changed how we count sequences in a fastafile to allow for '>' in sequence names

[mothur.git] / libshuffcommand.h

diff --git a/libshuffcommand.h b/libshuffcommand.h
index da5f9e8c1d3d06cd7ad3812578ec83bf6bff5774..1c8fbc4da656bf5c4240c1be8cb4a7843b3ac72c 100644 (file)
--- a/libshuffcommand.h
+++ b/libshuffcommand.h
@@ -29,8 +29,8 @@ private:
        vector<string> groupNames;
        
        void setGroups();
-       void printCoverageFile();
-       void printSummaryFile();
+       int printCoverageFile();
+       int printSummaryFile();
 
        GlobalData* globaldata;
        FullMatrix* matrix;
@@ -44,7 +44,7 @@ private:
 
        bool abort;
        string outputFile, groups, userform, savegroups, outputDir;
-       vector<string> Groups; //holds groups to be used
+       vector<string> Groups, outputNames; //holds groups to be used
 };
 
 #endif