changes to blastdb to make filenames given to blast unique, changes to split.abund...

diff --git a/chimerarealigner.cpp b/chimerarealigner.cpp
index 1da327819ab446fe62fb965f36b48211d484b97e..0f2556aff6983107067635fba4015f88c9e9d33a 100644 (file)
--- a/chimerarealigner.cpp
+++ b/chimerarealigner.cpp
@@ -24,7 +24,7 @@ void ChimeraReAligner::reAlign(Sequence* query, vector<results> parents) {
                        
                        string qAligned = query->getAligned();
                        string newQuery = "";
-                       
+       //cout << qAligned.length() << endl;            
                        //sort parents by region start
                        sort(parents.begin(), parents.end(), compareRegionStart);
 
@@ -80,7 +80,7 @@ void ChimeraReAligner::reAlign(Sequence* query, vector<results> parents) {
                
                        //set query to new aligned string
                        query->setAligned(newQuery);
-                       
+       //cout << newQuery.length() << endl;            
                        //free memory
                        for (int i = 0; i < queryParts.size(); i++) { delete queryParts[i];  }
                        for (int i = 0; i < parentParts.size(); i++) { delete parentParts[i];  }