X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=amovacommand.cpp;fp=amovacommand.cpp;h=8ab08553c4969268be12230b68f0f80303da2989;hb=348de0f8b17d84ede77081dcf67bd6ef43496677;hp=13c8b2636680ee247cf05750cd57b6d5916b7d9c;hpb=5e031adc86a1fc125c4abb3d4048f209d52f9b6d;p=mothur.git

diff --git a/amovacommand.cpp b/amovacommand.cpp
index 13c8b26..8ab0855 100644
--- a/amovacommand.cpp
+++ b/amovacommand.cpp
@@ -117,10 +117,6 @@ AmovaCommand::AmovaCommand(string option) {
 			if (phylipFileName == "not open") { phylipFileName = ""; abort = true; }
 			else if (phylipFileName == "not found") { 
 				phylipFileName = ""; 
-				
-				//check currentFiles for a phylip file
-				//if (currentFiles->getPhylipFile() != "") {  phylipFileName = currentFiles->getPhylipFile(); m->mothurOut("Using " + phylipFileName + " as phylip file."); m->mothurOutEndLine();
-				//}else { m->mothurOut("You must provide an phylip file."); m->mothurOutEndLine(); abort = true;  }
 			}	
 			
 			//check for required parameters
@@ -128,10 +124,6 @@ AmovaCommand::AmovaCommand(string option) {
 			if (designFileName == "not open") { abort = true; }
 			else if (designFileName == "not found") {
 				designFileName = "";
-				
-				//check currentFiles for a design file
-				//if (currentFiles->getDesignFile() != "") {  designFileName = currentFiles->getDesignFile(); m->mothurOut("Using " + designFileName + " as design file."); m->mothurOutEndLine();
-				//}else { m->mothurOut("You must provide an design file."); m->mothurOutEndLine(); abort = true;  }
 			}	
 
 			string temp = validParameter.validFile(parameters, "iters", false);