X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=averagelinkage.cpp;fp=averagelinkage.cpp;h=0000000000000000000000000000000000000000;hb=4a877efa127e56e81a21f53cfdbbfd3bfbe8c4ff;hp=c430c883f66d6006cc9bf01a2a964dd62957688f;hpb=a6cf29fa4dac0909c7582cb1094151d34093ee76;p=mothur.git

diff --git a/averagelinkage.cpp b/averagelinkage.cpp
deleted file mode 100644
index c430c88..0000000
--- a/averagelinkage.cpp
+++ /dev/null
@@ -1,56 +0,0 @@
-#ifndef AVERAGE_H
-#define AVERAGE_H
-
-//test
-#include "mothur.h"
-#include "cluster.hpp"
-#include "rabundvector.hpp"
-#include "sparsematrix.hpp"
-
-/* This class implements the average UPGMA, average neighbor clustering algorithm */
-
-/***********************************************************************/
-
-AverageLinkage::AverageLinkage(RAbundVector* rav, ListVector* lv, SparseMatrix* dm, float c, string s) :
-	Cluster(rav, lv, dm, c, s)
-{
-	saveRow = -1;
-	saveCol = -1;
-}
-
-
-/***********************************************************************/
-//This function returns the tag of the method.
-string AverageLinkage::getTag() {
-	return("an");
-}
-
-
-/***********************************************************************/
-//This function updates the distance based on the average linkage method.
-bool AverageLinkage::updateDistance(MatData& colCell, MatData& rowCell) {
-	try {
-		if ((saveRow != smallRow) || (saveCol != smallCol)) {
-			rowBin = rabund->get(smallRow);
-			colBin = rabund->get(smallCol);
-			totalBin = rowBin + colBin;
-			saveRow = smallRow;
-			saveCol = smallCol;
-		}
-		
-		colCell->dist = (colBin * colCell->dist + rowBin * rowCell->dist) / totalBin;
-		
-		return(true);
-	}
-	catch(exception& e) {
-		m->errorOut(e, "AverageLinkage", "updateDistance");
-		exit(1);
-	}
-}
-
-/***********************************************************************/
-
-
-/***********************************************************************/
-
-#endif