X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=alignment.hpp;h=7a943fd0037430991a7baab418474e78a496d403;hb=2bb9267aa4b4ecdf8488b06605cc9f3f36fa4332;hp=77b650cab75b8f9bbbd4241f851ccf48da556c3f;hpb=3abb236c602eb168ee112f080b563ebe2c705029;p=mothur.git

diff --git a/alignment.hpp b/alignment.hpp
index 77b650c..7a943fd 100644
--- a/alignment.hpp
+++ b/alignment.hpp
@@ -36,6 +36,8 @@ public:
 	int getTemplateEndPos();
 	
 	int getPairwiseLength();
+	void resize(int);
+	int getnRows() { return nRows; }
 //	int getLongestTemplateGap();
 
 protected:
@@ -47,6 +49,7 @@ protected:
 	int pairwiseLength;
 	int nRows, nCols, lA, lB;
 	vector<vector<AlignmentCell> > alignment;
+	MothurOut* m;
 };
 
 /**************************************************************************************************/