added Jensen-Shannon calc. working on get.communitytype command. fixed bug in get...

[mothur.git] / flowdata.cpp

diff --git a/flowdata.cpp b/flowdata.cpp
index 7d61f8c265e060f2dc0002c94f69edfd054f89ae..2891281c9de412a27b2d27229683c8d3bb7cf41b 100644 (file)
--- a/flowdata.cpp
+++ b/flowdata.cpp
@@ -40,12 +40,19 @@ FlowData::FlowData(int numFlows, float signal, float noise, int maxHomoP, string
 //**********************************************************************************************************************
 
 bool FlowData::getNext(ifstream& flowFile){
-       
        try {
+        
         seqName = getSequenceName(flowFile);
-               flowFile >> endFlow;    
+        if (m->debug) {  m->mothurOut("[DEBUG]: flow = " + seqName + " "); }
+               flowFile >> endFlow;
+        if (m->debug) {  m->mothurOut(toString(endFlow) + " "); }
         if (!m->control_pressed) {
-            for(int i=0;i<numFlows;i++)        {       flowFile >> flowData[i];        }
+            if (m->debug) {  m->mothurOut(" "); }
+            for(int i=0;i<numFlows;i++)        {
+                flowFile >> flowData[i];
+                if (m->debug) {  m->mothurOut(toString(flowData[i]) + " "); }
+            }
+            if (m->debug) {  m->mothurOut("\n"); }
             updateEndFlow(); 
             translateFlow();
             m->gobble(flowFile);