X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=nast.cpp;h=c91c9fab537172b3e02808b700af881affffc368;hb=9ada98592a54c82d08f3d46c9b1d8c3e472a922d;hp=4848eb20be0b5cfdb43715b5ba1589d253ba4571;hpb=63e089e0b3aad1741bab60119ed7ccc784dce347;p=mothur.git

diff --git a/nast.cpp b/nast.cpp
index 4848eb2..c91c9fa 100644
--- a/nast.cpp
+++ b/nast.cpp
@@ -26,13 +26,11 @@ Nast::Nast(Alignment* method, Sequence* cand, Sequence* temp) : alignment(method
 		maxInsertLength = 0;
 		pairwiseAlignSeqs();	//	This is part A in Fig. 2 of DeSantis et al.
 		regapSequences();		//	This is parts B-F in Fig. 2 of DeSantis et al.
-
 	}
 	catch(exception& e) {
 		errorOut(e, "Nast", "Nast");
 		exit(1);
 	}
-
 }
 
 /**************************************************************************************************/
@@ -42,10 +40,10 @@ void Nast::pairwiseAlignSeqs(){	//	Here we call one of the pairwise alignment me
 	try {
 
 		alignment->align(candidateSeq->getUnaligned(), templateSeq->getUnaligned());
-		
+
 		string candAln = alignment->getSeqAAln();
 		string tempAln = alignment->getSeqBAln();
-		
+	
 		if(candAln == ""){
 
 			candidateSeq->setPairwise("");
@@ -78,7 +76,6 @@ void Nast::pairwiseAlignSeqs(){	//	Here we call one of the pairwise alignment me
 
 		candidateSeq->setPairwise(candAln);					//	set the pairwise sequences in the Sequence objects for
 		templateSeq->setPairwise(tempAln);					//	the candidate and template sequences
-
 	}
 	catch(exception& e) {
 		errorOut(e, "Nast", "pairwiseAlignSeqs");