made make.table alias to count.seqs command. added large parameter to count.seqs...

[mothur.git] / commandfactory.cpp

diff --git a/commandfactory.cpp b/commandfactory.cpp
index 54ff4a12d120ddcc482d84876ac53a04f6e3a04a..02af6767b00b724459c054839b789798f4b295f7 100644 (file)
--- a/commandfactory.cpp
+++ b/commandfactory.cpp
@@ -289,6 +289,7 @@ CommandFactory::CommandFactory(){
     commands["remove.otulabels"]    = "remove.otulabels";
     commands["make.contigs"]        = "make.contigs";
     commands["load.logfile"]        = "load.logfile";
+    commands["make.table"]          = "make.table";
        commands["quit"]                                = "MPIEnabled"; 
 
 }
@@ -482,7 +483,7 @@ Command* CommandFactory::getCommand(string commandName, string optionString){
                else if(commandName == "make.shared")                   {       command = new SharedCommand(optionString);                                      }
                else if(commandName == "get.commandinfo")               {       command = new GetCommandInfoCommand(optionString);                      }
                else if(commandName == "deunique.tree")                 {       command = new DeuniqueTreeCommand(optionString);                        }
-               else if(commandName == "count.seqs")                    {       command = new CountSeqsCommand(optionString);                           }
+               else if((commandName == "count.seqs") || (commandName == "make.table"))                 {       command = new CountSeqsCommand(optionString);                           }
                else if(commandName == "count.groups")                  {       command = new CountGroupsCommand(optionString);                         }
                else if(commandName == "clear.memory")                  {       command = new ClearMemoryCommand(optionString);                         }
                else if(commandName == "summary.tax")                   {       command = new SummaryTaxCommand(optionString);                          }
@@ -636,7 +637,7 @@ Command* CommandFactory::getCommand(string commandName, string optionString, str
                else if(commandName == "make.shared")                   {       pipecommand = new SharedCommand(optionString);                                  }
                else if(commandName == "get.commandinfo")               {       pipecommand = new GetCommandInfoCommand(optionString);                  }
                else if(commandName == "deunique.tree")                 {       pipecommand = new DeuniqueTreeCommand(optionString);                    }
-               else if(commandName == "count.seqs")                    {       pipecommand = new CountSeqsCommand(optionString);                               }
+               else if((commandName == "count.seqs") || (commandName == "make.table"))                 {       pipecommand = new CountSeqsCommand(optionString);                               }
                else if(commandName == "count.groups")                  {       pipecommand = new CountGroupsCommand(optionString);                             }
                else if(commandName == "clear.memory")                  {       pipecommand = new ClearMemoryCommand(optionString);                             }
                else if(commandName == "summary.tax")                   {       pipecommand = new SummaryTaxCommand(optionString);                              }
@@ -776,7 +777,7 @@ Command* CommandFactory::getCommand(string commandName){
                else if(commandName == "make.shared")                   {       shellcommand = new SharedCommand();                                     }
                else if(commandName == "get.commandinfo")               {       shellcommand = new GetCommandInfoCommand();                     }
                else if(commandName == "deunique.tree")                 {       shellcommand = new DeuniqueTreeCommand();                       }
-               else if(commandName == "count.seqs")                    {       shellcommand = new CountSeqsCommand();                          }
+               else if((commandName == "count.seqs") || (commandName == "make.table"))                 {       shellcommand = new CountSeqsCommand();                          }
                else if(commandName == "count.groups")                  {       shellcommand = new CountGroupsCommand();                        }
                else if(commandName == "clear.memory")                  {       shellcommand = new ClearMemoryCommand();                        }
                else if(commandName == "summary.tax")                   {       shellcommand = new SummaryTaxCommand();                         }