fixed memory leak in maligner minCoverageFilter function used by chimera slayer

[mothur.git] / chimeraslayer.cpp

diff --git a/chimeraslayer.cpp b/chimeraslayer.cpp
index 3497579167210514496ac904f6c9f19d17140b16..1336876966f110dc25e0e18eee8bd13ec4e8d6fd 100644 (file)
--- a/chimeraslayer.cpp
+++ b/chimeraslayer.cpp
@@ -297,14 +297,14 @@ int ChimeraSlayer::getChimeras(Sequence* query) {
                querySeq = query;
                
                //referenceSeqs, numWanted, matchScore, misMatchPenalty, divR, minSimilarity
-               maligner = new Maligner(templateSeqs, numWanted, match, misMatch, divR, minSim, minCov, searchMethod, databaseLeft, databaseRight);
-               slayer = new Slayer(window, increment, minSim, divR, iters, minSNP);
+               Maligner maligner(templateSeqs, numWanted, match, misMatch, divR, minSim, minCov, searchMethod, databaseLeft, databaseRight);
+               Slayer slayer(window, increment, minSim, divR, iters, minSNP);
        
                if (m->control_pressed) {  return 0;  }
                
-               string chimeraFlag = maligner->getResults(query, decalc);
+               string chimeraFlag = maligner.getResults(query, decalc);
                if (m->control_pressed) {  return 0;  }
-               vector<results> Results = maligner->getOutput();
+               vector<results> Results = maligner.getOutput();
                        
                //found in testing realigning only made things worse
                if (realign) {
@@ -381,16 +381,16 @@ int ChimeraSlayer::getChimeras(Sequence* query) {
                        if (m->control_pressed) {  for (int k = 0; k < seqs.size(); k++) {  delete seqs[k].seq;   }  return 0;  }
                        
                        //send to slayer
-                       chimeraFlags = slayer->getResults(query, seqsForSlayer);
+                       chimeraFlags = slayer.getResults(query, seqsForSlayer);
                        if (m->control_pressed) {  return 0;  }
-                       chimeraResults = slayer->getOutput();
+                       chimeraResults = slayer.getOutput();
                        
                        //free memory
                        for (int k = 0; k < seqs.size(); k++) {  delete seqs[k].seq;   }
                }
                
-               delete maligner;
-               delete slayer;
+               //delete maligner;
+               //delete slayer;
                
                return 0;
        }