fixed bug in sharedcommand and parselistcommand and changed file extension of sorenso...

[mothur.git] / parselistcommand.cpp

diff --git a/parselistcommand.cpp b/parselistcommand.cpp
index 451a375d4d705d2831f790fc259a28882e52c393..5379052d6dd4f1bbfe51b3b346874def78a7b841 100644 (file)
--- a/parselistcommand.cpp
+++ b/parselistcommand.cpp
@@ -91,8 +91,7 @@ int ParseListCommand::execute(){
                        read = new ReadPhilFile(globaldata->inputFileName);     
                        read->read(&*globaldata); 
                        input = globaldata->ginput;
-                       //list = input->getListVector();
-                       list = globaldata->glist;
+                       list = globaldata->gSharedList;
 
                        //read in group map info.
                        groupMap = new GroupMap(globaldata->getGroupFile());
@@ -102,7 +101,7 @@ int ParseListCommand::execute(){
                        int i;
                        //create new list vectors to fill with parsed data
                        for (i=0; i<groupMap->getNumGroups(); i++) {
-                               groupOfLists[groupMap->namesOfGroups[i]] = new ListVector();
+                               groupOfLists[groupMap->namesOfGroups[i]] = new SharedListVector();
                        }
                        
                        //parses and sets each groups listvector
@@ -123,7 +122,7 @@ int ParseListCommand::execute(){
                                        groupOfLists[groupMap->namesOfGroups[i]]->print(*(filehandles[groupMap->namesOfGroups[i]]));
                                        groupOfLists[groupMap->namesOfGroups[i]]->clear();
                                }
-                               list = input->getListVector();
+                               list = input->getSharedListVector();
                        }
                        
                        //set groupmap for .shared commands