moved mothur's source into a folder to make grabbing just the source easier on github

[mothur.git] / phylosummary.h

diff --git a/phylosummary.h b/phylosummary.h
deleted file mode 100644 (file)
index cdec0d0..0000000
--- a/phylosummary.h
+++ /dev/null
@@ -1,64 +0,0 @@
-#ifndef RAWTRAININGDATAMAKER_H
-#define RAWTRAININGDATAMAKER_H
-
-/*
- *  rawTrainingDataMaker.h
- *  Mothur
- *
- *  Created by westcott on 4/21/10.
- *  Copyright 2010 Schloss Lab. All rights reserved.
- *
- */
-
-#include "mothur.h"
-#include "mothurout.h"
-#include "groupmap.h"
-
-/**************************************************************************************************/
-
-struct rawTaxNode {
-       map<string, int> children;  //childs name to index in tree
-       int parent, level;
-       string name, rank;
-       map<string, int> groupCount;
-       int total;
-       
-       rawTaxNode(string n) : name(n), level(0), parent(-1), total(0) {}
-       rawTaxNode(){}
-};
-
-/**************************************************************************************************/
-//doesn't use MPI ifdefs since only pid 0 uses this class
-class PhyloSummary {
-
-public:
-       PhyloSummary(string);
-       PhyloSummary(string, string);
-       ~PhyloSummary() { if (groupmap != NULL)  {  delete groupmap;  }  }
-       
-       int summarize(string);  //pass it a taxonomy file and a group file and it makes the tree
-       int addSeqToTree(string, string);
-       int addSeqToTree(string, vector<string>);
-       void print(ofstream&);
-       int getMaxLevel() { return maxLevel; }
-       
-private:
-       string getNextTaxon(string&);
-       vector<rawTaxNode> tree;
-       void print(int, ofstream&);
-       void assignRank(int);
-       void readTreeStruct(ifstream&);
-       GroupMap* groupmap;
-       bool ignore;
-       
-       int numNodes;
-       int numSeqs;
-       int maxLevel;
-       MothurOut* m;
-};
-
-/**************************************************************************************************/
-
-#endif
-
-