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

[mothur.git] / readotucommand.h

diff --git a/readotucommand.h b/readotucommand.h
index dd0cf3adab7798c71e9e853ff1e5b33c8f53a690..beb2f4bcbfe31ed89bdb2f9c393585a4ffae3667 100644 (file)
--- a/readotucommand.h
+++ b/readotucommand.h
@@ -29,7 +29,8 @@ private:
        InputData* input;
        Command* shared;
        GroupMap* groupMap;
-       string filename, listfile, orderfile, sharedfile, label, groupfile, sabundfile, rabundfile, format;
+       string filename, listfile, orderfile, sharedfile, label, groupfile, sabundfile, rabundfile, format, groups, outputDir;
+       vector<string> Groups;
 
        bool abort, allLines;
        set<string> labels; //holds labels to be used