2.Father].SonCount--