import jalview.datamodel.SequenceI;
import jalview.util.DBRefUtils;
import jalview.util.MapList;
-import jalview.ws.SequenceFetcherFactory;
-import jalview.ws.seqfetcher.ASequenceFetcher;
+import jalview.ws.SequenceFetcher;
import java.util.ArrayList;
import java.util.Iterator;
private void retrieveCrossRef(List<DBRefEntry> sourceRefs, SequenceI seq,
List<DBRefEntry> xrfs, boolean fromDna, AlignedCodonFrame cf)
{
- ASequenceFetcher sftch = SequenceFetcherFactory.getSequenceFetcher();
SequenceI[] retrieved = null;
SequenceI dss = seq.getDatasetSequence() == null ? seq
: seq.getDatasetSequence();
}
try
{
- retrieved = sftch.getSequences(sourceRefs, !fromDna);
+ retrieved = SequenceFetcher.getInstance()
+ .getSequences(sourceRefs, !fromDna);
} catch (Exception e)
{
System.err.println(
private void removeAlreadyRetrievedSeqs(List<DBRefEntry> sourceRefs,
boolean fromDna)
{
- List<DBRefEntry> dbrSourceSet = new ArrayList<DBRefEntry>(sourceRefs);
+ List<DBRefEntry> dbrSourceSet = new ArrayList<>(sourceRefs);
List<SequenceI> dsSeqs = dataset.getSequences();
for (int ids = 0, nds = dsSeqs.size(); ids < nds; ids++)
{