X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=consensusseqscommand.cpp;h=36df8c043086552dee3c85d120f5dc1d70a71159;hb=006601d68abe8d0061f77e8d28323b160750e343;hp=94d66827068338c9b254f8e3aa30d9ec65301db9;hpb=90708fe9701e3827e477c82fb3652539c3bf2a0d;p=mothur.git

diff --git a/consensusseqscommand.cpp b/consensusseqscommand.cpp
index 94d6682..36df8c0 100644
--- a/consensusseqscommand.cpp
+++ b/consensusseqscommand.cpp
@@ -610,10 +610,10 @@ char ConsensusSeqsCommand::getBase(vector<int> counts, int size){  //A,T,G,C,Gap
 		
 		//zero out counts that don't make the cutoff
 		float percentage = (100.0 - cutoff) / 100.0;
-		int zeroCutoff = percentage * size;
-		
+        
 		for (int i = 0; i < counts.size(); i++) {
-			if (counts[i] < zeroCutoff) { counts[i] = 0; }
+            float countPercentage = counts[i] / (float) size;
+			if (countPercentage < percentage) { counts[i] = 0; }
 		}
 		
 		//any