/// <summary>
/// Parse command line arguments for sort command
/// </summary>
/// <param name="args">Array of command line arguments.</param>
private static void SortOption(string[] args)
{
Sort options = new Sort();
CommandLineArguments parser = new CommandLineArguments();
// Add the parameters
parser.Parameter(ArgumentType.DefaultArgument, "InputFilename", ArgumentValueType.String, "", "File Paths");
parser.Parameter(ArgumentType.Optional, "SortByReadName", ArgumentValueType.Bool, "n", "Sort by read name");
parser.Parameter(ArgumentType.Optional, "Help", ArgumentValueType.Bool, "", "");
parser.Parameter(ArgumentType.Optional, "OutputFilename", ArgumentValueType.String, "o", "Output file name");
if (args.Length > 0)
{
try
{
parser.Parse(args, options);
}
catch (ArgumentParserException ex)
{
DisplayErrorMessage(ex.Message);
DisplayErrorMessage(Resources.SortHelp);
Environment.Exit(-1);
}
if (options.Help)
{
DisplayErrorMessage(Resources.SortHelp);
}
else
{
options.DoSort();
}
}
else
{
DisplayErrorMessage(Resources.SortHelp);
}
}
