changes while testing

[mothur.git] / commandfactory.cpp

diff --git a/commandfactory.cpp b/commandfactory.cpp
index 03c3e49ccff50f128c657780da2b9d8109289358..8ab0a9529ba697aece318c7e11301f9e465b19c3 100644 (file)
--- a/commandfactory.cpp
+++ b/commandfactory.cpp
@@ -306,7 +306,7 @@ CommandFactory::CommandFactory(){
     commands["make.table"]          = "make.table";
     commands["sff.multiple"]        = "sff.multiple";
        commands["quit"]                                = "MPIEnabled"; 
-    commands["classifyrf.shared"]              = "classifyrf.shared"; 
+    commands["classify.rf"]         = "classify.rf"; 
     commands["filter.shared"]          = "filter.shared"; 
     commands["primer.design"]          = "primer.design";
     commands["get.dists"]           = "get.dists";
@@ -533,7 +533,7 @@ Command* CommandFactory::getCommand(string commandName, string optionString){
         else if(commandName == "make.contigs")          {      command = new MakeContigsCommand(optionString);             }
         else if(commandName == "load.logfile")          {      command = new LoadLogfileCommand(optionString);             }
         else if(commandName == "sff.multiple")          {      command = new SffMultipleCommand(optionString);             }
-        else if(commandName == "classifyrf.shared")       {    command = new ClassifyRFSharedCommand(optionString);          }
+        else if(commandName == "classify.rf")           {      command = new ClassifyRFSharedCommand(optionString);          }
         else if(commandName == "filter.shared")         {      command = new FilterSharedCommand(optionString);            }
         else if(commandName == "primer.design")         {      command = new PrimerDesignCommand(optionString);            }
         else if(commandName == "get.dists")             {      command = new GetDistsCommand(optionString);                }
@@ -701,7 +701,7 @@ Command* CommandFactory::getCommand(string commandName, string optionString, str
         else if(commandName == "make.contigs")          {      pipecommand = new MakeContigsCommand(optionString);             }
         else if(commandName == "load.logfile")          {      pipecommand = new LoadLogfileCommand(optionString);             }
         else if(commandName == "sff.multiple")          {      pipecommand = new SffMultipleCommand(optionString);             }
-        else if(commandName == "classifyrf.shared")       {    pipecommand = new ClassifyRFSharedCommand(optionString);          }
+        else if(commandName == "classify.rf")           {      pipecommand = new ClassifyRFSharedCommand(optionString);        }
         else if(commandName == "filter.shared")         {      pipecommand = new FilterSharedCommand(optionString);            }
         else if(commandName == "primer.design")         {      pipecommand = new PrimerDesignCommand(optionString);            }
         else if(commandName == "get.dists")             {      pipecommand = new GetDistsCommand(optionString);                }
@@ -855,7 +855,7 @@ Command* CommandFactory::getCommand(string commandName){
         else if(commandName == "make.contigs")          {      shellcommand = new MakeContigsCommand();            }
         else if(commandName == "load.logfile")          {      shellcommand = new LoadLogfileCommand();            }
         else if(commandName == "sff.multiple")          {      shellcommand = new SffMultipleCommand();            }
-        else if(commandName == "classifyrf.shared")       {    shellcommand = new ClassifyRFSharedCommand();         }
+        else if(commandName == "classify.rf")           {      shellcommand = new ClassifyRFSharedCommand();       }
         else if(commandName == "filter.shared")         {      shellcommand = new FilterSharedCommand();           }
         else if(commandName == "primer.design")         {      shellcommand = new PrimerDesignCommand();           }
         else if(commandName == "get.dists")             {      shellcommand = new GetDistsCommand();               }