added set.current and get.current commands and modified existing commands to update...

[mothur.git] / commandfactory.cpp

diff --git a/commandfactory.cpp b/commandfactory.cpp
index a401177f74a97a3c61f9373a6390c249f24403a7..e18e6ac1956e3f21f990d6c5b1c45be42dafebf9 100644 (file)
--- a/commandfactory.cpp
+++ b/commandfactory.cpp
@@ -114,6 +114,8 @@
 #include "mantelcommand.h"
 #include "makefastqcommand.h"
 #include "anosimcommand.h"
+#include "getcurrentcommand.h"
+#include "setcurrentcommand.h"
 
 /*******************************************************/
 
@@ -231,6 +233,8 @@ CommandFactory::CommandFactory(){
        commands["anosim"]                              = "anosim";
        commands["make.fastq"]                  = "make.fastq";
        commands["merge.groups"]                = "merge.groups";
+       commands["get.current"]                 = "get.current";
+       commands["set.current"]                 = "set.current";
        commands["pairwise.seqs"]               = "MPIEnabled";
        commands["pipeline.pds"]                = "MPIEnabled";
        commands["classify.seqs"]               = "MPIEnabled"; 
@@ -396,6 +400,8 @@ 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 == "get.current")                   {       command = new GetCurrentCommand(optionString);                          }
+               else if(commandName == "set.current")                   {       command = new SetCurrentCommand(optionString);                          }
                else if(commandName == "anosim")                                {       command = new AnosimCommand(optionString);                                      }
                else                                                                                    {       command = new NoCommand(optionString);                                          }
 
@@ -529,6 +535,8 @@ Command* CommandFactory::getCommand(string commandName, string optionString, str
                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 if(commandName == "get.current")                   {       pipecommand = new GetCurrentCommand(optionString);                              }
+               else if(commandName == "set.current")                   {       pipecommand = new SetCurrentCommand(optionString);                              }
                else                                                                                    {       pipecommand = new NoCommand(optionString);                                              }
 
                return pipecommand;
@@ -649,6 +657,8 @@ Command* CommandFactory::getCommand(string commandName){
                else if(commandName == "mantel")                                {       shellcommand = new MantelCommand();                                     }
                else if(commandName == "anosim")                                {       shellcommand = new AnosimCommand();                                     }
                else if(commandName == "make.fastq")                    {       shellcommand = new MakeFastQCommand();                          }
+               else if(commandName == "get.current")                   {       shellcommand = new GetCurrentCommand();                         }
+               else if(commandName == "set.current")                   {       shellcommand = new SetCurrentCommand();                         }
                else                                                                                    {       shellcommand = new NoCommand();                                         }
 
                return shellcommand;