public AlphaBetaFinalPlayer(Game.Player playerType, int depth) : base(playerType) { this.depth = depth; random = new Random(); transpositionTable = new LimitedSizeDictionary <Int64, Transposition>(); evaluation = new Evaluation(playerType); }
//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); ////////////////////////////////// plus.SelectInstrument(Device.MS, 1); ///////////////////////////////// const string FilterStringIsolationMzPattern = @"ms2 (.*?)@"; int precursorMs1ScanNumber = 0; double precursorMS= 0.00; IReaction reaction = null; var value = ""; var firstScanNumber = plus.RunHeaderEx.FirstSpectrum; var lastScanNumber = plus.RunHeaderEx.LastSpectrum; startNum = firstScanNumber; endNum = lastScanNumber; //int maxNum = plus.RunHeaderEx.LastSpectrum > endNum ? endNum : plus.RunHeaderEx.LastSpectrum; LimitedSizeDictionary<string, int> precursorMs2ScanNumbers = new LimitedSizeDictionary<string, int>(40); plus.SelectInstrument(Device.MS, 1); if(highMS - 0.00 <= 0.01) { highMS = plus.RunHeaderEx.HighMass; } double maxMs = plus.RunHeaderEx.HighMass; double minMs = plus.RunHeaderEx.LowMass; lowMS = minMs; highMS = maxMs; string fileName = DateTime.Now.ToLocalTime().ToString().Replace("/", "").Replace(":", "").Replace(" ", "_") + ".csv"; FileStream stream = new FileStream(fileName, FileMode.Create, FileAccess.Write); StreamWriter writer = new StreamWriter(stream, Encoding.UTF8); writer.WriteLine("ScanNumber, RT, Mass, Resolution, Intensity, Noise, Filter,MSLevel,collisionEnergy, precursorNum,precursorMS"); while (startNum <= endNum) { var levelInfo = ""; var spectrumRef = ""; Scan scan = Scan.FromFile(plus, startNum); IScanFilter scanFilter = plus.GetFilterForScanNumber(startNum); IScanEvent scanEvent = plus.GetScanEventForScanNumber(startNum); switch (scanFilter.MSOrder) { case MSOrderType.Ms: // Keep track of scan number for precursor reference precursorMs1ScanNumber = startNum; reaction = scanEvent.GetReaction(0); value = reaction.CollisionEnergy.ToString(CultureInfo.InvariantCulture).ToString(); levelInfo = scanFilter.MSOrder.ToString() + "," + "" + "," + "" + "," + ""; break; case MSOrderType.Ms2: // Keep track of scan number and isolation m/z for precursor reference var result = Regex.Match(scanEvent.ToString(), FilterStringIsolationMzPattern); if (result.Success) { if (precursorMs2ScanNumbers.ContainsKey(result.Groups[1].Value)) { precursorMs2ScanNumbers.Remove(result.Groups[1].Value); } precursorMs2ScanNumbers.Add(result.Groups[1].Value, startNum); } spectrumRef = precursorMs1ScanNumber.ToString(); reaction = scanEvent.GetReaction(0); value = reaction.CollisionEnergy.ToString(CultureInfo.InvariantCulture).ToString(); precursorMS = reaction.PrecursorMass; levelInfo = scanFilter.MSOrder.ToString() + "," + value + "," + spectrumRef.ToString() + "," + precursorMS.ToString() ; break; case MSOrderType.Ms3: var precursorMs2ScanNumber = precursorMs2ScanNumbers.Keys.FirstOrDefault(isolationMz => scanEvent.ToString().Contains(isolationMz)); spectrumRef = precursorMs2ScanNumbers[precursorMs2ScanNumber].ToString(); if (!precursorMs2ScanNumber.IsNullOrEmpty()) { reaction = scanEvent.GetReaction(1); } else { throw new InvalidOperationException("Couldn't find a MS2 precursor scan for MS3 scan " + scanEvent); } precursorMS = reaction.PrecursorMass; value = reaction.CollisionEnergy.ToString(CultureInfo.InvariantCulture).ToString(); levelInfo = scanFilter.MSOrder.ToString() + "," + value + "," + spectrumRef.ToString() + "," + precursorMS.ToString(); break; default: throw new ArgumentOutOfRangeException(); } //var scanStatistics = plus.GetScanStatsForScanNumber(startNum); //// Get the segmented (low res and profile) scan data //var segmentedScan = plus.GetSegmentedScanFromScanNumber(startNum, scanStatistics); //double[] masses = segmentedScan.Positions; //double[] intensitis = segmentedScan.Intensities; //Console.WriteLine(masses.Length); //Console.WriteLine(intensitis.Length); int cnt = 0; if (scanFilter.MSOrder == MSOrderType.Ms) { while (cnt < scan.PreferredMasses.Length) { if (lowMS < scan.PreferredMasses[cnt] && scan.PreferredMasses[cnt] < highMS) { double rt = plus.RetentionTimeFromScanNumber(startNum); double msval = scan.PreferredMasses[cnt]; double resolution = (scan.PreferredResolutions.Length == 0) ? 0.0 : scan.PreferredResolutions[cnt]; double intensity = (scan.PreferredIntensities.Length == 0) ? 0.0 : scan.PreferredIntensities[cnt]; double noise = (scan.PreferredNoises.Length == 0) ? 0.0 : scan.PreferredNoises[cnt]; //msval.ToString("f4");Return a number to a given precision,carry bit //msval.ToString("n4");Return a number to a given precision,not carry bit //writer.WriteLine("{0},{1},{2},{3},{4},{5},{6},{7}", startNum.ToString(), rt.ToString(), // msval.ToString("n4"), resolution.ToString(), intensity.ToString(), noise.ToString(), // scanFilter.ToString(), levelInfo); writer.WriteLine("{0},{1},{2},{3}", startNum.ToString(), rt.ToString(), msval.ToString(), intensity.ToString()); } cnt += 1; } } writer.Flush(); startNum += 1; } writer.Close(); } public static void getMSdataFromRT(double startRT, int endRT, string filePath, double lowMS = 0.00, double highMS = 0.00) { IRawDataPlus plus = RawFileReaderAdapter.FileFactory(filePath); plus.SelectInstrument(Device.MS, 1); if (highMS - 0.00 <= 0.01) { highMS = plus.RunHeaderEx.HighMass; } int startNum = plus.ScanNumberFromRetentionTime(startRT); int endNum = plus.ScanNumberFromRetentionTime(endRT); int maxNum = plus.RunHeaderEx.LastSpectrum > endNum ? endNum : plus.RunHeaderEx.LastSpectrum; string fileName = DateTime.Now.ToLocalTime().ToString().Replace("/", "").Replace(":", "").Replace(" ", "_") + ".csv"; FileStream stream = new FileStream(fileName, FileMode.Create, FileAccess.Write); StreamWriter writer = new StreamWriter(stream, Encoding.UTF8); writer.WriteLine("ScanNumber, RT, Mass, Resolution, Intensity, Noise, Filter"); while (startNum <= endNum) { Scan scan = Scan.FromFile(plus, startNum); string filter = plus.GetFilterForScanNumber(startNum).ToString(); int cnt = 0; while (cnt < scan.PreferredMasses.Length) { if (lowMS < scan.PreferredMasses[cnt] && scan.PreferredMasses[cnt] < highMS) { double rt = plus.RetentionTimeFromScanNumber(startNum); double msval = scan.PreferredMasses[cnt]; double resolution = (scan.PreferredResolutions.Length == 0) ? 0.0 : scan.PreferredResolutions[cnt]; double intensity = (scan.PreferredIntensities.Length == 0) ? 0.0 : scan.PreferredIntensities[cnt]; double noise = (scan.PreferredNoises.Length == 0) ? 0.0 : scan.PreferredNoises[cnt]; //writer.WriteLine("{0},{1},{2},{3},{4},{5},{6}", startNum.ToString(), rt.ToString(), msval.ToString(), resolution.ToString(), intensity.ToString(), noise.ToString(), filter.ToString());