added headers to shared and relabund files

[mothur.git] / normalizesharedcommand.cpp

diff --git a/normalizesharedcommand.cpp b/normalizesharedcommand.cpp
index 718eeb131397ecbe99702a1a38b20d3e8e7bc04d..07c353af3c33847978638fd71d1e220d34c090d4 100644 (file)
--- a/normalizesharedcommand.cpp
+++ b/normalizesharedcommand.cpp
@@ -240,6 +240,7 @@ int NormalizeSharedCommand::execute(){
                                m->mothurOut("Normalizing to " + toString(norm) + "."); m->mothurOutEndLine();
                        }
                        
+                       
                        //as long as you are not at the end of the file or done wih the lines you want
                        while((lookup[0] != NULL) && ((allLines == 1) || (userLabels.size() != 0))) {
                                
@@ -248,6 +249,7 @@ int NormalizeSharedCommand::execute(){
                                if(allLines == 1 || labels.count(lookup[0]->getLabel()) == 1){                  
                                        
                                        m->mothurOut(lookup[0]->getLabel()); m->mothurOutEndLine();
+                                       if (!m->printedHeaders) { lookup[0]->printHeaders(out); }
                                        normalize(lookup, out);
                                        
                                        processedLabels.insert(lookup[0]->getLabel());
@@ -260,7 +262,7 @@ int NormalizeSharedCommand::execute(){
                                        for (int i = 0; i < lookup.size(); i++) {  delete lookup[i];  }  
                                        lookup = input->getSharedRAbundVectors(lastLabel);
                                        m->mothurOut(lookup[0]->getLabel()); m->mothurOutEndLine();
-                                       
+                                       if (!m->printedHeaders) { lookup[0]->printHeaders(out); }
                                        normalize(lookup, out);
                                        
                                        processedLabels.insert(lookup[0]->getLabel());
@@ -301,7 +303,7 @@ int NormalizeSharedCommand::execute(){
                                lookup = input->getSharedRAbundVectors(lastLabel);
                                
                                m->mothurOut(lookup[0]->getLabel()); m->mothurOutEndLine();
-                               
+                               if (!m->printedHeaders) { lookup[0]->printHeaders(out); }
                                normalize(lookup, out);
                                
                                for (int i = 0; i < lookup.size(); i++) {  delete lookup[i];  }
@@ -351,6 +353,8 @@ int NormalizeSharedCommand::execute(){
                                if(allLines == 1 || labels.count(lookupFloat[0]->getLabel()) == 1){                     
                                        
                                        m->mothurOut(lookupFloat[0]->getLabel()); m->mothurOutEndLine();
+                                       
+                                       if (!m->printedHeaders) { lookupFloat[0]->printHeaders(out); }
                                        normalize(lookupFloat, out);
                                        
                                        processedLabels.insert(lookupFloat[0]->getLabel());
@@ -362,8 +366,9 @@ int NormalizeSharedCommand::execute(){
                                        
                                        for (int i = 0; i < lookupFloat.size(); i++) {  delete lookupFloat[i];  }  
                                        lookupFloat = input->getSharedRAbundFloatVectors(lastLabel);
-                                       m->mothurOut(lookupFloat[0]->getLabel()); m->mothurOutEndLine();
                                        
+                                       m->mothurOut(lookupFloat[0]->getLabel()); m->mothurOutEndLine();
+                                       if (!m->printedHeaders) { lookupFloat[0]->printHeaders(out); }
                                        normalize(lookupFloat, out);
                                        
                                        processedLabels.insert(lookupFloat[0]->getLabel());
@@ -405,6 +410,7 @@ int NormalizeSharedCommand::execute(){
                                
                                m->mothurOut(lookupFloat[0]->getLabel()); m->mothurOutEndLine();
                                
+                               if (!m->printedHeaders) { lookupFloat[0]->printHeaders(out); }
                                normalize(lookupFloat, out);
                                
                                for (int i = 0; i < lookupFloat.size(); i++) {  delete lookupFloat[i];  }