4 * Copyright (c) 2007 Des Higgins, Julie Thompson and Toby Gibson.
6 #ifndef PAIRWISEALIGNBASE_H
7 #define PAIRWISEALIGNBASE_H
10 #include "../alignment/Alignment.h"
15 class PairwiseAlignBase
18 virtual ~PairwiseAlignBase(){};
20 virtual void pairwiseAlign(Alignment *alignPtr, DistMatrix *distMat, int iStart,
21 int iEnd, int jStart, int jEnd) = 0;