From: westcott <westcott>
Date: Tue, 8 Feb 2011 12:41:30 +0000 (+0000)
Subject: added amova command
X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=commitdiff_plain;h=1e0359c041eedc99670c93d824a2cf7fa72577cc

added amova command
---

diff --git a/amovacommand.cpp b/amovacommand.cpp
index a88baf0..d46cf74 100644
--- a/amovacommand.cpp
+++ b/amovacommand.cpp
@@ -173,7 +173,7 @@ AmovaCommand::AmovaCommand(string option) {
 					m->mothurOut("You must read a list and a group, a shared file or provide a distance matrix before you can use the amova command."); m->mothurOutEndLine(); abort = true; 
 				}
 			}else { sharedfile = globaldata->getSharedFile(); } 
-			
+				
 			//use distance matrix if one is provided
 			if ((sharedfile != "") && (phylipfile != "")) { sharedfile = ""; }
 			
@@ -412,7 +412,7 @@ int AmovaCommand::execute(){
 				out.close();
 			}
 			
-			InputData input("sharedfile", sharedfile);
+			InputData input(sharedfile, "sharedfile");
 			vector<SharedRAbundVector*> lookup = input.getSharedRAbundVectors();
 			string lastLabel = lookup[0]->getLabel();