X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=readnexus.cpp;h=5dffa42ae7c8fe72105cebfe50d4187e08cc3957;hb=edec660ee2be477ac1539109d949a60cb7e16243;hp=25444d5093f637d6b0ff8a09bc8816463745299d;hpb=3117b1c3109121dff476997d3c5db5b47a77729b;p=mothur.git

diff --git a/readnexus.cpp b/readnexus.cpp
index 25444d5..5dffa42 100644
--- a/readnexus.cpp
+++ b/readnexus.cpp
@@ -12,11 +12,8 @@
 #include <fstream>
 
 /*******************************************************************************/
-ReadNexus::ReadNexus(string file) {
+ReadNexus::ReadNexus(string file) : ReadSeqs(file) {
 	try {
-		openInputFile(file, filehandle);
-		nexusFile = file;
-		globaldata = GlobalData::getInstance();
 	}
 	catch(exception& e) {
 		cout << "Standard Error: " << e.what() << " has occurred in the ReadTree class Function ReadTree. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
@@ -56,7 +53,7 @@ void ReadNexus::read() {
 				sequencedb.add(newSeq);
 			} 
 			else 
-				sequencedb.set(count, sequencedb.get(count).getAligned() + sequence);
+				sequencedb.set(count, sequencedb.get(count).getUnaligned() + sequence);
 			
 			count++;
 			if(count == numSeqs) {