X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=phylosummary.h;fp=phylosummary.h;h=0000000000000000000000000000000000000000;hb=4a877efa127e56e81a21f53cfdbbfd3bfbe8c4ff;hp=cdec0d0a4ac7ca83cb0845988adb90152bcae07b;hpb=a6cf29fa4dac0909c7582cb1094151d34093ee76;p=mothur.git

diff --git a/phylosummary.h b/phylosummary.h
deleted file mode 100644
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
-
-