コード例 #1
0
        public override List <IsobaricItem> ReadFromFile(string fileName)
        {
            var result = new List <IsobaricItem>();

            RawReader.Open(fileName);
            try
            {
                int startScan = RawReader.GetFirstSpectrumNumber();
                int endScan   = RawReader.GetLastSpectrumNumber();

                Progress.SetRange(startScan, endScan);

                for (int scan = startScan; scan <= endScan; scan++)
                {
                    if (Progress.IsCancellationPending())
                    {
                        throw new UserTerminatedException();
                    }

                    Progress.SetPosition(scan);

                    if (2 == RawReader.GetMsLevel(scan))
                    {
                        string scanMode = RawReader.GetScanMode(scan);
                        if (string.IsNullOrEmpty(scanMode))
                        {
                            AppendScan(result, scan, "UNKNOWN");
                            continue;
                        }

                        scanMode = scanMode.ToLower();
                        if (scanMode.Equals("pqd"))
                        {
                            AppendScan(result, scan, "PQD");
                        }
                        else if (scanMode.Equals("cid"))
                        {
                            //如果上一个scan是pqd,那么,现在这个cid的结果从该pqd读取。
                            if (result.Count > 0 && result[result.Count - 1].RawPeaks.ScanTimes[0].Scan == scan - 1 && result[result.Count - 1].RawPeaks.ScanMode == "PQD")
                            {
                                var lastItem = result[result.Count - 1];

                                var item = new IsobaricItem(lastItem);
                                item.Scan     = RawReader.GetScanTime(scan);
                                item.ScanMode = "CID";

                                result.Add(item);
                            }
                            else//否则,从自己的peaklist中读取。
                            {
                                AppendScan(result, scan, "CID");
                            }
                        }
                        else
                        {
                            Console.WriteLine("Scan {0} is skipped with mode {1}", scan, scanMode);
                        }
                    }
                }
            }
            finally
            {
                RawReader.Close();
            }

            return(result);
        }
コード例 #2
0
        public virtual List <IsobaricItem> ReadFromFile(string fileName)
        {
            var result = new List <IsobaricItem>();

            var askedScanMode = GetScanMode();
            var lowerScanMode = new HashSet <string>(from a in askedScanMode
                                                     select a.ToLower());


            RawReader.Open(fileName);
            try
            {
                FirstScan = RawReader.GetFirstSpectrumNumber();
                EndScan   = RawReader.GetLastSpectrumNumber();

                DoAfterFileOpen();

                var firstIsolationWidth = 0.0;

                var icount = 0;
                for (int scan = FirstScan; scan <= EndScan; scan++)
                {
                    if (!RawReader.IsScanValid(scan))
                    {
                        continue;
                    }

                    if (this.MsLevel == RawReader.GetMsLevel(scan))
                    {
                        firstIsolationWidth = RawReader.GetIsolationWidth(scan);
                        if (firstIsolationWidth > 0 && firstIsolationWidth < 5)
                        {
                            break;
                        }
                        icount++;
                        if (icount > 10)
                        {
                            break;
                        }
                    }
                }

                if (firstIsolationWidth == 0.0)
                {
                    firstIsolationWidth = defaultIsolationWidth;
                }

                Progress.SetMessage("Reading channel information ...");
                Progress.SetRange(FirstScan, EndScan);

                for (int scan = FirstScan; scan <= EndScan; scan++)
                {
                    if (Progress.IsCancellationPending())
                    {
                        throw new UserTerminatedException();
                    }

                    if (!RawReader.IsScanValid(scan))
                    {
                        continue;
                    }

                    Progress.SetPosition(scan);

                    if (this.MsLevel == RawReader.GetMsLevel(scan))
                    {
                        string scanMode = RawReader.GetScanMode(scan).ToLower();
                        if (string.IsNullOrEmpty(scanMode))
                        {
                            AppendScan(result, scan, "UNKNOWN", firstIsolationWidth);
                        }
                        else if (lowerScanMode.Count == 0 || lowerScanMode.Contains(scanMode))
                        {
                            AppendScan(result, scan, scanMode.ToUpper(), firstIsolationWidth);
                        }
                        else
                        {
                            Console.WriteLine("Scan {0} is skipped with mode {1}", scan, scanMode);
                        }
                    }
                }
            }
            finally
            {
                RawReader.Close();
            }

            return(result);
        }