X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=indicatorcommand.cpp;h=c25e4fa13b4b7cc8eaf7f320d66b1806a3bf194d;hb=0e051b4cfda410b0d441da6ff2f96d4bbe1d9e5a;hp=01bc2f1d7405093db6a3f5fc4b44a0c17e76fbd3;hpb=d4429ccc354708f3c9a13c809ba9b57c22908d2b;p=mothur.git

diff --git a/indicatorcommand.cpp b/indicatorcommand.cpp
index 01bc2f1..c25e4fa 100644
--- a/indicatorcommand.cpp
+++ b/indicatorcommand.cpp
@@ -90,6 +90,10 @@ IndicatorCommand::IndicatorCommand(string option)  {
 			}
 			
 			m->runParse = true;
+			m->Groups.clear();
+			m->namesOfGroups.clear();
+			m->Treenames.clear();
+			m->names.clear();
 			
 			vector<string> tempOutNames;
 			outputTypes["tree"] = tempOutNames;
@@ -231,6 +235,7 @@ int IndicatorCommand::execute(){
 		//    reading tree info							   //
 		/***************************************************/
 		string groupfile = ""; 
+		m->setTreeFile(treefile);
 		Tree* tree = new Tree(treefile); delete tree;  //extracts names from tree to make faked out groupmap
 		treeMap = new TreeMap();
 		bool mismatch = false;