public class DuplicateSetIterator extends java.lang.Object implements CloseableIterator<DuplicateSet>
| Constructor and Description |
|---|
DuplicateSetIterator(CloseableIterator<SAMRecord> iterator,
SAMFileHeader header) |
DuplicateSetIterator(CloseableIterator<SAMRecord> iterator,
SAMFileHeader header,
boolean preSorted) |
DuplicateSetIterator(CloseableIterator<SAMRecord> iterator,
SAMFileHeader header,
boolean preSorted,
SAMRecordDuplicateComparator comparator) |
DuplicateSetIterator(CloseableIterator<SAMRecord> iterator,
SAMFileHeader header,
boolean preSorted,
SAMRecordDuplicateComparator comparator,
Log log)
Allows the user of this iterator to skip the sorting of the input if the input is already sorted.
|
| Modifier and Type | Method and Description |
|---|---|
void |
close()
Should be implemented to close/release any underlying resources.
|
boolean |
hasNext() |
DuplicateSet |
next() |
void |
remove() |
void |
setScoringStrategy(DuplicateScoringStrategy.ScoringStrategy scoringStrategy)
Deprecated.
|
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, waitstream, toListpublic DuplicateSetIterator(CloseableIterator<SAMRecord> iterator, SAMFileHeader header)
public DuplicateSetIterator(CloseableIterator<SAMRecord> iterator, SAMFileHeader header, boolean preSorted)
public DuplicateSetIterator(CloseableIterator<SAMRecord> iterator, SAMFileHeader header, boolean preSorted, SAMRecordDuplicateComparator comparator)
public DuplicateSetIterator(CloseableIterator<SAMRecord> iterator, SAMFileHeader header, boolean preSorted, SAMRecordDuplicateComparator comparator, Log log)
@Deprecated public void setScoringStrategy(DuplicateScoringStrategy.ScoringStrategy scoringStrategy)
public DuplicateSet next()
next in interface java.util.Iterator<DuplicateSet>public void close()
CloseableIteratorclose in interface CloseableIterator<DuplicateSet>close in interface java.io.Closeableclose in interface java.lang.AutoCloseablepublic boolean hasNext()
hasNext in interface java.util.Iterator<DuplicateSet>public void remove()
remove in interface java.util.Iterator<DuplicateSet>