X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=getseqscommand.cpp;h=509241d87fb2207c30ce1c7db0133a2a59f357da;hb=fe346922fe0af5b1a025beacb211078d37598fd4;hp=8406b813711aeb655ba786ac47eb6df16020327b;hpb=143ce9d26deb936202317b52f6af473542c7df78;p=mothur.git

diff --git a/getseqscommand.cpp b/getseqscommand.cpp
index 8406b81..509241d 100644
--- a/getseqscommand.cpp
+++ b/getseqscommand.cpp
@@ -285,7 +285,7 @@ void GetSeqsCommand::readGroup(){
 //alignreport file has a column header line then all other lines contain 16 columns.  we just want the first column since that contains the name
 void GetSeqsCommand::readAlign(){
 	try {
-		string outputFileName = getRootName(alignfile) + "pick" +  getExtension(alignfile);;
+		string outputFileName = getRootName(getRootName(alignfile)) + "pick.align.report";
 		ofstream out;
 		openOutputFile(outputFileName, out);