X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=deconvolutecommand.cpp;fp=deconvolutecommand.cpp;h=62daa612d52a04fa72b85c1c621b89b539d14ab0;hb=348de0f8b17d84ede77081dcf67bd6ef43496677;hp=6c04c1255ab94010da7cacfb409d497b4f0354d4;hpb=5e031adc86a1fc125c4abb3d4048f209d52f9b6d;p=mothur.git

diff --git a/deconvolutecommand.cpp b/deconvolutecommand.cpp
index 6c04c12..62daa61 100644
--- a/deconvolutecommand.cpp
+++ b/deconvolutecommand.cpp
@@ -177,7 +177,17 @@ int DeconvoluteCommand::execute() {
 		outputNames.push_back(outFastaFile);  outputNames.push_back(outNameFile); outputTypes["fasta"].push_back(outFastaFile);  outputTypes["name"].push_back(outNameFile); 
 		m->mothurOutEndLine();
 
-
+		//set fasta file as new current fastafile
+		string current = "";
+		itTypes = outputTypes.find("fasta");
+		if (itTypes != outputTypes.end()) {
+			if ((itTypes->second).size() != 0) { current = (itTypes->second)[0]; m->setFastaFile(current); }
+		}
+		
+		itTypes = outputTypes.find("name");
+		if (itTypes != outputTypes.end()) {
+			if ((itTypes->second).size() != 0) { current = (itTypes->second)[0]; m->setNameFile(current); }
+		}
 		
 		return 0;
 	}