Add sdf format exporter

src/MSDIAL5/MsdialCore/Export/AlignmentSdfExporter.cs

@@ -1,28 +1,26 @@
 using CompMs.MsdialCore.DataObj;
 using CompMs.MsdialCore.MSDec;
+using CompMs.MsdialCore.Parameter;
+using System;
 using System.IO;
 
 namespace CompMs.MsdialCore.Export;
 
 public sealed class AlignmentSdfExporter : IAlignmentSpectraExporter
 {
-    private readonly bool _exportNoMs2Molecule;
-    private readonly bool _set2dCoordinates;
-    public AlignmentSdfExporter(bool exportNoMs2Molecule, bool set2dCoordinates)
+    private readonly ParameterBase _parameter;
+    private bool _exportNoMs2Peak;
+    public AlignmentSdfExporter(bool exportNoMs2Peak, ParameterBase parameter)
     {
-        _exportNoMs2Molecule = exportNoMs2Molecule;
-        _set2dCoordinates = set2dCoordinates;
+        _exportNoMs2Peak = exportNoMs2Peak;
+        _parameter = parameter ?? throw new ArgumentNullException(nameof(parameter));
     }
-    public AlignmentSdfExporter() : this(exportNoMs2Molecule: true, set2dCoordinates: true) { }
-
-    void IAlignmentSpectraExporter.Export(Stream stream, AlignmentSpotProperty spot, MSDecResult msdecResult)
+    public void Export(Stream stream, AlignmentSpotProperty spot, MSDecResult msdecResult)
+    { 
+        Export(stream, spot, msdecResult, _exportNoMs2Peak, _parameter);
+    }
+    public void Export(Stream stream, AlignmentSpotProperty spot, MSDecResult msdecResult, bool exportNoMs2Peak, ParameterBase parameter)
     {
-        SpectraExport.SaveSpectraTableAsSdfFormat(
-            stream,
-            spot,
-            msdecResult.Spectrum,
-            _exportNoMs2Molecule,
-            _set2dCoordinates
-        );
+        SpectraExport.SaveSpectraTableAsSdfFormat(stream, spot, msdecResult.Spectrum, exportNoMs2Peak, parameter);
     }
 }

src/MSDIAL5/MsdialCore/Export/AnalysisSdfExporter.cs

@@ -1,4 +1,5 @@
 using CompMs.MsdialCore.DataObj;
+using CompMs.MsdialCore.Parameter;
 using CompMs.MsdialCore.Parser;
 using System;
 using System.IO;
@@ -8,12 +9,12 @@ namespace CompMs.MsdialCore.Export
     public sealed class AnalysisSdfExporter : IAnalysisExporter<ChromatogramPeakFeatureCollection>
     {
         private readonly Func<AnalysisFileBean, IMsScanPropertyLoader<ChromatogramPeakFeature>> _loaderFactory;
-
-        public AnalysisSdfExporter(Func<AnalysisFileBean, IMsScanPropertyLoader<ChromatogramPeakFeature>> loaderFuctory) {
+        private readonly ParameterBase _parameter;
+        private bool _exportNoMs2Peak = false;
+        public AnalysisSdfExporter(Func<AnalysisFileBean, IMsScanPropertyLoader<ChromatogramPeakFeature>> loaderFuctory,ParameterBase parameter) {
             _loaderFactory = loaderFuctory ?? throw new ArgumentNullException(nameof(loaderFuctory));
+            _parameter = parameter ?? throw new ArgumentNullException(nameof(parameter));
         }
-        private readonly bool _exportNoMs2Molecule = true;
-        private readonly bool _set2dCoordinates = true;
 
         void IAnalysisExporter<ChromatogramPeakFeatureCollection>.Export(Stream stream, AnalysisFileBean analysisFile, ChromatogramPeakFeatureCollection peakFeatureCollection, ExportStyle exportStyle) {
             var loader = _loaderFactory(analysisFile);
@@ -22,8 +23,8 @@ void IAnalysisExporter<ChromatogramPeakFeatureCollection>.Export(Stream stream,
                     stream, 
                     peak, 
                     loader.Load(peak).Spectrum,
-                    _exportNoMs2Molecule,
-                    _set2dCoordinates
+                    _exportNoMs2Peak,
+                    _parameter
             );
             }
         }