this.pdbentry = pdbentry;
this.sequence = seq;
- ssm = StructureSelectionManager.getStructureSelectionManager();
+ ssm = ap.av.getStructureSelectionManager();
try
{
// Now lets compare the sequences to get
// the start and end points.
// Align the sequence to the pdb
- AlignSeq as = new AlignSeq(sequence, ((PDBChain) pdb.chains
- .elementAt(i)).sequence, "pep");
+ AlignSeq as = new AlignSeq(sequence,
+ ((PDBChain) pdb.chains.elementAt(i)).sequence, "pep");
as.calcScoreMatrix();
as.traceAlignment();
PrintStream ps = new PrintStream(System.out)
// /StructureListener
public String[] getPdbFile()
{
- return new String[] { pdbentry.getFile() };
+ return new String[]
+ { pdbentry.getFile() };
}
String lastMessage;
repaint();
}
+ @Override
+ public void releaseReferences(Object svl)
+ {
+ // TODO Auto-generated method stub
+
+ }
+
}