added alignment code

[mothur.git] / commandfactory.cpp

diff --git a/commandfactory.cpp b/commandfactory.cpp
index 2e8aca7823a76b6656e091b48aeda4a23813aaa1..d41e4a81c76269baf17ca1c36b25ca5d1a57711b 100644 (file)
--- a/commandfactory.cpp
+++ b/commandfactory.cpp
@@ -41,6 +41,7 @@
 #include "bootstrapsharedcommand.h"
 #include "concensuscommand.h"
 #include "distancecommand.h"
+#include "aligncommand.h"
 
 
 /***********************************************************/
@@ -93,6 +94,7 @@ Command* CommandFactory::getCommand(string commandName){
                else if(commandName == "bootstrap.shared")              {   command = new BootSharedCommand();                  }
                else if(commandName == "concensus")                             {   command = new ConcensusCommand();                   }
                else if(commandName == "dist.seqs")                             {   command = new DistanceCommand();                    }
+               else if(commandName == "align.seqs")                    {   command = new AlignCommand();                               }
                else                                                                                    {       command = new NoCommand();                                      }
 
                return command;