changes while testing 1.26

[mothur.git] / readcluster.h

diff --git a/readcluster.h b/readcluster.h
index c81b1dd1b9f1684f54c70d666e1b3868076c1802..a838dace17f35547421c03b0dfc8dcc6efdc2317 100644 (file)
--- a/readcluster.h
+++ b/readcluster.h
@@ -20,21 +20,22 @@
 class ReadCluster {
        
 public:
-       ReadCluster(string, float);
+       ReadCluster(string, float, string, bool);
        ~ReadCluster();
-       void read(NameAssignment*);
+       int read(NameAssignment*&);
        string getOutputFile() { return OutPutFile; }
        void setFormat(string f) { format = f;  }
        ListVector* getListVector()             {       return list;    }
        
 private:
-       string distFile;
+       string distFile, outputDir;
        string OutPutFile, format;
        ListVector* list;
        float cutoff;
+       MothurOut* m;
+       bool sortWanted;
        
-       void createHClusterFile();
-       void convertPhylip2Column(NameAssignment*);
+       int convertPhylip2Column(NameAssignment*&);
 };
 
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