X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=treemap.cpp;h=75423855a7f583ae5ce62fc10118cf260589df6b;hb=c651c46022761aef61644f78462365d8f767ff0b;hp=b2fc591c0adb24820d6f603bd8016154ad1c626c;hpb=260ae19c36cb11a53ddc5a75b5e507f8dd8b31d6;p=mothur.git

diff --git a/treemap.cpp b/treemap.cpp
index b2fc591..7542385 100644
--- a/treemap.cpp
+++ b/treemap.cpp
@@ -44,6 +44,21 @@ void TreeMap::readMap() {
 		fileHandle.close();
 }
 /************************************************************/
+void TreeMap::addSeq(string seqName, string seqGroup) {
+	
+		namesOfSeqs.push_back(seqName);
+		setNamesOfGroups(seqGroup);
+					
+		treemap[seqName].groupname = seqGroup;	//store data in map
+			
+		it2 = seqsPerGroup.find(seqGroup);
+		if (it2 == seqsPerGroup.end()) { //if it's a new group
+			seqsPerGroup[seqGroup] = 1;
+		}else {//it's a group we already have
+			seqsPerGroup[seqGroup]++;
+		}
+}
+/************************************************************/
 void TreeMap::removeSeq(string seqName) {
 	
 	//erase name from namesOfSeqs
@@ -155,13 +170,13 @@ void TreeMap::print(ostream& output){
 }
 
 /************************************************************/
-void TreeMap::makeSim(GroupMap* groupmap) {
+void TreeMap::makeSim(vector<string> ThisnamesOfGroups) {
 	try {
 		//set names of groups
-		namesOfGroups = groupmap->namesOfGroups;
+		namesOfGroups = ThisnamesOfGroups;
 		
 		//set names of seqs to names of groups
-		namesOfSeqs = groupmap->namesOfGroups;
+		namesOfSeqs = ThisnamesOfGroups;
 		
 		// make map where key and value are both the group name since that what the tree.shared command wants
 		for (int i = 0; i < namesOfGroups.size(); i++) {