getline(cin, input);
if (cin.eof()) { input = "quit()"; }
+ //allow user to omit the () on the quit command
+ if (input == "quit") { input = "quit()"; }
+
errorFree = errorCheckor->checkInput(input);
if (errorFree == true) {
CommandOptionParser parser(input);
if (inputBatchFile.eof()) { input = "quit()"; }
cout << endl << "mothur > " << input << endl;
+
+ //allow user to omit the () on the quit command
+ if (input == "quit") { input = "quit()"; }
+
errorFree = errorCheckor->checkInput(input);
if (errorFree == true) {
CommandOptionParser parser(input);