added ordergroup parameter to read.otu

[mothur.git] / sharedcommand.h

diff --git a/sharedcommand.h b/sharedcommand.h
index 399f3d3966bf828ec32cd790dd0d7d14c7e08c25..0f3e7ef2289b39f9ab4807ccda5cbe179ff51d04 100644 (file)
--- a/sharedcommand.h
+++ b/sharedcommand.h
@@ -34,6 +34,7 @@ public:
 private:
        void printSharedData(vector<SharedRAbundVector*>);
        int createMisMatchFile();
+       int readOrderFile();
        bool isValidGroup(string, vector<string>);
        int eliminateZeroOTUS(vector<SharedRAbundVector*>&);
        
@@ -42,7 +43,7 @@ private:
        SharedListVector* SharedList;
        InputData* input;
        GroupMap* groupMap;
-       vector<string> groups, outputNames;
+       vector<string> groups, outputNames, order;
        ofstream out;
        string filename, fileroot, outputDir;
        bool firsttime, pickedGroups;