/** * Closes inner <code>SamIterator</>. */ @Override public void close() { this.samIterator.close(); }
/** * Clean up underlying BAMSchedule file handles. */ public void close() { if(bamScheduleIterator != null) bamScheduleIterator.close(); }
/** * Closes inner <code>SamIterator</>. */ @Override public void close() { this.samIterator.close(); }
public void close() { this.filePointers.close(); } }
public void close() { peekIterator.close(); }
public void close() { wrappedIterator.close(); }
public void close() { peekIterator.close(); }
public void close() { this.samIterator.close(); }
@Override public void close() { super.close(); sorter.cleanup(); } }, ADD_MATE_CIGAR, IGNORE_MISSING_MATES);
@Override public void close() { // close the input and output backingIterator.close(); outputBuffer.close(); isClosed = true; }
@Override public void close() { // close the input and output backingIterator.close(); outputBuffer.close(); isClosed = true; }
@Override public void close() { super.close(); sorter.cleanup(); } }, ADD_MATE_CIGAR, IGNORE_MISSING_MATES);
progress.record(record); iterator.close();
currentContigReadsIterator.close();
iterator.close(); sorter.cleanup();
it.close(); CloserUtil.close(reader); return count;
it.close(); CloserUtil.close(reader); return count;
bamScheduleIterator.close(); lastReferenceSequenceLoaded = currentContigIndex;