X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=nastreport.hpp;h=c25575ae20b1a7be12a4af0586ed7734f6ec9691;hp=424b0bbf1d9c3da79739c71efa6676c67b87abf5;hb=cf9987b67aa49777a4c91c2d21f96e58bf17aa82;hpb=526a868606faa50caf86e7399f7554c0335b39e5

diff --git a/nastreport.hpp b/nastreport.hpp
index 424b0bb..c25575a 100644
--- a/nastreport.hpp
+++ b/nastreport.hpp
@@ -13,23 +13,26 @@
 
 #include "mothur.h"
 
-using namespace std;
-
 /******************************************************************************************************************/
 
 class NastReport {
 
 public:
 	NastReport(string);
+	NastReport();
+	~NastReport();
 	void setCandidate(Sequence*);
 	void setTemplate(Sequence*);
 	void setSearchParameters(string, float);
 	void setAlignmentParameters(string, Alignment*);
 	void setNastParameters(Nast);
 	void print();
+	string getReport();
+	string getHeaders();
 	
 private:
 	string queryName;
+	string output;
 	int queryLength;
 	string templateName;
 	int templateLength;
@@ -44,6 +47,7 @@ private:
 	int totalGapsInQuery, totalGapsInTemplate;
 	float similarityToTemplate;
 	ofstream candidateReportFile;
+	MothurOut* m;
 };
 
 /******************************************************************************************************************/