1.22.0

[mothur.git] / chimeraslayer.cpp

diff --git a/chimeraslayer.cpp b/chimeraslayer.cpp
index b637000fe688920ac89097358cc50e9ac5ca2fc8..458e89d075f0f6044158cfcc6b1b9daee24fc2f7 100644 (file)
--- a/chimeraslayer.cpp
+++ b/chimeraslayer.cpp
@@ -76,7 +76,7 @@ ChimeraSlayer::ChimeraSlayer(string file, string temp, bool trim, map<string, in
                createFilter(templateSeqs, 0.0); //just removed columns where all seqs have a gap
                
                if (searchMethod == "distance") { 
-                       createFilter(templateSeqs, 0.0); //just removed columns where all seqs have a gap
+                       //createFilter(templateSeqs, 0.0); //just removed columns where all seqs have a gap
                        
                        //run filter on template copying templateSeqs into filteredTemplateSeqs
                        for (int i = 0; i < templateSeqs.size(); i++) {  
@@ -382,7 +382,7 @@ Sequence ChimeraSlayer::print(ostream& out, ostream& outAcc) {
                        
                        if (chimeraFlag == "yes") {     
                                if ((chimeraResults[0].bsa >= minBS) || (chimeraResults[0].bsb >= minBS)) {
-                                       m->mothurOut(querySeq.getName() + "\tyes"); m->mothurOutEndLine();
+                                       m->mothurOut(toString(threadID) +"\t"+ querySeq.getName() + "\tyes"); m->mothurOutEndLine();
                                        outAcc << querySeq.getName() << endl;
                                        
                                        if (templateFileName == "self") {  chimericSeqs.insert(querySeq.getName()); }