/** appends a sorted list of hits to an existing set of hits. */
public void appendSingleHits(SingleHit[] hits, String prefix, int chrom) throws IOException {
if (hits.length == 0) {
return;
}
int s = getPositionsBuffer().limit() - 1;
SingleHit last =
new SingleHit(
chrom,
getPositionsBuffer().get(s),
getWeightsBuffer().get(s),
Hits.getStrandOne(getLASBuffer().get(s)),
Hits.getLengthOne(getLASBuffer().get(s)));
if (hits[0].compareTo(last) > 0) {
append(hits, prefix, chrom);
} else {
merge(hits, prefix, chrom);
}
}
