fixed bug with trim.seqs allfiles=t

[mothur.git] / removeseqscommand.cpp

diff --git a/removeseqscommand.cpp b/removeseqscommand.cpp
index 7e3b93918da6420a6a61c2943a779e89d52ea527..c7dd5c227622cb3fe0cbf764ff266fdbdea21271 100644 (file)
--- a/removeseqscommand.cpp
+++ b/removeseqscommand.cpp
@@ -45,7 +45,7 @@ string RemoveSeqsCommand::getHelpString(){
                helpString += "The dups parameter allows you to remove the entire line from a name file if you remove any name from the line. default=true. \n";
                helpString += "The remove.seqs command should be in the following format: remove.seqs(accnos=yourAccnos, fasta=yourFasta).\n";
                helpString += "Example remove.seqs(accnos=amazon.accnos, fasta=amazon.fasta).\n";
-               helpString += "Note: No spaces between parameter labels (i.e. fasta), '=' and parameters (i.e.yourFasta).\n\n";
+               helpString += "Note: No spaces between parameter labels (i.e. fasta), '=' and parameters (i.e.yourFasta).\n";
                return helpString;
        }
        catch(exception& e) {
@@ -81,6 +81,7 @@ RemoveSeqsCommand::RemoveSeqsCommand(string option)  {
                
                //allow user to run help
                if(option == "help") { help(); abort = true; calledHelp = true; }
+               else if(option == "citation") { citation(); abort = true; calledHelp = true;}
                
                else {
                        vector<string> myArray = setParameters();