public bool Process(string[] args) { var options = new AnnovarSummaryBamDistillerOptions(); bool result = CommandLine.Parser.Default.ParseArguments(args, options); if (result) { if (!options.PrepareOptions()) { Console.Out.WriteLine(options.GetUsage()); result = false; } else { var files = new AnnovarSummaryBamDistiller(options.AffyAnnotationFile, options.BamFile, options.TargetDir, options.Suffix).Process(options.AnnovarFile); Console.WriteLine("Run shell file to extract bam files:\n" + files.Merge("\n")); } } return(result); }
public bool Process(string[] args) { AnnovarSummaryBamDistillerOptions options; bool result = true; try { options = CommandLine.Parser.Default.ParseArguments<AnnovarSummaryBamDistillerOptions>(args, () => { result = false; } ); if (result) { if (!options.PrepareOptions()) { Console.Out.WriteLine(options.GetUsage()); result = false; } else { var files = new AnnovarSummaryBamDistiller(options.AffyAnnotationFile, options.BamFile, options.TargetDir, options.Suffix).Process(options.AnnovarFile); Console.WriteLine("Run shell file to extract bam files:\n" + files.Merge("\n")); } } } catch (Exception ex) { Console.Error.WriteLine(ex.ToString()); result = false; } return result; }