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[mothur.git] / validcommands.cpp

diff --git a/validcommands.cpp b/validcommands.cpp
index ad55d0d9c600594a908fb8e71a89b6c251f35aa9..6f2790d50b34fa8ed9bc86c6ac3d31a85f136046 100644 (file)
--- a/validcommands.cpp
+++ b/validcommands.cpp
@@ -17,12 +17,12 @@ ValidCommands::ValidCommands() {
                commands["read.dist"]                   = "read.dist"; 
                commands["read.otu"]                    = "read.otu";
                commands["read.tree"]                   = "read.tree"; 
-               commands["read.seqs"]           = "read.seqs";
                commands["bin.seqs"]                    = "bin.seqs"; 
                commands["get.oturep"]                  = "get.oturep";
                commands["cluster"]                             = "cluster"; 
                commands["deconvolute"]                 = "deconvolute"; 
-               commands["distance"]                    = "distance"; 
+               commands["dist.seqs"]                   = "dist.seqs";
+               commands["dist.shared"]                 = "dist.shared";
                commands["collect.single"]              = "collect.single"; 
                commands["collect.shared"]              = "collect.shared"; 
                commands["rarefaction.single"]  = "rarefaction.single"; 
@@ -43,6 +43,7 @@ ValidCommands::ValidCommands() {
                commands["concensus"]                   = "concensus";
                commands["help"]                                = "help"; 
                commands["filter.seqs"]                 = "filter.seqs";
+               commands["align.seqs"]                  = "align.seqs";
                commands["quit"]                                = "quit";