/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2b1)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
* This file is part of Jalview.
*
addDBRefSourceImpl(jalview.ws.dbsources.UnprotName.class);
addDBRefSourceImpl(jalview.ws.dbsources.Pdb.class);
addDBRefSourceImpl(jalview.ws.dbsources.PfamFull.class);
- addDBRefSourceImpl(jalview.ws.dbsources.PfamSeed.class); // ensures Seed
- // alignment is
- // 'default' for
- // PFAM
+ addDBRefSourceImpl(jalview.ws.dbsources.PfamSeed.class);
+ // ensures Seed alignment is 'default' for PFAM
addDBRefSourceImpl(jalview.ws.dbsources.RfamFull.class);
addDBRefSourceImpl(jalview.ws.dbsources.RfamSeed.class);
if (addDas)
{
nm = nm.substring(4);
}
- dassrc.add(new String[]
- { srcs[i], nm.toUpperCase() });
+ dassrc.add(new String[] { srcs[i], nm.toUpperCase() });
}
else
{
- nondas.add(new String[]
- { srcs[i], nm.toUpperCase() });
+ nondas.add(new String[] { srcs[i], nm.toUpperCase() });
}
}
}
String db = dbSources[dbsource];
// skip me
if (db.equals(DBRefSource.PDB))
+ {
continue;
+ }
for (DbSourceProxy sp : sfetcher.getSourceProxy(db))
{
System.out.println("Source: " + sp.getDbName() + " (" + db
}
else
{
- noProds.addElement((dna ? new Object[]
- { al, al } : new Object[]
- { al }));
+ noProds.addElement((dna ? new Object[] { al, al }
+ : new Object[] { al }));
}
}
System.out.println("ERROR:No alignment retrieved.");
StringBuffer raw = sp.getRawRecords();
if (raw != null)
+ {
System.out.println(raw.toString());
+ }
else
+ {
System.out.println("ERROR:No Raw results.");
+ }
}
else
{
}
if (ds == null)
{
- ds = new Alignment(new SequenceI[]
- { sq });
+ ds = new Alignment(new SequenceI[] { sq });
}
else