X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=sequence.cpp;h=6a15eb5f7d23f93272811a975beedc649a0d9ce9;hb=64eee3a595ae53817f52807d7393b22e74e31f56;hp=e997cc2872cba1e4deeeffc3d3c1c32009568fcf;hpb=986663e2220f6b043ee83d1699cfa081dc49cbed;p=mothur.git

diff --git a/sequence.cpp b/sequence.cpp
index e997cc2..6a15eb5 100644
--- a/sequence.cpp
+++ b/sequence.cpp
@@ -30,12 +30,14 @@ Sequence::Sequence(string newName, string sequence) {
 //********************************************************************************************************************
 
 Sequence::Sequence(ifstream& fastaFile){
+
 	initialize();
+	fastaFile >> name;
+	name = name.substr(1);
+	char c;
+	
+	while ((c = fastaFile.get()) != EOF)	{	if (c == 10){	break;	}	} // get rest of line if there's any crap there
 	
-	string accession;				//	provided a file handle to a fasta-formatted sequence file, read in the next
-	fastaFile >> accession;			//	accession number and sequence we find...
-	setName(accession);
-
 	char letter;
 	string sequence;
 	
@@ -50,7 +52,6 @@ Sequence::Sequence(ifstream& fastaFile){
 			if(letter == 'U'){letter = 'T';}
 			sequence += letter;
 		}
-		
 	}
 
 	if(sequence.find_first_of('-') != string::npos){	//	if there are any gaps in the sequence, assume that it is