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Changes to be committed:

Browse Source 
modified:   Release-notes.md
	modified:   pkg/obialign/pairedendalign.go
	modified:   pkg/obilua/obiseq.go
	modified:   pkg/obioptions/version.go
	modified:   pkg/obiseq/biosequence.go
	modified:   pkg/obitools/obipairing/pairing.go
This commit is contained in:
Eric Coissac
2024-11-27 09:56:22 +01:00
parent 7884a74f9c
commit d29a56dcbf
6 changed files with 78 additions and 29 deletions
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18
pkg/obitools/obipairing/pairing.go
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@@ -9,6 +9,7 @@ import (
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obiiter"
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obioptions"
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obiseq"
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obiutils"
)
func _Abs(x int) int {
@@ -112,7 +113,7 @@ func AssemblePESequences(seqA, seqB *obiseq.BioSequence,
inplace bool, fastAlign, fastModeRel bool,
arenaAlign obialign.PEAlignArena, shifh_buff *map[int]int) *obiseq.BioSequence {
score, path, fastcount, over, fastscore := obialign.PEAlign(
isLeftAlign, score, path, fastcount, over, fastscore := obialign.PEAlign(
seqA, seqB,
gap, scale,
fastAlign, delta, fastModeRel,
@@ -143,19 +144,14 @@ func AssemblePESequences(seqA, seqB *obiseq.BioSequence,
if aliLength >= minOverlap && identity >= minIdentity {
annot["mode"] = "alignment"
if withStats {
if left < 0 {
annot["seq_a_single"] = -left
if isLeftAlign {
annot["ali_dir"] = "left"
annot["seq_a_single"] = obiutils.Abs(left)
annot["seq_b_single"] = obiutils.Abs(right)
} else {
annot["seq_b_single"] = left
annot["ali_dir"] = "right"
}
if right < 0 {
right = -right
annot["seq_a_single"] = right
} else {
annot["seq_b_single"] = right
annot["seq_a_single"] = obiutils.Abs(right)
annot["seq_b_single"] = obiutils.Abs(left)
}
}
if inplace {