added shared file type to get.groups and remove.groups

[mothur.git] / removegroupscommand.h

diff --git a/removegroupscommand.h b/removegroupscommand.h
index ce352ca58c93e1b73adeee2c384418dd877af895..63c0bff316ceda8770afdf19c90bb8f1feed7e6e 100644 (file)
--- a/removegroupscommand.h
+++ b/removegroupscommand.h
@@ -27,6 +27,7 @@ public:
        string getCommandCategory()             { return "OTU-Based Approaches";        }
        string getHelpString(); 
        string getCitation() { return "http://www.mothur.org/wiki/Remove.groups"; }
+       string getDescription()         { return "removes sequences from a list, fasta, name, group or taxonomy file from a given group or set of groups"; }
        
        int execute(); 
        void help() { m->mothurOut(getHelpString()); }  
@@ -34,12 +35,13 @@ public:
        
 private:
        set<string> names;
-       string accnosfile, fastafile, namefile, groupfile, listfile, taxfile, outputDir, groups;
+       string accnosfile, fastafile, namefile, groupfile, listfile, taxfile, outputDir, groups, sharedfile;
        bool abort;
        vector<string> outputNames, Groups;
        GroupMap* groupMap;
        
        int readFasta();
+       int readShared();
        int readName();
        int readGroup();
        void readAccnos();