removing extra file output from pintail

[mothur.git] / pintail.cpp

diff --git a/pintail.cpp b/pintail.cpp
index 7b99cab9e7eed714a0cefeee4b45ed8057429c6f..7ae3ff6dbb96224197dff97db4b435880738d87b 100644 (file)
--- a/pintail.cpp
+++ b/pintail.cpp
@@ -146,18 +146,15 @@ void Pintail::getChimeras() {
                        mothurOut("Done."); mothurOutEndLine();
                }else {         createProcessesPairs();         }
                
-/*string o = "foronlinepintailpairs-eachgap";
-ofstream out7;
-openOutputFile(o, out7);
+//string o = "closestmatch.eachgap.fasta";
+//ofstream out7;
+//openOutputFile(o, out7);
 
-for (int i = 0; i < bestfit.size(); i++) {
-       out7 << querySeqs[i]->getName() << endl;
-       out7 << querySeqs[i]->getUnaligned() << endl << endl;
-       
-       out7 << bestfit[i]->getName() << endl;
-       out7 << bestfit[i]->getUnaligned() << endl << endl << endl;
-}              
-out7.close();/*/       
+//for (int i = 0; i < bestfit.size(); i++) {
+       //out7 << ">" << querySeqs[i]->getName() << "-"<< bestfit[i]->getName() << endl;
+       //out7 << bestfit[i]->getAligned() << endl;
+//}            
+//out7.close();        
                //find P
                mothurOut("Getting conservation... "); cout.flush();
                if (consfile == "") {