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rename goutils to obiutils

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Former-commit-id: 2147f53db972bba571dfdae30c51b62d3e69cec5
This commit is contained in:
Eric Coissac
2023-03-24 10:25:12 +07:00
parent 42aae88520
commit d5e84ec676
33 changed files with 245 additions and 156 deletions
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10
pkg/obialign/fastlcs.go
View File

@ -1,7 +1,7 @@
package obialign
// import (
// "git.metabarcoding.org/lecasofts/go/obitools/pkg/goutils"
// "git.metabarcoding.org/lecasofts/go/obitools/pkg/obiutils"
// "git.metabarcoding.org/lecasofts/go/obitools/pkg/obiseq"
// )
@ -113,11 +113,11 @@ var _notavail = encodeValues(0, 30000, false)
// // in_matrix := false
// x1 := y - lB + extra
// x2 := extra - y
// xs := goutils.MaxInt(goutils.MaxInt(x1, x2), 0)
// xs := obiutils.MaxInt(obiutils.MaxInt(x1, x2), 0)
// x1 = y + extra
// x2 = lA + extra - y
// xf := goutils.MinInt(goutils.MinInt(x1, x2), even-1) + 1
// xf := obiutils.MinInt(obiutils.MinInt(x1, x2), even-1) + 1
// for x := xs; x < xf; x++ {
@ -174,11 +174,11 @@ var _notavail = encodeValues(0, 30000, false)
// // . 9 10 + 2 - 1
// x1 = y - lB + extra + even
// x2 = extra - y + even - 1
// xs = goutils.MaxInt(goutils.MaxInt(x1, x2), even)
// xs = obiutils.MaxInt(obiutils.MaxInt(x1, x2), even)
// x1 = y + extra + even
// x2 = lA + extra - y + even - 1
// xf = goutils.MinInt(goutils.MinInt(x1, x2), width-1) + 1
// xf = obiutils.MinInt(obiutils.MinInt(x1, x2), width-1) + 1
// for x := xs; x < xf; x++ {

10
pkg/obialign/fastlcsegf.go
View File

@ -1,8 +1,8 @@
package obialign
import (
"git.metabarcoding.org/lecasofts/go/obitools/pkg/goutils"
"git.metabarcoding.org/lecasofts/go/obitools/pkg/obiseq"
"git.metabarcoding.org/lecasofts/go/obitools/pkg/obiutils"
log "github.com/sirupsen/logrus"
)
@ -109,11 +109,11 @@ func FastLCSEGFScoreByte(bA, bB []byte, maxError int, endgapfree bool, buffer *[
// in_matrix := false
x1 := y - lB + extra
x2 := extra - y
xs := goutils.MaxInt(goutils.MaxInt(x1, x2), 0)
xs := obiutils.MaxInt(obiutils.MaxInt(x1, x2), 0)
x1 = y + extra
x2 = lA + extra - y
xf := goutils.MinInt(goutils.MinInt(x1, x2), even-1) + 1
xf := obiutils.MinInt(obiutils.MinInt(x1, x2), even-1) + 1
for x := xs; x < xf; x++ {
@ -201,11 +201,11 @@ func FastLCSEGFScoreByte(bA, bB []byte, maxError int, endgapfree bool, buffer *[
// . 9 10 + 2 - 1
x1 = y - lB + extra + even
x2 = extra - y + even - 1
xs = goutils.MaxInt(goutils.MaxInt(x1, x2), even)
xs = obiutils.MaxInt(obiutils.MaxInt(x1, x2), even)
x1 = y + extra + even
x2 = lA + extra - y + even - 1
xf = goutils.MinInt(goutils.MinInt(x1, x2), width-1) + 1
xf = obiutils.MinInt(obiutils.MinInt(x1, x2), width-1) + 1
for x := xs; x < xf; x++ {