X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=getseqscommand.cpp;h=6d4bff2c38cf495a843b9c57ff7eff802a7ee72f;hb=e2c0017527ca0cc9baff39ab41d5c61a9507100c;hp=68d0d2b4e4a8f9addeb39d4ee853d12aef61592f;hpb=0ba54af1a821e7afbd3dd2fe85530fc9d072ecda;p=mothur.git

diff --git a/getseqscommand.cpp b/getseqscommand.cpp
index 68d0d2b..6d4bff2 100644
--- a/getseqscommand.cpp
+++ b/getseqscommand.cpp
@@ -218,7 +218,7 @@ GetSeqsCommand::GetSeqsCommand(string option)  {
 			else if (qualfile == "not found") {  qualfile = "";  }
 			
 			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") { temp = "true"; usedDups = ""; }
 			dups = m->isTrue(temp);
 			
 			if ((fastafile == "") && (namefile == "") && (groupfile == "") && (alignfile == "") && (listfile == "") && (taxfile == "") && (qualfile == "") && (accnosfile2 == ""))  { m->mothurOut("You must provide one of the following: fasta, name, group, alignreport, taxonomy, quality or listfile."); m->mothurOutEndLine(); abort = true; }