HelpCommand::HelpCommand(string option){
- if (option != "") { cout << "There are no valid parameters for the help() command." << endl; }
+ if (option != "") { mothurOut("There are no valid parameters for the help() command."); mothurOutEndLine(); }
validCommands = new CommandFactory();
}
int HelpCommand::execute(){
validCommands->printCommands(cout);
- cout << "For more information about a specific command type 'commandName(help)' i.e. 'read.dist(help)'" << endl;
+ mothurOut("For more information about a specific command type 'commandName(help)' i.e. 'read.dist(help)'"); mothurOutEndLine();
delete validCommands;
- cout << endl << "For further assistance please refer to the Mothur manual on our wiki at http://schloss.micro.umass.edu/mothur/, or contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+ mothurOutEndLine(); mothurOut("For further assistance please refer to the Mothur manual on our wiki at http://schloss.micro.umass.edu/mothur/, or contact Pat Schloss at pschloss@microbio.umass.edu.\n");
return 0;
}