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Change the way sequence definition are managed. They are now when present stored as an attribute

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Former-commit-id: 6e618377c05b42937d2eace3c9668390980ab68c
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Eric Coissac
2023-10-05 07:21:12 +02:00
parent 5c30ec354f
commit d23a911080
11 changed files with 115 additions and 30 deletions
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18
pkg/obiapat/pattern.go
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@ -298,6 +298,24 @@ func (pattern ApatPattern) FindAllIndex(sequence ApatSequence, begin, length int
return loc
}
// BestMatch finds the best match of a given pattern in a sequence.
//
// THe function identify the first occurrence of the pattern in the sequence.
// The search can be limited to a portion of the sequence using the begin and
// length parameters to find the next occurrences.
//
// The BestMatch methood ins
// It takes the following parameters:
// - pattern: the pattern to search for (ApatPattern).
// - sequence: the sequence to search in (ApatSequence).
// - begin: the starting index of the search (int).
// - length: the length of the search (int).
//
// It returns the following values:
// - start: the starting index of the best match (int).
// - end: the ending index of the best match (int).
// - nerr: the number of errors in the best match (int).
// - matched: a boolean indicating whether a match was found (bool).
func (pattern ApatPattern) BestMatch(sequence ApatSequence, begin, length int) (start int, end int, nerr int, matched bool) {
res := pattern.FindAllIndex(sequence, begin, length)