/**
* create a new vertex, with the exact same name and weights, and only the depth is like the old
* one + its length
*
* @param id
* @param v
*/
public SeqVertex(int id, SeqVertex v) {
this(id, v.getName());
int len = v.getWeights().size();
_weights.ensureCapacity(len);
for (int i = 0; i < len; i++) _weights.add(i, v.getWeights().get(i));
_depth = v.getDepth() + v.getName().length();
}
/*
* add the given vertex info into this vertex
* combine name and weights
*/
public void concatVertex(SeqVertex vertex, Double w, int lastRealID) {
int prevLen = getName().length();
setName(getName() + vertex.getName());
_weights.add(w);
_weights.addAll(vertex.getWeights());
// System.out.println(toStringWeights());
Vector<Integer> newV = new Vector<Integer>();
if (vertex.getID() <= lastRealID) {
newV.add(vertex.getID());
_prevVerticesID.add(newV);
}
_prevVerticesID.addAll(vertex.getPrevVerIDs());
if (vertex.getDegenerativeFreq().size() > 0) {
// System.err.println(vertex.getID()+":"+vertex.getDegenerativeFreq());
// System.err.println(vertex.getID()+":"+vertex.getDegenerativeLocations());
// System.err.println(vertex.getID()+":"+vertex.getDegenerativeLetters());
// System.err.println(getID()+":"+getName());
// System.err.println(prevLen);
_degenerativeLocations.add(prevLen + 1);
_degenerativeFreq.addAll(vertex.getDegenerativeFreq());
_degenerativeLetters.addAll(vertex.getDegenerativeLetters());
}
}
/**
* add the name of v1 to this name
*
* @param v1
*/
public void addToName(SeqVertex v1) {
_name = _name + v1.getName();
}
