public static void WriteToDisk(WorkFlows.WorkflowParameters opts) { List <string> files = new List <string>(); Console.WriteLine(); Console.WriteLine("Writing log files"); foreach (var file in files) { Console.WriteLine(Path.GetFileName(file)); Console.WriteLine("----------------------------------------"); using (IRawDataPlus rawFile = RawFileReaderFactory.ReadFile(file)) { rawFile.SelectMsData(); var numberOfLogs = rawFile.GetStatusLogEntriesCount(); var logInfo = rawFile.GetStatusLogHeaderInformation(); string logName = file + ".INST_LOG.txt"; Dictionary <int, ISingleValueStatusLog> log = new Dictionary <int, ISingleValueStatusLog>(); ProgressIndicator P = new ProgressIndicator(logInfo.Count(), "Preparing log data"); P.Start(); for (int i = 0; i < logInfo.Count(); i++) { log.Add(i, rawFile.GetStatusLogAtPosition(i)); P.Update(); } P.Done(); using (StreamWriter f = new StreamWriter(logName)) { P = new ProgressIndicator(numberOfLogs, $"Writing log"); P.Start(); f.Write("Time\t"); foreach (var x in logInfo) { f.Write(x.Label + "\t"); } f.Write("\n"); for (int i = 0; i < numberOfLogs; i++) { f.Write($"{log[0].Times[i]}\t"); for (int j = 0; j < logInfo.Length; j++) { try { f.Write("{0}\t", log[j].Values[i]); } catch (Exception) { f.Write("\t"); } } f.Write("\n"); P.Update(); } P.Done(); } } Console.WriteLine("\n"); } }
static int DoStuff(ArgumentParser.LogDumpOptions opts) { List <string> files = new List <string>(); if (opts.InputFiles.Count() > 0) // did the user give us a list of files? { List <string> problems = new List <string>(); files = opts.InputFiles.ToList(); // check if the list provided contains only .raw files foreach (string file in files) { if (!file.EndsWith(".raw", StringComparison.OrdinalIgnoreCase)) { problems.Add(file); } } if (problems.Count() == 1) { Console.WriteLine("\nERROR: {0} does not appear to be a .raw file. Invoke '>RawTools --help' if you need help.", problems.ElementAt(0)); Log.Error("Invalid file provided: {0}", problems.ElementAt(0)); return(1); } if (problems.Count() > 1) { Console.WriteLine("\nERROR: The following {0} files do not appear to be .raw files. Invoke '>RawTools --help' if you need help." + "\n\n{1}", problems.Count(), String.Join("\n", problems)); Log.Error("Invalid files provided: {0}", String.Join(" ", problems)); return(1); } Log.Information("Files to be processed, provided as list: {0}", String.Join(" ", files)); } else // did the user give us a directory? { if (Directory.Exists(opts.InputDirectory)) { files = Directory.GetFiles(opts.InputDirectory, "*.*", SearchOption.TopDirectoryOnly) .Where(s => s.EndsWith(".raw", StringComparison.OrdinalIgnoreCase)).ToList(); } else { Console.WriteLine("ERROR: The provided directory does not appear to be valid."); Log.Error("Invalid directory provided: {0}", opts.InputDirectory); return(1); } Log.Information("Files to be processed, provided as directory: {0}", String.Join(" ", files)); } Console.WriteLine(); foreach (var file in files) { Console.WriteLine(Path.GetFileName(file)); Console.WriteLine("----------------------------------------"); using (IRawDataPlus rawFile = RawFileReaderFactory.ReadFile(file)) { rawFile.SelectMsData(); var numberOfLogs = rawFile.GetStatusLogEntriesCount(); var logInfo = rawFile.GetStatusLogHeaderInformation(); string logName = file + ".INST_LOG.txt"; Dictionary <int, ISingleValueStatusLog> log = new Dictionary <int, ISingleValueStatusLog>(); ProgressIndicator P = new ProgressIndicator(logInfo.Count(), "Preparing log data"); P.Start(); for (int i = 0; i < logInfo.Count(); i++) { log.Add(i, rawFile.GetStatusLogAtPosition(i)); P.Update(); } P.Done(); using (StreamWriter f = new StreamWriter(logName)) { P = new ProgressIndicator(numberOfLogs, $"Writing log"); P.Start(); f.Write("Time\t"); foreach (var x in logInfo) { f.Write(x.Label + "\t"); } f.Write("\n"); for (int i = 0; i < numberOfLogs; i++) { f.Write($"{log[0].Times[i]}\t"); for (int j = 0; j < logInfo.Length; j++) { try { f.Write("{0}\t", log[j].Values[i]); } catch (Exception) { f.Write("\t"); } } f.Write("\n"); P.Update(); } P.Done(); } } Console.WriteLine("\n"); } return(0); }
//Console.ReadKey(); } public static void getentityData(string resFilePath, string rawFile, string headerInfo, string paraIndex) { IRawDataPlus plus = RawFileReaderAdapter.FileFactory(rawFile); plus.SelectInstrument(Device.MS, 1); ArrayList indexOfpara = new ArrayList(); string[] selectIndex = paraIndex.Split(','); foreach (string ele in selectIndex) { int index = Int32.Parse(ele); indexOfpara.Add(index); } //string fileName = DateTime.Now.ToLocalTime().ToString().Replace("/", "").Replace(":", "").Replace(" ", "_") + ".csv"; FileStream stream = new FileStream(resFilePath, FileMode.Create, FileAccess.Write); StreamWriter writer = new StreamWriter(stream, Encoding.UTF8); headerInfo = "RT," + headerInfo; headerInfo = "#," + headerInfo; writer.WriteLine(headerInfo); int offset = 0; int maxoffset = plus.GetStatusLogEntriesCount(); while (offset < maxoffset) { string temp = ""; IStatusLogEntry statusLogEntry = plus.GetStatusLogEntry(offset); temp += offset.ToString() + ","; temp += statusLogEntry.Time.ToString() + ","; foreach (int ele in indexOfpara) { temp += Convert.ToString(statusLogEntry.Values[ele]) + ","; } writer.WriteLine(temp.Substring(0, temp.Length - 1)); offset += 1; } writer.Close(); } public static void showheaderInfo(string filePath) { IRawDataPlus plus = RawFileReaderAdapter.FileFactory(filePath); plus.SelectInstrument(Device.MS, 1); HeaderItem[] statuslogheaderinformation = plus.GetStatusLogHeaderInformation(); int index = 0; Console.OutputEncoding = Encoding.UTF8; while (index < statuslogheaderinformation.Length) { Console.WriteLine(statuslogheaderinformation[index].Label); //headerInfo[index] = statuslogheaderinformation[index].Label; //writer.WriteLine(statuslogheaderinformation[index].Label); index += 1; } //writer.Close(); //while (true) //{ //if (index >= statuslogheaderinformation.Length) //{ // Console.WriteLine(plus.RunHeaderEx.FirstSpectrum.ToString()); // Console.WriteLine(plus.RunHeaderEx.LastSpectrum.ToString()); // Console.WriteLine(plus.RunHeaderEx.StartTime.ToString("F2")); // Console.WriteLine(plus.RunHeaderEx.EndTime.ToString("F2")); // Console.WriteLine(plus.RunHeaderEx.LowMass.ToString()); // Console.WriteLine(plus.RunHeaderEx.HighMass.ToString()); // break; //} // Console.WriteLine(statuslogheaderinformation[index].Label); // writer.WriteLine(statuslogheaderinformation[index].Label); // index++; //} //writer.Close(); } public static void getTuneInfo(string filePath) { IRawDataPlus plus = RawFileReaderAdapter.FileFactory(filePath); plus.SelectInstrument(Device.MS, 1); string fileName = DateTime.Now.ToLocalTime().ToString().Replace("/", "").Replace(":", "").Replace(" ", "_") + ".txt"; FileStream stream = new FileStream(fileName, FileMode.Create, FileAccess.Write); StreamWriter writer = new StreamWriter(stream, Encoding.UTF8); writer.WriteLine("*********************InstrumentMethod(0)***************************"); writer.WriteLine(plus.GetInstrumentMethod(0)); writer.WriteLine("*********************InstrumentMethod(1)****************************"); writer.WriteLine(plus.GetInstrumentMethod(1)); HeaderItem[] tuneDataHeaderInfo = plus.GetTuneDataHeaderInformation(); writer.WriteLine("*********************Tune DATA ****************************"); int tuneCnt = plus.GetTuneDataCount(); for (int i = 0; i < tuneDataHeaderInfo.Length; ++i) { writer.WriteLine(tuneDataHeaderInfo[i].Label); } writer.Close(); } public static void getMSdataFromScanNum(int startNum, int endNum, string filePath, double lowMS = 0.00, double highMS = 0.00) { IRawDataPlus plus = RawFileReaderAdapter.FileFactory(filePath);