Read the AnIML audit trail.

OpenChrom · Feb 22, 2024 · beba80a · beba80a
1 parent f45825f
commit beba80a
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Showing 4 changed files with 24 additions and 0 deletions.
diff --git a/....supplier.animl/src/net/openchrom/csd/converter/supplier/animl/io/ChromatogramReader.java b/....supplier.animl/src/net/openchrom/csd/converter/supplier/animl/io/ChromatogramReader.java
@@ -68,6 +68,7 @@ public IChromatogramCSD read(File file, IProgressMonitor monitor) throws IOExcep
 			AnIMLType animl = XmlReader.getAnIML(file);
 			chromatogram = new VendorChromatogram();
 			chromatogram.setFile(file);
+			chromatogram.getEditHistory().addAll(XmlReader.readAuditTrail(animl));
 			chromatogram = readSample(animl, chromatogram);
 			List<Float> retentionTimes = new ArrayList<>();
 			List<Float> signals = new ArrayList<>();

diff --git a/....supplier.animl/src/net/openchrom/msd/converter/supplier/animl/io/ChromatogramReader.java b/....supplier.animl/src/net/openchrom/msd/converter/supplier/animl/io/ChromatogramReader.java
@@ -79,6 +79,7 @@ public IChromatogramMSD read(File file, IProgressMonitor monitor) throws IOExcep
 			chromatogram = new VendorChromatogram();
 			chromatogram.setFile(file);
 			chromatogram = readSample(animl, chromatogram);
+			chromatogram.getEditHistory().addAll(XmlReader.readAuditTrail(animl));
 			List<Integer> retentionTimes = new ArrayList<>();
 			List<Float> signals = new ArrayList<>();
 			Double[] mzs = null;

diff --git a/....supplier.animl/src/net/openchrom/wsd/converter/supplier/animl/io/ChromatogramReader.java b/....supplier.animl/src/net/openchrom/wsd/converter/supplier/animl/io/ChromatogramReader.java
@@ -75,6 +75,7 @@ public IChromatogramWSD read(File file, IProgressMonitor monitor) throws IOExcep
 			chromatogram = new VendorChromatogram();
 			chromatogram.setFile(file);
 			AnIMLType animl = XmlReader.getAnIML(file);
+			chromatogram.getEditHistory().addAll(XmlReader.readAuditTrail(animl));
 			chromatogram = readSample(animl, chromatogram);
 			for(ExperimentStepType experimentStep : animl.getExperimentStepSet().getExperimentStep()) {
 				TechniqueType technique = experimentStep.getTechnique();

diff --git a/...er.supplier.animl/src/net/openchrom/xxd/converter/supplier/animl/converter/XmlReader.java b/...er.supplier.animl/src/net/openchrom/xxd/converter/supplier/animl/converter/XmlReader.java
@@ -13,16 +13,23 @@
 
 import java.io.File;
 import java.io.IOException;
+import java.util.Collection;
+import java.util.Date;
 
 import javax.xml.parsers.DocumentBuilder;
 import javax.xml.parsers.DocumentBuilderFactory;
 import javax.xml.parsers.ParserConfigurationException;
 
+import org.eclipse.chemclipse.support.history.EditHistory;
+import org.eclipse.chemclipse.support.history.EditInformation;
+import org.eclipse.chemclipse.support.history.IEditHistory;
+import org.eclipse.chemclipse.support.history.IEditInformation;
 import org.w3c.dom.Document;
 import org.w3c.dom.NodeList;
 import org.xml.sax.SAXException;
 
 import net.openchrom.xxd.converter.supplier.animl.model.astm.core.AnIMLType;
+import net.openchrom.xxd.converter.supplier.animl.model.astm.core.AuditTrailEntryType;
 import net.openchrom.xxd.converter.supplier.animl.model.astm.core.ObjectFactory;
 import net.openchrom.xxd.converter.supplier.animl.model.astm.core.UnitType;
 
@@ -58,4 +65,18 @@ public static int getTimeMultiplicator(UnitType unit) {
 		}
 		return multiplicator;
 	}
+
+	public static Collection<IEditInformation> readAuditTrail(AnIMLType animl) {
+
+		IEditHistory editHistory = new EditHistory();
+		for(AuditTrailEntryType entry : animl.getAuditTrailEntrySet().getAuditTrailEntry()) {
+			Date date = entry.getTimestamp().toGregorianCalendar().getTime();
+			String description = entry.getAction().value();
+			if(entry.getReason() != null && !entry.getReason().isEmpty()) {
+				description += ", " + entry.getReason();
+			}
+			editHistory.add(new EditInformation(date, description, entry.getAuthor().getName()));
+		}
+		return editHistory;
+	}
 }