added distance command and filterseqs

[mothur.git] / commandfactory.cpp

diff --git a/commandfactory.cpp b/commandfactory.cpp
index e357e6cd70c45ec8c0fdeaa4100d8473b7fcebda..ea43c48e6b84e4c2e83de0c067e081c2a88da49f 100644 (file)
--- a/commandfactory.cpp
+++ b/commandfactory.cpp
@@ -11,7 +11,6 @@
 #include "readdistcommand.h"
 #include "readtreecommand.h"
 #include "readotucommand.h"
-#include "readseqscommand.h"
 #include "clustercommand.h"
 #include "parselistcommand.h"
 #include "collectcommand.h"
@@ -41,6 +40,7 @@
 #include "treegroupscommand.h"
 #include "bootstrapsharedcommand.h"
 #include "concensuscommand.h"
+#include "distancecommand.h"
 
 
 /***********************************************************/
@@ -66,7 +66,6 @@ Command* CommandFactory::getCommand(string commandName){
 
                         if(commandName == "read.dist")                         {       command = new ReadDistCommand();                        }
                else if(commandName == "read.otu")                              {       command = new ReadOtuCommand();                         }
-               else if(commandName == "read.seqs")                             {       command = new ReadSeqsCommand();                        }
                else if(commandName == "read.tree")                             {       command = new ReadTreeCommand();                        }
                else if(commandName == "cluster")                               {       command = new ClusterCommand();                         }
                else if(commandName == "deconvolute")                   {       command = new DeconvoluteCommand();                     }
@@ -93,6 +92,7 @@ Command* CommandFactory::getCommand(string commandName){
                else if(commandName == "tree.shared")                   {   command = new TreeGroupCommand();                   }
                else if(commandName == "bootstrap.shared")              {   command = new BootSharedCommand();                  }
                else if(commandName == "concensus")                             {   command = new ConcensusCommand();                   }
+               else if(commandName == "distance")                              {   command = new DistanceCommand();                    }
                else                                                                                    {       command = new NoCommand();                                      }
 
                return command;