X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=chao1.cpp;h=d7ec7ea7015da078452562bd526d56944d590560;hp=24521f570e4124a0efa56d1d55c75ed510770728;hb=b206f634aae1b4ce13978d203247fb64757d5482;hpb=3abb236c602eb168ee112f080b563ebe2c705029

diff --git a/chao1.cpp b/chao1.cpp
index 24521f5..d7ec7ea 100644
--- a/chao1.cpp
+++ b/chao1.cpp
@@ -15,11 +15,21 @@ EstOutput Chao1::getValues(SAbundVector* rank){
 		data.resize(3,0);
 	
 		double sobs = (double)rank->getNumBins();
-	
-		double singles = (double)rank->get(1);
-		double doubles = (double)rank->get(2);
+		
+		//this is a modification do to a vector fill error that occurs when an empty sharedRabund creates a sabund
+		//in that case there is no 1 0r 2.
+		double singles;
+		if (rank->size() > 1) {
+			singles = (double)rank->get(1);
+		}else{ singles = 0.0;  }
+
+		double doubles;
+		if (rank->size() > 2) {
+			 doubles = (double)rank->get(2);
+		}else{ doubles = 0.0;  }
+
 		double chaovar = 0.0000;
-//cout << "singles = " << singles << " doubles = " << doubles << " sobs = " << sobs << endl;	
+//cout << "singles = " << singles << " doubles = " << doubles << " sobs = " << sobs << endl;
 		double chao = sobs + singles*(singles-1)/(2*(doubles+1));
 	
 		if(singles > 0 && doubles > 0){
@@ -60,7 +70,7 @@ EstOutput Chao1::getValues(SAbundVector* rank){
 		return data;
 	}
 	catch(exception& e) {
-		errorOut(e, "Chao1", "getValues");
+		m->errorOut(e, "Chao1", "getValues");
 		exit(1);
 	}
 }