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[mothur.git] / sharedutilities.h

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+#ifndef SHAREDUTIL_H
+#define SHAREDUTIL_H
+/*
+ *  sharedutilities.h
+ *  Mothur
+ *
+ *  Created by Sarah Westcott on 4/9/09.
+ *  Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
+ *
+ */
+
+#include "mothur.h"
+#include "mothurout.h"
+
+class SharedRAbundVector;
+class SharedOrderVector;
+
+/**************************************************************************************************/
+
+class SharedUtil {
+       public:
+               SharedUtil() { m = MothurOut::getInstance(); }
+               ~SharedUtil() {};
+               
+               void getSharedVectors(vector<string>, vector<SharedRAbundVector*>&, SharedOrderVector*);
+               void getSharedVectorswithReplacement(vector<string>, vector<SharedRAbundVector*>&, SharedOrderVector*);
+               void setGroups(vector<string>&, vector<string>&);  //globaldata->Groups, your tree or group map
+               void setGroups(vector<string>&, vector<string>&, string);  //globaldata->Groups, your tree or group map, mode
+               void setGroups(vector<string>&, vector<string>&, string&, int&, string);  //globaldata->Groups, your tree or group map, allgroups, numGroups, mode
+               void getCombos(vector<string>&, vector<string>, int&); //groupcomb, globaldata->Groups, numcomb
+               void updateGroupIndex(vector<string>&, map<string, int>&); //globaldata->Groups, groupmap->groupIndex
+               bool isValidGroup(string, vector<string>);
+               
+       private:
+               MothurOut* m;
+               
+};
+
+/**************************************************************************************************/
+
+#endif