fixed bug in chimera.uchime

[mothur.git] / preclustercommand.cpp

diff --git a/preclustercommand.cpp b/preclustercommand.cpp
index 550a6b74ebd99d81c47a169c99462f2a53b6b2b4..9299a6c6fc26e222869d515eb3fc362d0671bced 100644 (file)
--- a/preclustercommand.cpp
+++ b/preclustercommand.cpp
@@ -42,7 +42,7 @@ string PreClusterCommand::getHelpString(){
                helpString += "The pre.cluster command should be in the following format: \n";
                helpString += "pre.cluster(fasta=yourFastaFile, names=yourNamesFile, diffs=yourMaxDiffs) \n";
                helpString += "Example pre.cluster(fasta=amazon.fasta, diffs=2).\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) {
@@ -73,6 +73,7 @@ PreClusterCommand::PreClusterCommand(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();