X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;ds=sidebyside;f=getlineagecommand.cpp;h=4948a1a095343748dde3f467ff59c9ce5e050702;hb=8173238f9f94af9baab8471de58bed7c8830948d;hp=eaa8d40f3d6b0ec28eb59f107ac16ba9aa0fc61e;hpb=794b3f789d6160c99b75edb9cf9af5cf3df4b9da;p=mothur.git

diff --git a/getlineagecommand.cpp b/getlineagecommand.cpp
index eaa8d40..4948a1a 100644
--- a/getlineagecommand.cpp
+++ b/getlineagecommand.cpp
@@ -182,7 +182,11 @@ GetLineageCommand::GetLineageCommand(string option)  {
 			else if (taxfile == "not found") {  taxfile = ""; m->mothurOut("The taxonomy parameter is required for the get.lineage command."); m->mothurOutEndLine();  abort = true; }
 			
 			string usedDups = "true";
-			string temp = validParameter.validFile(parameters, "dups", false);	if (temp == "not found") { temp = "false"; usedDups = ""; }
+			string temp = validParameter.validFile(parameters, "dups", false);	
+			if (temp == "not found") { 
+				if (namefile != "") {  temp = "true";					}
+				else				{  temp = "false"; usedDups = "";	}
+			}
 			dups = m->isTrue(temp);
 			
 			taxons = validParameter.validFile(parameters, "taxon", false);