From 3cd964b03f04bc569c4a7d0b99be9908c54c1d44 Mon Sep 17 00:00:00 2001
From: kdiverson <kd.iverson@gmail.com>
Date: Mon, 2 Jul 2012 09:46:29 -0400
Subject: [PATCH] cleaned up code2

---
 kruskalwalliscommand.cpp | 17 ++++++++++++++++-
 1 file changed, 16 insertions(+), 1 deletion(-)

diff --git a/kruskalwalliscommand.cpp b/kruskalwalliscommand.cpp
index 76aebe0..de15a8b 100644
--- a/kruskalwalliscommand.cpp
+++ b/kruskalwalliscommand.cpp
@@ -124,9 +124,24 @@ int KruskalWallisCommand::execute(){
 	try {
 		if (abort == true) { if (calledHelp) { return 0; }  return 2;	}
         
+        InputData* input = new InputData(sharedfile, "sharedfile");
+        vector<SharedRAbundVector*> lookup = input->getSharedRAbundVectors();
+		string lastLabel = lookup[0]->getLabel();
+		
+		//if the users enters label "0.06" and there is no "0.06" in their file use the next lowest label.
+		set<string> processedLabels;
+		set<string> userLabels = labels;
+
+        ofstream out;
+		string outputFileName = outputDir + m->getRootName(m->getSimpleName(sharedfile)) + getOutputFileNameTag("summary");
+        m->openOutputFile(outputFileName, out);
+        outputNames.push_back(outputFileName);  outputTypes["summary"].push_back(outputFileName);
+        out.setf(ios::fixed, ios::floatfield); out.setf(ios::showpoint);
+        out << "H\tpvalue\n";
+        
         //math goes here
         
-        int N; //= thisLookUp.size();
+        int N = lookUp.size();
         double H;
         double tmp = 0.0;
         vector<groupRank> vec;
-- 
2.39.2