working on anosim command

[mothur.git] / commandfactory.cpp

diff --git a/commandfactory.cpp b/commandfactory.cpp
index 56cca07fd19266820a29e3f529f784581ae00d80..a401177f74a97a3c61f9373a6390c249f24403a7 100644 (file)
--- a/commandfactory.cpp
+++ b/commandfactory.cpp
@@ -113,6 +113,7 @@
 #include "homovacommand.h"
 #include "mantelcommand.h"
 #include "makefastqcommand.h"
+#include "anosimcommand.h"
 
 /*******************************************************/
 
@@ -227,6 +228,7 @@ CommandFactory::CommandFactory(){
        commands["amova"]                               = "amova";
        commands["homova"]                              = "homova";
        commands["mantel"]                              = "mantel";
+       commands["anosim"]                              = "anosim";
        commands["make.fastq"]                  = "make.fastq";
        commands["merge.groups"]                = "merge.groups";
        commands["pairwise.seqs"]               = "MPIEnabled";
@@ -394,6 +396,7 @@ Command* CommandFactory::getCommand(string commandName, string optionString){
                else if(commandName == "homova")                                {       command = new HomovaCommand(optionString);                                      }
                else if(commandName == "mantel")                                {       command = new MantelCommand(optionString);                                      }
                else if(commandName == "make.fastq")                    {       command = new MakeFastQCommand(optionString);                           }
+               else if(commandName == "anosim")                                {       command = new AnosimCommand(optionString);                                      }
                else                                                                                    {       command = new NoCommand(optionString);                                          }
 
                return command;
@@ -524,6 +527,7 @@ Command* CommandFactory::getCommand(string commandName, string optionString, str
                else if(commandName == "amova")                                 {       pipecommand = new AmovaCommand(optionString);                                   }
                else if(commandName == "homova")                                {       pipecommand = new HomovaCommand(optionString);                                  }
                else if(commandName == "mantel")                                {       pipecommand = new MantelCommand(optionString);                                  }
+               else if(commandName == "anosim")                                {       pipecommand = new AnosimCommand(optionString);                                  }
                else if(commandName == "make.fastq")                    {       pipecommand = new MakeFastQCommand(optionString);                               }
                else                                                                                    {       pipecommand = new NoCommand(optionString);                                              }
 
@@ -643,6 +647,7 @@ Command* CommandFactory::getCommand(string commandName){
                else if(commandName == "amova")                                 {       shellcommand = new AmovaCommand();                                      }
                else if(commandName == "homova")                                {       shellcommand = new HomovaCommand();                                     }
                else if(commandName == "mantel")                                {       shellcommand = new MantelCommand();                                     }
+               else if(commandName == "anosim")                                {       shellcommand = new AnosimCommand();                                     }
                else if(commandName == "make.fastq")                    {       shellcommand = new MakeFastQCommand();                          }
                else                                                                                    {       shellcommand = new NoCommand();                                         }