X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=qualityscores.cpp;h=fd9459c0d49d005437464463e421bdd61c7db3d7;hb=6e81846c8e5b2614f6b06643a9f558fb0e6669fa;hp=29c81e295c883bc42d48830b59243f8961a273fb;hpb=284fd95c611ccc3b1a7875c4dacfca06d1f50ed6;p=mothur.git

diff --git a/qualityscores.cpp b/qualityscores.cpp
index 29c81e2..fd9459c 100644
--- a/qualityscores.cpp
+++ b/qualityscores.cpp
@@ -34,12 +34,17 @@ QualityScores::QualityScores(ifstream& qFile, int l){
 		seqLength = l;
 		int score;
 		
-		string line;
-		getline(qFile, line); gobble(qFile);
-		istringstream nameStream(line);
+		//string line;
+		//getline(qFile, line); 
+		//istringstream nameStream(line);
 	
-		nameStream >> seqName;
-		seqName = seqName.substr(1); 
+		qFile >> seqName; 
+		while (!qFile.eof())	{	char c = qFile.get(); if (c == 10 || c == 13 || c == -1){	break;	}	} // get rest of line 
+		gobble(qFile);
+		if (seqName == "") { m->mothurOut("Error reading quality file, name blank at position, " + toString(qFile.tellg())); m->mothurOutEndLine(); }
+		else {
+			seqName = seqName.substr(1); 
+		}
 
 		//getline(qFile, line);
 		//istringstream qualStream(line);