changes while testing

[mothur.git] / removeotulabelscommand.cpp

diff --git a/removeotulabelscommand.cpp b/removeotulabelscommand.cpp
index 148758a369f77f85e8c9832d69b3916e13365396..fa98b86dde528f0190129f9b3939148e6d72f9a2 100644 (file)
--- a/removeotulabelscommand.cpp
+++ b/removeotulabelscommand.cpp
@@ -234,6 +234,8 @@ int RemoveOtuLabelsCommand::execute(){
         
         //get labels you want to keep
                labels = m->readAccnos(accnosfile);
+        
+        if (m->debug) { m->mothurOut("[DEBUG]: numlabels = " + toString(labels.size()) + "\n"); }
                
                if (m->control_pressed) { return 0; }
                
@@ -289,7 +291,7 @@ int RemoveOtuLabelsCommand::readClassifyOtu(){
                int removedCount = 0;
                
         //read headers
-        string headers = m->getline(in);
+        string headers = m->getline(in); m->gobble(in);
         out << headers << endl;
         
         while (!in.eof()) {
@@ -301,6 +303,8 @@ int RemoveOtuLabelsCommand::readClassifyOtu(){
             
             in >> otu >> size >> tax; m->gobble(in);
             
+            if (m->debug) { m->mothurOut("[DEBUG]: " + otu + toString(size) + tax + "\n"); }
+            
             if (labels.count(otu) == 0) {
                                wroteSomething = true;
                 out << otu << '\t' << size << '\t' << tax << endl;
@@ -341,7 +345,7 @@ int RemoveOtuLabelsCommand::readOtuAssociation(){
                int removedCount = 0;
                
         //read headers
-        string headers = m->getline(in);
+        string headers = m->getline(in); m->gobble(in);
         out << headers << endl;
         
         while (!in.eof()) {
@@ -395,7 +399,7 @@ int RemoveOtuLabelsCommand::readCorrAxes(){
                int removedCount = 0;
                
         //read headers
-        string headers = m->getline(in);
+        string headers = m->getline(in); m->gobble(in);
         out << headers << endl;
         
         while (!in.eof()) {