Now we retain the right length of tagged seq

src/processTagged.cpp

@@ -252,21 +252,22 @@ inline void process_file(taggedInputFile& input_file, std::unordered_map<std::st
 
     // Read through the file and store the results
     
-
+    
     while ((line_n = kseq_read(sequence)) >= 0) 
     {   
         
         std::string aString(sequence->seq.s);
+        
         std::string str3;
         std::size_t pos = aString.find(tag);      // position of tag in sequence str
+        uint adjustedSeqLen = aString.length() -  maxtagl ; // we suppose that all seqs have initialy the same length !!!
         if(pos == 0)
         {
-            if( tagl == maxtagl)
-            str3 = aString.substr (tagl); // get after tag to the end
-            else //tagl < maxtagl
+            //if( tagl == maxtagl)
+            //    str3 = aString.substr (tagl); // get after tag to the end
+            //else //tagl < maxtagl
             {   
-                uint seql = aString.length();
-                str3 = aString.substr (tagl, seql - ( maxtagl -tagl )); 
+                str3 = aString.substr (tagl, adjustedSeqLen ); //get bases after tag 
             }
         }    
         else {