X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;ds=sidebyside;f=nameassignment.cpp;fp=nameassignment.cpp;h=0000000000000000000000000000000000000000;hb=4a877efa127e56e81a21f53cfdbbfd3bfbe8c4ff;hp=3d99551cc6a2a5f01932329c34c339a6fa5d9450;hpb=a6cf29fa4dac0909c7582cb1094151d34093ee76;p=mothur.git

diff --git a/nameassignment.cpp b/nameassignment.cpp
deleted file mode 100644
index 3d99551..0000000
--- a/nameassignment.cpp
+++ /dev/null
@@ -1,122 +0,0 @@
-
-
-#include "nameassignment.hpp"
-
-//**********************************************************************************************************************
-
-NameAssignment::NameAssignment(string nameMapFile){
-	m = MothurOut::getInstance();
-	m->openInputFile(nameMapFile, fileHandle);
-	
-}
-
-//**********************************************************************************************************************
-
-void NameAssignment::readMap(){
-	try{
-		string firstCol, secondCol, skip;
-	//	int index = 0;
-	
-		
-		map<string, int>::iterator itData;
-		int rowIndex = 0;
-		
-		while(fileHandle){
-			fileHandle >> firstCol;				//read from first column
-			fileHandle >> secondCol;			//read from second column
-						
-			itData = (*this).find(firstCol);
-			if (itData == (*this).end()) {
-			
-				(*this)[firstCol] = rowIndex++;
-				list.push_back(secondCol);		//adds data's value to list
-				reverse[rowIndex] = firstCol;
-				
-			}else{	m->mothurOut(firstCol + " is already in namesfile. I will use first definition."); m->mothurOutEndLine();  }
-			
-			m->gobble(fileHandle);
-		}
-		fileHandle.close();
-	
-	}
-	catch(exception& e) {
-		m->errorOut(e, "NameAssignment", "readMap");
-		exit(1);
-	}
-}
-//**********************************************************************************************************************
-void NameAssignment::push_back(string name) {
-	try{
-	
-		int num = (*this).size();
-		(*this)[name] = num;
-		reverse[num] = name;
-		
-		list.push_back(name);
-	}
-	catch(exception& e) {
-		m->errorOut(e, "NameAssignment", "push_back");
-		exit(1);
-	}
-}
-
-//**********************************************************************************************************************
-
-ListVector NameAssignment::getListVector(void){
-
-	return list;
-	
-}
-
-//**********************************************************************************************************************
-
-void NameAssignment::print(ostream& out){
-	try {
-		map<string,int>::iterator it;
-//cout << (*this).size() << endl;
-		for(it = (*this).begin(); it!=(*this).end(); it++){
-			out << it->first << '\t' <<  it->second << endl;  //prints out keys and values of the map this.
-			//out << it->first << '\t' <<  it->first << endl;
-		}
-	}
-	catch(exception& e) {
-		m->errorOut(e, "NameAssignment", "print");
-		exit(1);
-	}
-}
-
-//**********************************************************************************************************************
-
-int NameAssignment::get(string key){
-	try {
-		map<string, int>::iterator itGet = (*this).find(key);
-		
-		//if you can't find it
-		if (itGet == (*this).end()) { return -1; }
-		
-		return	(*this)[key];	
-	}
-	catch(exception& e) {
-		m->errorOut(e, "NameAssignment", "get");
-		exit(1);
-	}
-}
-//**********************************************************************************************************************
-
-string NameAssignment::get(int key){
-	try {
-	
-		map<int, string>::iterator itGet = reverse.find(key);
-	
-		if (itGet == reverse.end()) { return "not found"; }
-	
-		return	reverse[key];	
-	
-	}
-	catch(exception& e) {
-		m->errorOut(e, "NameAssignment", "get");
-		exit(1);
-	}
-}
-//**********************************************************************************************************************
-