X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=sequence.hpp;h=c49899411f2dd7919d96ce9b9840c30b2b0dfcac;hb=ffa535cf04326227080b02594616971a2c3a5195;hp=db4c4f32b9992a27f63e15908d881a77d5507980;hpb=0caf3fbabaa3ece404f8ce77f4c883dc5b1bf1dc;p=mothur.git

diff --git a/sequence.hpp b/sequence.hpp
index db4c4f3..c498994 100644
--- a/sequence.hpp
+++ b/sequence.hpp
@@ -48,6 +48,7 @@ public:
 	string getPairwise();
 	string getUnaligned();
 	string getInlineSeq();
+    int getNumNs();
 	int getNumBases();
 	int getStartPos();
 	int getEndPos();
@@ -69,10 +70,13 @@ private:
 	string getCommentString(ifstream&);
 	string getSequenceString(istringstream&, int&);
 	string getCommentString(istringstream&);
+    string getSequenceName(ifstream&);
+    string getSequenceName(istringstream&);
 	string name;
 	string unaligned;
 	string aligned;
 	string pairwise;
+    string comment;
 	int numBases;
 	int alignmentLength;
 	bool isAligned;