fixed bug with shhh.flow from file path name in write functions, added "smart" featur...

[mothur.git] / shhhseqscommand.cpp

diff --git a/shhhseqscommand.cpp b/shhhseqscommand.cpp
index 6a339b880eb54eedaa7be7af3c297ed0089beb10..518e78d6386521dcb4ef57700c1ffb903ae02a13 100644 (file)
--- a/shhhseqscommand.cpp
+++ b/shhhseqscommand.cpp
@@ -165,6 +165,11 @@ ShhhSeqsCommand::ShhhSeqsCommand(string option) {
                        temp = validParameter.validFile(parameters, "processors", false);       if (temp == "not found"){       temp = m->getProcessors();      }
                        m->setProcessors(temp);
                        m->mothurConvert(temp, processors);
+                       
+                       if (namefile == "") {
+                               vector<string> files; files.push_back(fastafile);
+                               parser.getNameFile(files);
+                       }
                }
        }
        catch(exception& e) {