* @return products (as dataset sequences)
*/
public static Alignment findXrefSequences(SequenceI[] seqs,
* @return products (as dataset sequences)
*/
public static Alignment findXrefSequences(SequenceI[] seqs,
- final boolean dna, final String source, AlignmentI al,
- List<SequenceI> addedPeers)
+ final boolean dna, final String source, AlignmentI al)
{
AlignmentI dataset = al.getDataset() == null ? al : al.getDataset();
List<SequenceI> rseqs = new ArrayList<SequenceI>();
{
AlignmentI dataset = al.getDataset() == null ? al : al.getDataset();
List<SequenceI> rseqs = new ArrayList<SequenceI>();
{
found |= searchDataset(dss, xref, dataset, rseqs, cf, false,
!dna);
{
found |= searchDataset(dss, xref, dataset, rseqs, cf, false,
!dna);
List<SequenceFeature> copiedFeatures = new ArrayList<SequenceFeature>();
CrossRef me = new CrossRef();
for (int rs = 0; rs < retrieved.length; rs++)
List<SequenceFeature> copiedFeatures = new ArrayList<SequenceFeature>();
CrossRef me = new CrossRef();
for (int rs = 0; rs < retrieved.length; rs++)
cf.addMap(retrieved[rs].getDatasetSequence(),
map.getTo(), map.getMap());
}
cf.addMap(retrieved[rs].getDatasetSequence(),
map.getTo(), map.getMap());
}