X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=splitgroupscommand.cpp;fp=splitgroupscommand.cpp;h=3fa7d047b372a1c4335b9446c1b34d2aac9b702a;hb=5bb0453ee6ab8f7e700b5d0c61a84fdc73db4976;hp=1cbc2fcc6810913b5f85636c7de96fa281c1b5d0;hpb=0983603e15dcb69eb01934685d55408156d3b85f;p=mothur.git

diff --git a/splitgroupscommand.cpp b/splitgroupscommand.cpp
index 1cbc2fc..3fa7d04 100644
--- a/splitgroupscommand.cpp
+++ b/splitgroupscommand.cpp
@@ -321,6 +321,15 @@ int SplitGroupCommand::splitFasta() {
 			(*(filehandles[it3->first])).close();
 			delete it3->second;
 		}
+		
+		vector<string> newOutputNames;
+		//remove blank files
+		for (int i = 0; i < outputNames.size(); i++) {
+			if (m->isBlank(outputNames[i])) {
+				remove(outputNames[i].c_str());
+			}else { newOutputNames.push_back(outputNames[i]); }
+		}
+		outputNames = newOutputNames;
 				
 		return 0;