changes to chop.seqs

[mothur.git] / commandfactory.cpp

diff --git a/commandfactory.cpp b/commandfactory.cpp
index 9917b3cce2c2b4a48ac89ae4ab8a387921d1d74e..4d2b0ae2b93a6e205ae8b8d24a86dea37c2f6606 100644 (file)
--- a/commandfactory.cpp
+++ b/commandfactory.cpp
@@ -76,6 +76,9 @@
 #include "makegroupcommand.h"
 #include "chopseqscommand.h"
 #include "clearcutcommand.h"
+#include "catchallcommand.h"
+#include "splitabundcommand.h"
+#include "clustersplitcommand.h"
 
 /*******************************************************/
 
@@ -159,6 +162,9 @@ CommandFactory::CommandFactory(){
        commands["make.group"]                  = "make.group";
        commands["chop.seqs"]                   = "chop.seqs";
        commands["clearcut"]                    = "clearcut";
+       commands["catchall"]                    = "catchall";
+       commands["split.abund"]                 = "split.abund";
+       //commands["cluster.split"]             = "cluster.split";
        commands["classify.seqs"]               = "MPIEnabled"; 
        commands["dist.seqs"]                   = "MPIEnabled";
        commands["filter.seqs"]                 = "MPIEnabled";
@@ -279,6 +285,9 @@ Command* CommandFactory::getCommand(string commandName, string optionString){
                else if(commandName == "make.group")                    {       command = new MakeGroupCommand(optionString);                           }
                else if(commandName == "chop.seqs")                             {       command = new ChopSeqsCommand(optionString);                            }
                else if(commandName == "clearcut")                              {       command = new ClearcutCommand(optionString);                            }
+               else if(commandName == "catchall")                              {       command = new CatchAllCommand(optionString);                            }
+               else if(commandName == "split.abund")                   {       command = new SplitAbundCommand(optionString);                          }
+               //else if(commandName == "cluster.split")                       {       command = new ClusterSplitCommand(optionString);                        }
                else                                                                                    {       command = new NoCommand(optionString);                                          }
 
                return command;