updated errorchecking so it checks if the parameter is valid for the command.

[mothur.git] / validcommands.cpp

diff --git a/validcommands.cpp b/validcommands.cpp
index b1fac5586b6001812f8a5758204296fe2b7193d2..b2e07acae111e10f0324b95b18ca74034249315b 100644 (file)
--- a/validcommands.cpp
+++ b/validcommands.cpp
@@ -19,21 +19,21 @@ ValidCommands::ValidCommands() {
                commands["read.tree"]                   = "read.tree"; 
                commands["cluster"]                             = "cluster"; 
                commands["deconvolute"]                 = "deconvolute"; 
-               commands["parsimony"]                   = "parsimony";
-               commands["help"]                                = "help"; 
-               commands["quit"]                                = "quit"; 
                commands["collect.single"]              = "collect.single"; 
                commands["collect.shared"]              = "collect.shared"; 
-               commands["get.group"]           = "get.group";
-               commands["get.label"]           = "get.label";
-               commands["get.line"]            = "get.line";
                commands["rarefaction.single"]  = "rarefaction.single"; 
                commands["rarefaction.shared"]  = "rarefaction.shared"; 
                commands["summary.single"]              = "summary.single"; 
                commands["summary.shared"]              = "summary.shared"; 
+               commands["parsimony"]                   = "parsimony";
                commands["unifrac.weighted"]    = "unifrac.weighted"; 
                commands["unifrac.unweighted"]  = "unifrac.unweighted"; 
                commands["libshuff"]                    = "libshuff";
+               commands["get.group"]           = "get.group";
+               commands["get.label"]           = "get.label";
+               commands["get.line"]            = "get.line";
+               commands["help"]                                = "help"; 
+               commands["quit"]                                = "quit"; 
 
                                
        }