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Refactor sequence processing for parallel loading and memory management

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This commit introduces significant changes to the sequence processing pipeline, implementing parallel loading, k-mer budget control, explicit memory management, and refined logic for pair evaluation and resolution.
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Eric Coissac committed 2026-11-03 22:53:54 +11:00
1 parent d6dd39f878
commit 8cc02aa9c1
28 files changed
+1673 -382
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pkg/obiprimer/reference.go
+2 -2
View File
@@ -34,8 +34,8 @@ func referenceSites(raw []byte, h refHit, p PairParams, swappedByOrder bool) (lo
// the exchange due to the string order flips it again.
firstIsUpstream := h.swapped == swappedByOrder
location = "join(" + span(int(h.up.pos), lp, n, p.Circular) + "," + span(int(h.down.pos), lp, n, p.Circular) + ")"
region := []byte(strings.ToLower(string(raw[int(h.up.pos)+lp : int(h.down.pos)])))
location = "join(" + span(int(h.up.pos()), lp, n, p.Circular) + "," + span(int(h.down.pos()), lp, n, p.Circular) + ")"
region := []byte(strings.ToLower(string(raw[int(h.up.pos())+lp : int(h.down.pos())])))
if firstIsUpstream {
return location, string(region)
}