if(option == "help") { help(); abort = true; }
else {
- if (option != "") { cout << "There are no valid parameters for the get.line command." << endl; abort = true; }
+ if (option != "") { mothurOut("There are no valid parameters for the get.line command."); mothurOutEndLine(); abort = true; }
- if ((globaldata->getListFile() == "") && (globaldata->getRabundFile() == "") && (globaldata->getSabundFile() == "")) { cout << "You must read a list, sabund or rabund before you can use the get.line command." << endl; abort = true; }
+ if ((globaldata->getListFile() == "") && (globaldata->getRabundFile() == "") && (globaldata->getSabundFile() == "")) { mothurOut("You must read a list, sabund or rabund before you can use the get.line command."); mothurOutEndLine(); abort = true; }
}
}
catch(exception& e) {
- cout << "Standard Error: " << e.what() << " has occurred in the GetlineCommand class Function GetlineCommand. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+ errorOut(e, "GetlineCommand", "GetlineCommand");
exit(1);
}
- catch(...) {
- cout << "An unknown error has occurred in the GetlineCommand class function GetlineCommand. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
- exit(1);
- }
-
}
//**********************************************************************************************************************
void GetlineCommand::help(){
try {
- cout << "The get.line command can only be executed after a successful read.otu command." << "\n";
- cout << "You may not use any parameters with the get.line command." << "\n";
- cout << "The get.line command should be in the following format: " << "\n";
- cout << "get.line()" << "\n";
- cout << "Example get.line()." << "\n";
+ mothurOut("The get.line command can only be executed after a successful read.otu command.\n");
+ mothurOut("You may not use any parameters with the get.line command.\n");
+ mothurOut("The get.line command should be in the following format: \n");
+ mothurOut("get.line()\n");
+ mothurOut("Example get.line().\n");
}
catch(exception& e) {
- cout << "Standard Error: " << e.what() << " has occurred in the GetlineCommand class Function help. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+ errorOut(e, "GetlineCommand", "help");
exit(1);
}
- catch(...) {
- cout << "An unknown error has occurred in the GetlineCommand class function help. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
- exit(1);
- }
}
//**********************************************************************************************************************
if(count > numBins)
count = 0;
if(count == 0) {
- cout << line << "\n";
+ mothurOut(toString(line)); mothurOutEndLine();
in >> numBins;
line++;
}
}
catch(exception& e) {
- cout << "Standard Error: " << e.what() << " has occurred in the GetlineCommand class Function execute. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
+ errorOut(e, "GetlineCommand", "execute");
exit(1);
}
- catch(...) {
- cout << "An unknown error has occurred in the GetlineCommand class function execute. Please contact Pat Schloss at pschloss@microbio.umass.edu." << "\n";
- exit(1);
- }
}