/// <summary>
/// Parse command line arguments for Merge command
/// </summary>
/// <param name="args">Array of command line arguments.</param>
private static void MergeOption(string[] args)
{
Merge options = new Merge();
CommandLineArguments parser = new CommandLineArguments();
//Add the parameters
parser.Parameter(ArgumentType.Optional, "SortByReadName", ArgumentValueType.Bool, "n", "Sort by read name");
parser.Parameter(ArgumentType.Optional, "HeaderFile", ArgumentValueType.String, "h", "Copy the Header from this file");
parser.Parameter(ArgumentType.Optional, "Help", ArgumentValueType.Bool, "", "");
parser.Parameter(ArgumentType.Optional, "OutputFilename", ArgumentValueType.String, "o", "Output file name");
parser.Parameter(ArgumentType.DefaultArgument, "FilePaths", ArgumentValueType.MultipleUniqueStrings, "", "File Paths");
if (args != null && args.Length >= 2)
{
try
{
parser.Parse(args, options);
}
catch (ArgumentParserException ex)
{
DisplayErrorMessage(ex.Message);
DisplayErrorMessage(Resources.MergeHelp);
Environment.Exit(-1);
}
if (options.Help)
{
DisplayErrorMessage(Resources.MergeHelp);
}
else
{
options.DoMerge();
}
}
else
{
DisplayErrorMessage(Resources.MergeHelp);
}
}