X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=aligncommand.cpp;h=1f93068d6451d701d6587b7b913bcc0e0856fd90;hb=cd985cf388dcc4c7de8251339206aec5f7e12f1e;hp=c5407ca345a2ff7bdec2ed47089f7e10d1df1fc3;hpb=6de5adaae66b28aa60a75f123005cede410c156c;p=mothur.git

diff --git a/aligncommand.cpp b/aligncommand.cpp
index c5407ca..1f93068 100644
--- a/aligncommand.cpp
+++ b/aligncommand.cpp
@@ -373,7 +373,7 @@ int AlignCommand::execute(){
 			if(processors == 1){
 				ifstream inFASTA;
 				openInputFile(candidateFileNames[s], inFASTA);
-				numFastaSeqs=count(istreambuf_iterator<char>(inFASTA),istreambuf_iterator<char>(), '>');
+				getNumSeqs(inFASTA, numFastaSeqs);
 				inFASTA.close();
 				
 				lines.push_back(new linePair(0, numFastaSeqs));
@@ -472,7 +472,7 @@ int AlignCommand::execute(){
 	#else
 			ifstream inFASTA;
 			openInputFile(candidateFileNames[s], inFASTA);
-			numFastaSeqs=count(istreambuf_iterator<char>(inFASTA),istreambuf_iterator<char>(), '>');
+			getNumSeqs(inFASTA, numFastaSeqs);
 			inFASTA.close();
 			
 			lines.push_back(new linePair(0, numFastaSeqs));