Improved help command

help(commandName)
Added whitespace
#257

source/commandfactory.cpp

@@ -973,11 +973,15 @@ bool CommandFactory::isValidCommand(string command, string noError) {
 /***********************************************************************/
 void CommandFactory::printCommands(ostream& out) {
 	try {
-		out << "Valid commands are: ";
-		for (it = commands.begin(); it != commands.end(); it++) {
-			out << it->first << ",";
+        it = commands.begin();
+		out << "Valid commands are: " << it->first << ", ";
+        it++;
+        out << it->first;
+        it++;
+		for (; it != commands.end(); it++) {
+			out << ", " << it->first;
 		}
-		out << endl;
+		out <<  "." << endl;
 	}
 	catch(exception& e) {
 		m->errorOut(e, "CommandFactory", "printCommands");

source/commands/clustercommand.cpp

@@ -48,7 +48,7 @@ vector<string> ClusterCommand::setParameters(){
 string ClusterCommand::getHelpString(){	
 	try {
 		string helpString = "";
-		helpString += "The cluster command parameter options are phylip, column, name, count, method, cuttoff, precision, sim, showabund and timing. Fasta or Phylip or column and name are required.\n";
+		helpString += "The cluster command parameter options are phylip, column, name, count, method, cutoff, precision, sim, showabund and timing. Fasta or Phylip or column and name are required.\n";
 		//helpString += "The adjust parameter is used to handle missing distances.  If you set a cutoff, adjust=f by default.  If not, adjust=t by default. Adjust=f, means ignore missing distances and adjust cutoff as needed with the average neighbor method.  Adjust=t, will treat missing distances as 1.0. You can also set the value the missing distances should be set to, adjust=0.5 would give missing distances a value of 0.5.\n";
         helpString += "The phylip and column parameter allow you to enter your distance file. \n";
         helpString += "The fasta parameter allows you to enter your fasta file for use with the agc or dgc methods. \n";