int getTemplateEndPos();
int getPairwiseLength();
+ void resize(int);
+ int getnRows() { return nRows; }
// int getLongestTemplateGap();
protected:
int pairwiseLength;
int nRows, nCols, lA, lB;
vector<vector<AlignmentCell> > alignment;
+ MothurOut* m;
};
/**************************************************************************************************/