No MS data for MGF and Parquet

Author: caetera

Writer/MgfSpectrumWriter.cs

@@ -38,17 +38,23 @@ public MgfSpectrumWriter(ParseInput parseInput) : base(parseInput)
         /// <inheritdoc />       
         public override void Write(IRawDataPlus rawFile, int firstScanNumber, int lastScanNumber)
         {
+            if (!rawFile.HasMsData)
+            {
+                throw new RawFileParserException("No MS data in RAW file, no output will be produced");
+            }
+
             ConfigureWriter(".mgf");
             using (Writer)
             {
+
                 Log.Info("Processing " + (lastScanNumber - firstScanNumber + 1) + " scans");
 
                 var lastScanProgress = 0;
                 for (var scanNumber = firstScanNumber; scanNumber <= lastScanNumber; scanNumber++)
                 {
                     if (ParseInput.LogFormat == LogFormat.DEFAULT)
                     {
-                        var scanProgress = (int) ((double) scanNumber / (lastScanNumber - firstScanNumber + 1) * 100);
+                        var scanProgress = (int)((double)scanNumber / (lastScanNumber - firstScanNumber + 1) * 100);
                         if (scanProgress % ProgressPercentageStep == 0)
                         {
                             if (scanProgress != lastScanProgress)
@@ -160,12 +166,12 @@ public override void Write(IRawDataPlus rawFile, int firstScanNumber, int lastSc
                         Writer.WriteLine("BEGIN IONS");
                         if (!ParseInput.MgfPrecursor)
                         {
-                            Writer.WriteLine($"TITLE={ConstructSpectrumTitle((int) Device.MS, 1, scanNumber)}");
+                            Writer.WriteLine($"TITLE={ConstructSpectrumTitle((int)Device.MS, 1, scanNumber)}");
                         }
                         else
                         {
                             Writer.WriteLine(
-                                $"TITLE={ConstructSpectrumTitle((int) Device.MS, 1, scanNumber)} [PRECURSOR={precursorReference}]");
+                                $"TITLE={ConstructSpectrumTitle((int)Device.MS, 1, scanNumber)} [PRECURSOR={precursorReference}]");
                         }
 
                         Writer.WriteLine($"SCANS={scanNumber}");
@@ -250,6 +256,7 @@ public override void Write(IRawDataPlus rawFile, int firstScanNumber, int lastSc
                 {
                     Console.WriteLine();
                 }
+
             }
         }
     }

Writer/ParquetSpectrumWriter.cs

@@ -35,8 +35,15 @@ public ParquetSpectrumWriter(ParseInput parseInput) : base(parseInput)
         public override void Write(IRawDataPlus rawFile, int firstScanNumber, int lastScanNumber)
         {
             _rawFile = rawFile;
-            List<PScan> pScans = new List<PScan>();
-            WritePScans(ParseInput.OutputDirectory, rawFile.FileName, rawFile, pScans);
+            if (rawFile.HasMsData)
+            {
+                List<PScan> pScans = new List<PScan>();
+                WritePScans(ParseInput.OutputDirectory, rawFile.FileName, rawFile, pScans);
+            }
+            else
+            {
+                throw new RawFileParserException("No MS data in RAW file, no output will be produced");
+            }
         }
 
         private static void WritePScans(string outputDirectory, string fileName,