Merge branch 'Tethys' of C:\Users\dg50\source\repos\PAMGuardTethys into

Tethys

.classpath

@@ -6,7 +6,7 @@
 			<attribute name="maven.pomderived" value="true"/>
 		</attributes>
 	</classpathentry>
-	<classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER/org.eclipse.jdt.internal.debug.ui.launcher.StandardVMType/JavaSE-11">
+	<classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER/org.eclipse.jdt.internal.debug.ui.launcher.StandardVMType/jre">
 		<attributes>
 			<attribute name="module" value="true"/>
 			<attribute name="maven.pomderived" value="true"/>
@@ -17,5 +17,10 @@
 			<attribute name="maven.pomderived" value="true"/>
 		</attributes>
 	</classpathentry>
+	<classpathentry kind="lib" path="C:/Users/dg50/Tethys/NilusXMLGenerator/target/nilus-1.5.jar">
+		<attributes>
+			<attribute name="javadoc_location" value="jar:file:/C:/Users/dg50/Tethys/NilusXMLGenerator/target/nilus-1.5-javadoc.jar!/"/>
+		</attributes>
+	</classpathentry>
 	<classpathentry kind="output" path="target/classes"/>
 </classpath>

pom.xml

@@ -555,8 +555,29 @@
 	    <groupId>com.sun.xml.bind</groupId>
  	   <artifactId>jaxb-impl</artifactId>
     	<version>2.3.2</version>
+	</dependency>-->
+<!-- From NilusXMLGenerator POM at https://bitbucket.org/tethysacousticmetadata/nilusxmlgenerator/src/master/-->
+    <dependency>
+        <groupId>org.eclipse.persistence</groupId>
+        <artifactId>org.eclipse.persistence.moxy</artifactId>
+        <version>2.5.0</version>
+    </dependency>
+	<dependency>
+	    <groupId>javax.xml.bind</groupId>
+	    <artifactId>jaxb-api</artifactId>
+	    <version>2.4.0-b180830.0359</version> 
 	</dependency>
-	 -->
+	<dependency>
+	    <groupId>org.glassfish.jaxb</groupId>
+	    <artifactId>jaxb-runtime</artifactId>
+	    <version>2.4.0-b180830.0438</version> 
+	</dependency>
+	<dependency>
+        <groupId>org.glassfish.jaxb</groupId>
+        <artifactId>jaxb-xjc</artifactId>
+        <version>2.4.0-b180830.0438</version>
+    </dependency>
+	 
 	 
 	 <!-- https://mvnrepository.com/artifact/org.jflac/jflac-codec -->
 	<dependency>

src/Acquisition/FolderInputSystem.java

@@ -697,7 +697,7 @@ public class FolderInputSystem extends FileInputSystem implements PamSettings, D
 		if (currentFile > 0 && currentFile >= allFiles.size()) {
 			fileListComplete();
 		}
-//		System.out.println("FolderinputSytem: daqHasEnded");
+		System.out.println("FolderinputSytem: daqHasEnded");
 	}
 
 	private void setFolderProgress() {

src/GPS/GpsLogger.java

@@ -295,7 +295,8 @@ public class GpsLogger extends SQLLogging {
 		 * time from the UTC column which is NOT the GpsData time which was the real GPS time. 
 		 */
 		int gpsIntTimeVal = gpsTime.getIntegerValue();
-		Object ts = getTableDefinition().getTimeStampItem().getValue();
+		PamTableDefinition pamTableDef = (PamTableDefinition) getTableDefinition();
+		Object ts = pamTableDef.getTimeStampItem().getValue();
 		long gpsDate = sqlTypes.millisFromTimeStamp(ts);
 		if (gpsDate%1000 == 0) {
 			// some databases may have stored the milliseconds, in which 

src/IshmaelDetector/IshLogger.java

@@ -8,14 +8,13 @@ import java.sql.Types;
 
 import PamguardMVC.PamDataBlock;
 import PamguardMVC.PamDataUnit;
-
+import generalDatabase.EmptyTableDefinition;
 //import pamDatabase.SQLLogging;
 //import PamguardMVC.RecyclingDataBlock;
 import generalDatabase.PamDetectionLogging;
 
 public class IshLogger extends PamDetectionLogging {
 	IshDetControl ishDetControl;
-	PamTableDefinition tableDefinition;
 	PamTableItem systemDate, durationSecs, secSinceStart, peakHeight;
 	// Peak is more important than start time for matched filter & spectrogram correlation
 	PamTableItem peakSample, peakDelaySecs; 
@@ -25,7 +24,7 @@ public class IshLogger extends PamDetectionLogging {
 		super(pamDataBlock, UPDATE_POLICY_WRITENEW);
 		this.ishDetControl = ishDetControl;
 		
-		tableDefinition = getTableDefinition();
+		EmptyTableDefinition tableDefinition = getTableDefinition();
 		
 //		PamTableItem tableItem;
 //		setUpdatePolicy(UPDATE_POLICY_WRITENEW);

src/IshmaelLocator/IshLocSqlLogging.java

@@ -14,14 +14,13 @@ import IshmaelDetector.IshDetection;
 import PamUtils.LatLong;
 import PamguardMVC.PamDataBlock;
 import PamguardMVC.PamDataUnit;
-
+import generalDatabase.EmptyTableDefinition;
 //import pamDatabase.SQLLogging;
 //import PamguardMVC.RecyclingDataBlock;
 import generalDatabase.PamDetectionLogging;
 
 public class IshLocSqlLogging extends PamDetectionLogging {
 	IshLocControl ishLocControl;
-	PamTableDefinition tableDefinition;
 	PamTableItem systemDate, durationSecs, secSinceStart, peakHeight;
 	private PamTableItem latitude, longitude, refLatitude, refLongitude, x, y, z;
 	
@@ -30,7 +29,7 @@ public class IshLocSqlLogging extends PamDetectionLogging {
 		super(pamDataBlock, UPDATE_POLICY_WRITENEW);
 		this.ishLocControl = ishDetControl;
 		
-		tableDefinition = getTableDefinition();
+		EmptyTableDefinition tableDefinition = getTableDefinition();
 		tableDefinition.addTableItem(latitude = new PamTableItem("Latitude", Types.DOUBLE)); 
 		tableDefinition.addTableItem(longitude = new PamTableItem("Longitude", Types.DOUBLE));
 		tableDefinition.addTableItem(refLatitude = new PamTableItem("ReferenceLatitude", Types.DOUBLE)); 

src/Map/GebcoMapFile.java

@@ -85,7 +85,15 @@ public class GebcoMapFile implements MapFileManager {
 	 * @see Map.MapFile#readFileData(java.io.File)
 	 */
 	public boolean readFileData(File file) {
-		return readMapFile(file, true);
+		try {
+			return readMapFile(file, true);
+		}
+		catch (Exception e) {
+			// trap error someone reported at end November 22. Suspect it was their corrupt map file causing problems. 
+			String err = String.format("Map file %s is missing or corrupt and cannot be loaded", file.getName());
+			WarnOnce.showWarning("Map File Error", err, WarnOnce.OK_OPTION);
+			return false;
+		}
 	}
 
 	private boolean readMapFile(File gebcoFile, boolean readContours) {

src/PamController/PamController.java

@@ -1155,6 +1155,8 @@ public class PamController implements PamControllerInterface, PamSettings {
 		}
 
 		if (saveSettings) {
+			startTime = PamCalendar.getSessionStartTime();
+//			System.out.printf("Saving settings for start time %s\n", PamCalendar.formatDBDateTime(startTime));
 			saveSettings(PamCalendar.getSessionStartTime());
 		}
 
@@ -1313,6 +1315,9 @@ public class PamController implements PamControllerInterface, PamSettings {
 		}
 		guiFrameManager.pamEnded();
 		
+		long stopTime = PamCalendar.getTimeInMillis();
+		saveEndSettings(stopTime);
+		
 		// no good having this here since it get's called at the end of every file. 
 //		if (GlobalArguments.getParam(PamController.AUTOEXIT) != null) {
 ////			can exit here, since we've auto started, can auto exit.
@@ -1431,6 +1436,26 @@ public class PamController implements PamControllerInterface, PamSettings {
 		pamConfiguration.saveSettings(timeNow);
 	}
 
+	/**
+	 * Gets called in pamStart and may / will attempt to store all
+	 * PAMGUARD settings via the database and binary storage modules. 
+	 */
+	private void saveEndSettings(long timeNow) {
+//		System.out.printf("Updating settings with end time %s\n", PamCalendar.formatDBDateTime(timeNow));
+		ArrayList<PamControlledUnit> pamControlledUnits = pamConfiguration.getPamControlledUnits();
+		PamControlledUnit pcu;
+		PamSettingsSource settingsSource;
+		for (int iU = 0; iU < pamControlledUnits.size(); iU++) {
+			pcu = pamControlledUnits.get(iU);
+			if (PamSettingsSource.class.isAssignableFrom(pcu.getClass())) {
+				settingsSource = (PamSettingsSource) pcu;
+				settingsSource.saveEndSettings(timeNow);
+			}
+		}
+	}
+	
+	
+
 	/**
 	 * Export configuration into an XML file
 	 * @param parentFrame 

src/PamController/PamSettingsSource.java

@@ -20,6 +20,14 @@ public interface PamSettingsSource {
 	 */
 	public boolean saveStartSettings(long timeNow);
 	
+	/**
+	 * Save settings when processing ends.
+	 * This may just be an update of the settings saves with saveStartSettings, e.g. an end time.  
+	 * @param timeNow
+	 * @return true if saved correctly. 
+	 */
+	public boolean saveEndSettings(long timeNow);
+	
 	/**
 	 * Get the number of different settings
 	 * within the settings source. 

src/PamController/settings/output/xml/PamguardXMLWriter.java

@@ -371,6 +371,32 @@ public class PamguardXMLWriter implements PamSettings {
 	 * @return xml content as a a string. 
 	 */
 	public String getAsString(Document doc) {
+		return getAsString(doc, true);
+//		try {
+//			DOMSource domSource = new DOMSource(doc);
+//			StringWriter writer = new StringWriter();
+//			StreamResult result = new StreamResult(writer);
+//			TransformerFactory tf = TransformerFactory.newInstance();
+//			Transformer transformer = tf.newTransformer();
+//			transformer.setOutputProperty(OutputKeys.METHOD, "xml");
+//			transformer.setOutputProperty(OutputKeys.ENCODING, "ISO-8859-1");
+////			transformer.setOutputProperty(OutputKeys.OMIT_XML_DECLARATION, "yes");
+//			transformer.setOutputProperty(OutputKeys.INDENT, "yes");
+//			transformer.setOutputProperty("{http://xml.apache.org/xslt}indent-amount", "4");
+//			transformer.transform(domSource, result);
+//			return writer.toString();
+//		} catch (TransformerException e) {
+//			e.printStackTrace();
+//			return null;
+//		}
+	}
+	/**
+	 * Get the xml document as a String.
+	 * @param doc xml document
+	 * @param indent Indent / format the document. 
+	 * @return xml content as a a string. 
+	 */
+	public String getAsString(Document doc, boolean indent) {
 		try {
 			DOMSource domSource = new DOMSource(doc);
 			StringWriter writer = new StringWriter();
@@ -380,7 +406,7 @@ public class PamguardXMLWriter implements PamSettings {
 			transformer.setOutputProperty(OutputKeys.METHOD, "xml");
 			transformer.setOutputProperty(OutputKeys.ENCODING, "ISO-8859-1");
 //			transformer.setOutputProperty(OutputKeys.OMIT_XML_DECLARATION, "yes");
-			transformer.setOutputProperty(OutputKeys.INDENT, "yes");
+			transformer.setOutputProperty(OutputKeys.INDENT, indent ? "yes" : "no");
 			transformer.setOutputProperty("{http://xml.apache.org/xslt}indent-amount", "4");
 			transformer.transform(domSource, result);
 			return writer.toString();
@@ -765,9 +791,10 @@ public class PamguardXMLWriter implements PamSettings {
 		processData.setAttribute("Name", process.getProcessName());
 		PamDataBlock source = process.getParentDataBlock();
 		if (source != null) {
-			Element inputEl = doc.createElement("Input");
+			Element inputEl = source.getDataBlockXML(doc);
-			inputEl.setAttribute("Name", source.getLongDataName());
+//			Element inputEl = doc.createElement("Input");
-			inputEl.setAttribute("Channels", String.format("0x%X", source.getChannelMap()));
+//			inputEl.setAttribute("Name", source.getLongDataName());
+//			inputEl.setAttribute("Channels", String.format("0x%X", source.getChannelMap()));
 			processData.appendChild(inputEl);
 		}
 		int nOut = process.getNumOutputDataBlocks();

src/PamModel/PamModel.java

@@ -44,9 +44,11 @@ import whistlesAndMoans.AbstractWhistleDataUnit;
 import fftManager.FFTDataUnit;
 import fftManager.PamFFTControl;
 import group3dlocaliser.Group3DLocaliserControl;
+import metadata.MetaDataContol;
 import meygenturbine.MeygenTurbine;
 import printscreen.PrintScreenControl;
 import rockBlock.RockBlockControl;
+import tethys.TethysControl;
 import turbineops.TurbineOperationControl;
 import GPS.GpsDataUnit;
 import NMEA.NMEADataUnit;
@@ -454,6 +456,19 @@ final public class PamModel implements PamSettings {
 		mi.setToolTipText("Manage automated data backups");
 		mi.setModulesMenuGroup(utilitiesGroup);
 		mi.setMaxNumber(1);
+
+
+		mi = PamModuleInfo.registerControlledUnit(MetaDataContol.class.getName(), MetaDataContol.unitType);
+		mi.setToolTipText("Deployment Meta Data");
+		mi.setModulesMenuGroup(utilitiesGroup);
+		mi.setMaxNumber(1); 
+		
+		if (isViewer) {
+			mi = PamModuleInfo.registerControlledUnit(TethysControl.class.getName(), TethysControl.defaultName);
+			mi.setToolTipText("Interface to Tethys Database");
+			mi.setModulesMenuGroup(utilitiesGroup);
+			mi.setMaxNumber(1);
+		}
 		
 		/*
 		 * ************* End Utilities  Group *******************

src/PamModel/parametermanager/PamParameterData.java

@@ -34,6 +34,11 @@ abstract public class PamParameterData {
 	 */
 	private String postTitle;
 	
+	/**
+	 * field length for automatic dialogs. 
+	 */
+	private int fieldLength;
+	
 
 	/**
 	 * @param parentObject
@@ -45,6 +50,21 @@ abstract public class PamParameterData {
 		this.field = field;
 	}
 
+	/**
+	 * @param parentObject
+	 * @param field
+	 * @param shortName
+	 * @param toolTip
+	 * @param fieldLength length of text in automatic dialogs. 
+	 */
+	public PamParameterData(Object parentObject, Field field, String shortName, String toolTip, int fieldLength) {
+		super();
+		this.field = field;
+		this.shortName = shortName;
+		this.toolTip = toolTip;
+		this.fieldLength = fieldLength;
+	}
+
 	/**
 	 * @param parentObject
 	 * @param field
@@ -58,7 +78,6 @@ abstract public class PamParameterData {
 		this.toolTip = toolTip;
 	}
 
-
 	/**
 	 * @param shortName the shortName to set
 	 */
@@ -66,6 +85,20 @@ abstract public class PamParameterData {
 		this.shortName = shortName;
 	}
 	
+	/**
+	 * Set info about a parameter
+	 * @param shortName short name, e.g. to use in a dialog
+	 * @param postTitle post title, e.g. text coming after a data entry field in a dialog
+	 * @param toolTip tool tip to display over the component in a dialog. 
+	 * @param fieldLength length of text in automatic dialogs. 
+	 */
+	public void setInfo(String shortName, String postTitle, String toolTip, int fieldLength) {
+		this.shortName = shortName;
+		this.postTitle = postTitle;
+		this.toolTip = toolTip;
+		this.fieldLength = fieldLength;
+	}
+	
 	/**
 	 * Set info about a parameter
 	 * @param shortName short name, e.g. to use in a dialog
@@ -136,6 +169,9 @@ abstract public class PamParameterData {
 	 * @return a short name for the field, suitable for use in dialogs.
 	 */
 	public String getShortName() {
+		if (shortName == null) {
+			return getFieldName();
+		}
 		return shortName;
 	}
 	
@@ -166,5 +202,19 @@ abstract public class PamParameterData {
 		return String.format("Param %s class %s", getFieldName(), getDataClass());
 	}
 
+	/**
+	 * @return the fieldLength
+	 */
+	public int getFieldLength() {
+		return fieldLength;
+	}
+
+	/**
+	 * @param fieldLength the fieldLength to set
+	 */
+	public void setFieldLength(int fieldLength) {
+		this.fieldLength = fieldLength;
+	}
+
 	
 }

src/PamModel/parametermanager/PamParameterDataGetter.java

@@ -59,9 +59,12 @@ public class PamParameterDataGetter extends PrivatePamParameterData {
 		if (setter == null) {
 			return false;
 		}
+		// need to convert the type
+		Object convObj = convertStringType(data);
 		try {
-			setter.invoke(getParentObject(), data);
+			Object parentObj = getParentObject();
-		} catch (IllegalAccessException | IllegalArgumentException | InvocationTargetException e) {
+			setter.invoke(parentObj, convObj);
+		} catch (InvocationTargetException e) {
 			e.printStackTrace();
 			return false;
 		}

src/PamModel/parametermanager/PamParameterSet.java

@@ -286,4 +286,5 @@ public class PamParameterSet {
 	public PamParameterData removeParameterData(String paramName) {
 		return parameterDatas.remove(paramName);
 	}
+
 }

src/PamModel/parametermanager/ParameterSetManager.java

@@ -0,0 +1,73 @@
+package PamModel.parametermanager;
+
+import java.awt.Window;
+import java.awt.event.ActionEvent;
+import java.awt.event.ActionListener;
+
+import javax.swing.JMenuItem;
+
+import PamModel.parametermanager.swing.ManagedParameterDialog;
+import generalDatabase.parameterstore.ParameterDatabaseStore;
+
+/**
+ * Just about everything giving overall control of some managed parameters. 
+ * May be a bit too specific on first cut and need to be abstracted. 
+ * Testing on 'Deployment' data. 
+ * @author dg50
+ *
+ * @param <T>
+ */
+public class ParameterSetManager<T extends ManagedParameters> {
+	
+	private T managedParams;
+	private String name;
+
+	public ParameterSetManager(T defaultParams, String name) {
+		setManagedParams(defaultParams);
+		this.name = name;
+//		if (managedParams == null) {
+//			managedParams = new T();
+//		}
+	}
+
+	/**
+	 * @return the managedParams
+	 */
+	public T getManagedParams() {
+		return managedParams;
+	}
+
+	/**
+	 * @param managedParams the managedParams to set
+	 */
+	public void setManagedParams(T managedParams) {
+		this.managedParams = managedParams;
+	}
+	
+	public JMenuItem getMenuItem(Window parent) {
+		if (managedParams == null) {
+			return null;
+		}
+		JMenuItem menuItem = new JMenuItem(name + " ...");
+		menuItem.addActionListener(new ActionListener() {
+			
+			@Override
+			public void actionPerformed(ActionEvent e) {
+				showDialog(parent);
+			}
+		});
+		
+		return menuItem;
+	}
+
+	protected void showDialog(Window parent) {
+		ManagedParameterDialog<T> dialog = new ManagedParameterDialog<T>(parent, name, managedParams);
+		T newParams = dialog.showDialog(parent, name, managedParams);
+
+		if (newParams != null) {
+		ParameterDatabaseStore paramDatabase = new ParameterDatabaseStore("MetaData");
+		paramDatabase.saveParameterSet(newParams);
+		}
+	}
+
+}

src/PamModel/parametermanager/PrivatePamParameterData.java

@@ -1,6 +1,7 @@
 package PamModel.parametermanager;
 
 import java.lang.reflect.Field;
+import java.lang.reflect.Type;
 
 /**
  * Abstract instance of PamParameterDataInterface which implements everything 
@@ -36,9 +37,48 @@ public abstract class PrivatePamParameterData extends PamParameterData {
 		 * This should really be implemented in every concrete class, but no time to do that now. Aim to delete 
 		 * this function here, then go through and implement everywhere ...
 		 */
-		return false;
+//		return false;
+		Object convData = convertStringType(data);
+		getField().set(this, convData);
+		
+		return true;
 	}
 	
+	/**
+	 * convert a string type to a different type appropriate for the field in
+	 * question. 
+	 * @param value
+	 * @return
+	 */
+	public Object convertStringType(Object value) {
+		if (value == null) {
+			return null;
+		}
+		if (value instanceof String == false) {
+			return value;
+		}
+		String str = (String) value;
+		Type type = getField().getGenericType();
+		Class<?> cls = getField().getType();
+		String clsName = cls.getName();
+		switch (clsName) {
+		case "int":
+		case "Integer":
+			return Integer.valueOf(str);
+		case "double":
+		case "Double":
+			return Double.valueOf(str);
+		case "float":
+		case "Float":
+			return Float.valueOf(str);
+		case "short":
+		case "Short":
+			return Short.valueOf(str);
+			
+		}
+		
+		return value;
+	}
 
 
 }

src/PamModel/parametermanager/swing/ManagedParameterDialog.java

@@ -0,0 +1,49 @@
+package PamModel.parametermanager.swing;
+
+import java.awt.Window;
+
+import PamModel.parametermanager.ManagedParameters;
+import PamView.dialog.PamDialog;
+
+public class ManagedParameterDialog<T extends ManagedParameters> extends PamDialog {
+	
+	private T params;
+	
+	private ManagedParameterPanel<T> parameterPanel;
+
+	public ManagedParameterDialog(Window parentFrame, String title, T params) {
+		super(parentFrame, title, false);
+		parameterPanel = new ManagedParameterPanel<T>(params);
+		setDialogComponent(parameterPanel.getPanel());
+	}
+	
+	public T showDialog(Window parentFrame, String title, T parameters) {
+//		ManagedParameterDialog dialog = new ManagedParameterDialog<>(parentFrame, title, parameters);
+		setParams(parameters);
+		setVisible(true);
+		
+		return params;
+	}
+	
+	private void setParams(T params) {
+		this.params = params;
+		this.parameterPanel.setParams(params);
+	}
+
+	@Override
+	public boolean getParams() {
+		return parameterPanel.getParams(params);
+	}
+
+	@Override
+	public void cancelButtonPressed() {
+		params = null;
+	}
+
+	@Override
+	public void restoreDefaultSettings() {
+		// TODO Auto-generated method stub
+
+	}
+
+}

src/PamModel/parametermanager/swing/ManagedParameterPanel.java

@@ -0,0 +1,149 @@
+package PamModel.parametermanager.swing;
+
+import java.awt.Color;
+import java.awt.GridBagConstraints;
+import java.awt.GridBagLayout;
+import java.util.Collection;
+
+import javax.swing.BorderFactory;
+import javax.swing.JComponent;
+import javax.swing.JLabel;
+import javax.swing.JPanel;
+import javax.swing.JTextArea;
+import javax.swing.JTextField;
+import javax.swing.text.JTextComponent;
+
+import PamModel.parametermanager.FieldNotFoundException;
+import PamModel.parametermanager.ManagedParameters;
+import PamModel.parametermanager.PamParameterData;
+import PamModel.parametermanager.PamParameterSet;
+import PamView.dialog.PamDialog;
+import PamView.dialog.PamGridBagContraints;
+
+public class ManagedParameterPanel<T extends ManagedParameters> {
+	
+	private JPanel mainPanel;
+	private Collection<PamParameterData> parameterSet;
+	
+	private static final int DEFAULT_TEXT_LENGTH = 6;
+	private static final int MAX_SINGLE_LINE_LENGTH = 40;
+	
+	private JTextComponent[] textComponents;
+
+	public ManagedParameterPanel(T parameterExample) {
+		
+		mainPanel = new JPanel(new GridBagLayout());
+		GridBagConstraints c = new PamGridBagContraints();
+		PamParameterSet exampleSet = parameterExample.getParameterSet();
+		parameterSet = exampleSet.getParameterCollection();
+		int n = parameterSet.size();
+		textComponents = new JTextComponent[n];
+		int i = 0;
+		for (PamParameterData paramData : parameterSet) {
+			textComponents[i] = createComponent(paramData);
+			c.gridx = 0;
+			c.fill = GridBagConstraints.NONE;
+			c.anchor = GridBagConstraints.NORTHEAST;
+			mainPanel.add(new JLabel(paramData.getShortName(), JLabel.RIGHT), c);
+			c.gridx++;
+			if (textComponents[i] instanceof JTextArea) {
+				c.fill = GridBagConstraints.HORIZONTAL;
+			}
+			else {
+				c.fill = GridBagConstraints.NONE;
+			}
+			c.anchor = GridBagConstraints.WEST;
+			mainPanel.add(textComponents[i], c);
+			
+			textComponents[i].setToolTipText(getTipText(paramData));
+			
+			c.gridy++;
+			i++;
+		}
+	}
+	
+	private String getTipText(PamParameterData paramData) {
+		String tip = paramData.getToolTip();
+		if (tip != null) {
+			return tip;
+		}
+		else {
+			return paramData.getFieldName();
+		}
+	}
+	
+	private JTextComponent createComponent(PamParameterData paramData) {
+		int textLen = paramData.getFieldLength();
+		if (textLen == 0) {
+			textLen = DEFAULT_TEXT_LENGTH;
+		}
+		if (textLen <= MAX_SINGLE_LINE_LENGTH) {
+			return new JTextField(textLen);
+		}
+		else {
+			JTextField dummyField = new JTextField(2);
+//			dummyField.getBorder().
+			JTextArea textArea = new JTextArea(textLen/MAX_SINGLE_LINE_LENGTH+1, MAX_SINGLE_LINE_LENGTH);
+			textArea.setBorder(BorderFactory.createLineBorder(Color.LIGHT_GRAY));
+			return textArea;
+		}
+	}
+	
+	public JComponent getPanel() {
+		return mainPanel;
+	}
+	
+	public void setParams(T params) {
+		int i = 0;
+		PamParameterData newParamData = null;
+		Object data = null;
+		for (PamParameterData paramData : this.parameterSet) {
+			// find the parameter in the new parameters (parameterSet is just a formatting placeholder)
+			try {
+				newParamData = params.getParameterSet().findParameterData(paramData.getFieldName());
+			} catch (FieldNotFoundException e) {
+				e.printStackTrace();
+			}
+			try {
+				data = newParamData.getData();
+			} catch (IllegalArgumentException e) {
+				e.printStackTrace();
+			} catch (IllegalAccessException e) {
+				e.printStackTrace();
+			}
+			if (data != null) {
+				textComponents[i].setText(data.toString());
+			}
+			else {
+				textComponents[i].setText(null);
+			}
+			i++;
+		}
+	}
+	
+	public boolean getParams(T params) {
+		int i = 0;
+		PamParameterData newParamData = null;
+		Object data = null;
+		for (PamParameterData paramData : this.parameterSet) {
+			// find the parameter in the new parameters (parameterSet is just a formatting placeholder)
+			try {
+				newParamData = params.getParameterSet().findParameterData(paramData.getFieldName());
+			} catch (FieldNotFoundException e) {
+				e.printStackTrace();
+			}
+			String txt = textComponents[i].getText();
+			try {
+				newParamData.setData(txt);
+			} catch (IllegalArgumentException | IllegalAccessException e) {
+				String msg = "Invalid parameter. Data type should be " + paramData.getField().getType().getName();
+				return PamDialog.showWarning(null, newParamData.getShortName(), msg);
+			}
+		
+			i++;
+		}
+		
+		return true;
+	}
+
+}

src/PamguardMVC/AcousticDataBlock.java

@@ -1,5 +1,8 @@
 package PamguardMVC;
 
+import org.w3c.dom.Document;
+import org.w3c.dom.Element;
+
 import PamController.PamControllerInterface;
 import PamguardMVC.nanotime.NanosFromSamples;
 
@@ -90,5 +93,12 @@ abstract public class AcousticDataBlock <Tunit extends PamDataUnit> extends PamD
 		return parentSourceData;
 	}
 
+	@Override
+	public Element getDataBlockXML(Document doc) {
+		Element el = super.getDataBlockXML(doc);
+		el.setAttribute("SampleRate", String.format("%3.1f", getSampleRate()));
+		return el;
+	}
+
 
 }

src/PamguardMVC/DataBlock2D.java

@@ -1,5 +1,8 @@
 package PamguardMVC;
 
+import org.w3c.dom.Document;
+import org.w3c.dom.Element;
+
 import dataPlotsFX.data.DataTypeInfo;
 
 abstract public class DataBlock2D<Tunit extends PamDataUnit> extends AcousticDataBlock<Tunit> {
@@ -39,4 +42,18 @@ abstract public class DataBlock2D<Tunit extends PamDataUnit> extends AcousticDat
 	 * @return data type information.
 	 */
 	abstract public DataTypeInfo getScaleInfo();
+
+	public Element getDataBlockXML(Document doc) {
+		Element el = super.getDataBlockXML(doc);
+		DataTypeInfo dti = getScaleInfo();
+		if (dti != null) {
+			if (dti.dataType != null) {
+				el.setAttribute("DataType", dti.dataType.toString());
+			}
+			if (dti.dataUnits != null) {
+				el.setAttribute("DataUnits", dti.dataUnits.toString());
+			}
+		}
+		return el;
+	}
 }

src/PamguardMVC/PamDataBlock.java

@@ -44,10 +44,14 @@ import javax.swing.Timer;
 import javax.swing.border.EmptyBorder;
 
 import org.springframework.core.GenericTypeResolver;
+import org.w3c.dom.Document;
+import org.w3c.dom.Element;
 
 import Acquisition.AcquisitionControl;
 import Acquisition.AcquisitionProcess;
 import pamScrollSystem.ViewLoadObserver;
+import tethys.pamdata.AutoTethysProvider;
+import tethys.pamdata.TethysDataProvider;
 import dataGram.DatagramProvider;
 import dataMap.BespokeDataMapGraphic;
 import dataMap.OfflineDataMap;
@@ -62,6 +66,7 @@ import PamController.PamController;
 import PamController.PamControllerInterface;
 import PamDetection.LocContents;
 import PamDetection.LocalisationInfo;
+import PamDetection.PamDetection;
 import PamUtils.PamCalendar;
 import PamUtils.PamUtils;
 import PamView.symbol.PamSymbolManager;
@@ -2863,8 +2868,11 @@ public class PamDataBlock<Tunit extends PamDataUnit> extends PamObservable {
 	private Vector<OfflineDataMap> offlineDataMaps = null;
 
 	private SQLLogging logging;
+	
+	private TethysDataProvider tethysDataProvider;
 
 	private JSONObjectDataSource jsonDataSource;
+	
 
 	public Vector<ProcessAnnotation> getProcessAnnotations() {
 		return processAannotations;
@@ -3074,6 +3082,26 @@ public class PamDataBlock<Tunit extends PamDataUnit> extends PamObservable {
 	public SQLLogging getLogging() {
 		return logging;
 	}
+	
+	/**
+	 * Gets a data provider for Tethys. These will probably need
+	 * to be bespoke, but for now will autogenerate based on the SALLogging information. 
+	 * @return the tethysDataProvider
+	 */
+	public TethysDataProvider getTethysDataProvider() {
+		if (tethysDataProvider == null && PamDetection.class.isAssignableFrom(unitClass) && getLogging() != null) {
+			tethysDataProvider = new AutoTethysProvider(this);
+		}
+		return tethysDataProvider;
+	}
+
+	/**
+	 * Set a data provider for Tethys.
+	 * @param tethysDataProvider the tethysDataProvider to set
+	 */
+	public void setTethysDataProvider(TethysDataProvider tethysDataProvider) {
+		this.tethysDataProvider = tethysDataProvider;
+	}
 
 	final public boolean getCanLog() {
 		return (logging != null);
@@ -4229,4 +4257,23 @@ public class PamDataBlock<Tunit extends PamDataUnit> extends PamObservable {
 	public void setBackgroundManager(BackgroundManager backgroundManager) {
 		this.backgroundManager = backgroundManager;
 	}
+
+	/**
+	 * Get a brief summary of datablock to include in XML descriptions. 
+	 * Basic output is very simple. Expect other datablock to extend this by 
+	 * adding additional attributes. 
+	 * @param doc
+	 * @return XML element with description of data. 
+	 */
+	public Element getDataBlockXML(Document doc) {
+		Element inputEl = doc.createElement("Input");
+		if (getParentProcess() != null && getParentProcess().getPamControlledUnit() != null) {
+			PamControlledUnit pcu = getParentProcess().getPamControlledUnit();
+			inputEl.setAttribute("ModuleType", pcu.getUnitType());
+			inputEl.setAttribute("ModuleName", pcu.getUnitName());
+		}
+		inputEl.setAttribute("Name", getLongDataName());
+		inputEl.setAttribute("Channels", String.format("0x%X", getChannelMap()));
+		return inputEl;
+	}
 }

src/RightWhaleEdgeDetector/RWESQLLogging.java

@@ -7,6 +7,7 @@ import PamDetection.AcousticSQLLogging;
 import PamUtils.PamUtils;
 import PamguardMVC.PamDataBlock;
 import PamguardMVC.PamDataUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLTypes;
@@ -26,7 +27,7 @@ public class RWESQLLogging extends AcousticSQLLogging {
 		angles = new PamTableItem[maxAngles];
 		angleErrors = new PamTableItem[maxAngles];
 		
-		PamTableDefinition tableDef = getTableDefinition();
+		EmptyTableDefinition tableDef = getTableDefinition();
 		tableDef.addTableItem(score = new PamTableItem("score", Types.INTEGER)); 
 		tableDef.addTableItem(signal = new PamTableItem("signal", Types.DOUBLE)); 
 		tableDef.addTableItem(noise = new PamTableItem("noise", Types.DOUBLE));

src/analogarraysensor/ArraySensorLogging.java

@@ -56,7 +56,8 @@ public class ArraySensorLogging extends SQLLogging {
 			AnalogSensorData aData = new AnalogSensorData(rawValue, calValue);
 			sensorData[i] = aData;
 		}
-		int chanMap = getTableDefinition().getChannelBitmap().getIntegerValue();
+		PamTableDefinition pamTableDef = (PamTableDefinition) getTableDefinition();
+		int chanMap = pamTableDef.getChannelBitmap().getIntegerValue();
 		int streamer = PamUtils.getSingleChannel(chanMap);
 		if (streamer < 0) streamer = 0;
 		AnalogArraySensorDataUnit asdu = new AnalogArraySensorDataUnit(timeMilliseconds, streamer, sensorData);

src/annotation/calcs/snr/SnrSqlAddon.java

@@ -3,6 +3,7 @@ package annotation.calcs.snr;
 import java.sql.Types;
 
 import PamguardMVC.PamDataUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLLoggingAddon;
@@ -21,13 +22,13 @@ public class SnrSqlAddon implements SQLLoggingAddon {
 	}
 
 	@Override
-	public void addTableItems(PamTableDefinition pamTableDefinition) {
+	public void addTableItems(EmptyTableDefinition pamTableDefinition) {
 		pamTableDefinition.addTableItem(snr);
 		
 	}
 
 	@Override
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition,
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition,
 			PamDataUnit pamDataUnit) {
 		SNRAnnotation snrAnnotation = (SNRAnnotation) pamDataUnit.findDataAnnotation(SNRAnnotation.class);
 		if (snrAnnotation == null) {
@@ -40,7 +41,7 @@ public class SnrSqlAddon implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition,
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition,
 			PamDataUnit pamDataUnit) {
 		Double snrVal = (Double) snr.getValue();
 		if (snrVal != null) {

src/annotation/calcs/spl/SPLSqlAddon.java

@@ -3,6 +3,7 @@ package annotation.calcs.spl;
 import java.sql.Types;
 
 import PamguardMVC.PamDataUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLLoggingAddon;
@@ -25,7 +26,7 @@ public class SPLSqlAddon implements SQLLoggingAddon {
 	}
 
 	@Override
-	public void addTableItems(PamTableDefinition pamTableDefinition) {
+	public void addTableItems(EmptyTableDefinition pamTableDefinition) {
 		pamTableDefinition.addTableItem(rms);
 		pamTableDefinition.addTableItem(zeroPeak);
 		pamTableDefinition.addTableItem(peakPeak);
@@ -33,7 +34,7 @@ public class SPLSqlAddon implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition,
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition,
 			PamDataUnit pamDataUnit) {
 		SPLAnnotation splAnnotation = (SPLAnnotation) pamDataUnit.findDataAnnotation(SPLAnnotation.class);
 		if (splAnnotation == null) {
@@ -52,7 +53,7 @@ public class SPLSqlAddon implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition,
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition,
 			PamDataUnit pamDataUnit) {
 		SPLAnnotation splAnnotation = new SPLAnnotation(splAnnotationType);
 		if (splAnnotation != null) {

src/annotation/calcs/wav/WavSqlAddon.java

@@ -3,6 +3,7 @@ package annotation.calcs.wav;
 import java.sql.Types;
 
 import PamguardMVC.PamDataUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLLoggingAddon;
@@ -21,13 +22,13 @@ public class WavSqlAddon implements SQLLoggingAddon {
 	}
 
 	@Override
-	public void addTableItems(PamTableDefinition pamTableDefinition) {
+	public void addTableItems(EmptyTableDefinition pamTableDefinition) {
 		pamTableDefinition.addTableItem(wavFileName);
 		
 	}
 
 	@Override
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition,
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition,
 			PamDataUnit pamDataUnit) {
 		WavAnnotation annotation = (WavAnnotation) pamDataUnit.findDataAnnotation(WavAnnotation.class);
 		if (annotation == null) {
@@ -40,7 +41,7 @@ public class WavSqlAddon implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition,
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition,
 			PamDataUnit pamDataUnit) {
 		String fileName = (String) wavFileName.getValue();
 		if (fileName != null) {

src/annotation/handler/OneStopAnnotationHandler.java

@@ -15,6 +15,7 @@ import PamView.dialog.GenericSwingDialog;
 import PamguardMVC.PamDataBlock;
 import PamguardMVC.PamDataUnit;
 import generalDatabase.DBControlUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.SQLLogging;
 
@@ -126,7 +127,7 @@ public abstract class OneStopAnnotationHandler extends AnnotationChoiceHandler i
 			return;
 		}
 		// get, modify and set the modified tabelDef
-		PamTableDefinition tableDef = logging.getBaseTableDefinition();
+		EmptyTableDefinition tableDef = logging.getBaseTableDefinition();
 		logging.setTableDefinition(tableDef);
 		addAnnotationSqlAddons(logging); // this will add the additional columns. 
 		DBControlUnit dbc = DBControlUnit.findDatabaseControl();

src/annotation/localise/targetmotion/TMAnnotationLogging.java

@@ -3,6 +3,7 @@ package annotation.localise.targetmotion;
 import Localiser.detectionGroupLocaliser.GroupLocalisation;
 import PamDetection.AbstractLocalisation;
 import PamguardMVC.PamDataUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.SQLTypes;
 import targetMotionOld.TargetMotionSQLLogging;
@@ -17,7 +18,7 @@ public class TMAnnotationLogging extends TargetMotionSQLLogging {
 	}
 
 	@Override
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		boolean ans = super.loadData(sqlTypes, pamTableDefinition, pamDataUnit);
 		if (ans == false) return false;
 		AbstractLocalisation loc = pamDataUnit.getLocalisation();

src/annotation/string/StringSQLLogging.java

@@ -3,6 +3,7 @@ package annotation.string;
 import java.sql.Types;
 
 import PamguardMVC.PamDataUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLLoggingAddon;
@@ -24,12 +25,12 @@ public class StringSQLLogging implements SQLLoggingAddon {
 	}
 
 	@Override
-	public void addTableItems(PamTableDefinition pamTableDefinition) {
+	public void addTableItems(EmptyTableDefinition pamTableDefinition) {
 		pamTableDefinition.addTableItem(notes); 
 	}
 
 	@Override
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		StringAnnotation stringAnnotation = (StringAnnotation) pamDataUnit.findDataAnnotation(StringAnnotation.class, 
 				stringAnnotationType.getAnnotationName());
 		if (stringAnnotation == null) {
@@ -42,7 +43,7 @@ public class StringSQLLogging implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		try {
 			String note = notes.getDeblankedStringValue();
 			if (note != null && note.length() > 0) {

src/annotation/timestamp/TimestampSQLLogging.java

@@ -3,6 +3,7 @@ package annotation.timestamp;
 import java.sql.Types;
 
 import PamguardMVC.PamDataUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLLoggingAddon;
@@ -22,12 +23,12 @@ public class TimestampSQLLogging implements SQLLoggingAddon {
 	}
 
 	@Override
-	public void addTableItems(PamTableDefinition pamTableDefinition) {
+	public void addTableItems(EmptyTableDefinition pamTableDefinition) {
 		pamTableDefinition.addTableItem(timestamp); 
 	}
 
 	@Override
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		TimestampAnnotation timestampAnnotation = (TimestampAnnotation) pamDataUnit.findDataAnnotation(TimestampAnnotation.class, 
 				timestampAnnotationType.getAnnotationName());
 		if (timestampAnnotation == null) {
@@ -40,7 +41,7 @@ public class TimestampSQLLogging implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		try {
 			TimestampAnnotation timestampAnnotation = new TimestampAnnotation(timestampAnnotationType);
 			Long note = sqlTypes.millisFromTimeStamp(timestamp.getValue());

src/annotation/userforms/UserFormSQLAddon.java

@@ -3,6 +3,7 @@ package annotation.userforms;
 import java.util.ArrayList;
 
 import PamguardMVC.PamDataUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLLoggingAddon;
@@ -32,7 +33,7 @@ public class UserFormSQLAddon implements SQLLoggingAddon {
 
 
 	@Override
-	public void addTableItems(PamTableDefinition pamTableDefinition) {
+	public void addTableItems(EmptyTableDefinition pamTableDefinition) {
 		loggerTableItems.clear();
 		FormDescription formDescription = userFormAnnotationType.findFormDescription();
 		if (formDescription == null) {
@@ -58,7 +59,7 @@ public class UserFormSQLAddon implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		if (pamDataUnit == null) {
 			clearTableItems();
 			return false;
@@ -103,7 +104,7 @@ public class UserFormSQLAddon implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		FormDescription formDescription = userFormAnnotationType.findFormDescription();
 		if (formDescription == null) {
 			return false;

src/beamformer/annotation/BFAnnotationLogging.java

@@ -6,6 +6,7 @@ import PamDetection.LocContents;
 import PamguardMVC.PamDataBlock;
 import PamguardMVC.PamDataUnit;
 import beamformer.loc.BeamFormerLocalisation;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLLoggingAddon;
@@ -29,7 +30,7 @@ public class BFAnnotationLogging implements SQLLoggingAddon {
 	}
 
 	@Override
-	public void addTableItems(PamTableDefinition pamTableDefinition) {
+	public void addTableItems(EmptyTableDefinition pamTableDefinition) {
 		pamTableDefinition.addTableItem(bfPhones);
 		pamTableDefinition.addTableItem(bfArrayType);
 		pamTableDefinition.addTableItem(bfContents);
@@ -38,7 +39,7 @@ public class BFAnnotationLogging implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		bfPhones.setValue(null);
 		bfArrayType.setValue(null);
 		bfContents.setValue(null);
@@ -64,7 +65,7 @@ public class BFAnnotationLogging implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		Float[] Angles = new Float[2];
 		for (int i = 0; i < 2; i++) {
 			Angles[i] = (Float) angle[i].getFloatValue();

src/bearinglocaliser/annotation/BearingAnnotationSQL.java

@@ -4,6 +4,7 @@ import java.sql.Types;
 
 import PamguardMVC.PamDataUnit;
 import bearinglocaliser.BearingLocalisation;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLLoggingAddon;
@@ -34,7 +35,7 @@ public class BearingAnnotationSQL implements SQLLoggingAddon {
 	}
 
 	@Override
-	public void addTableItems(PamTableDefinition pamTableDefinition) {
+	public void addTableItems(EmptyTableDefinition pamTableDefinition) {
 		pamTableDefinition.addTableItem(algoName);
 		pamTableDefinition.addTableItem(bfPhones);
 		pamTableDefinition.addTableItem(bfArrayType);
@@ -48,7 +49,7 @@ public class BearingAnnotationSQL implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		algoName.setValue(null);
 		bfPhones.setValue(null);
 		bfArrayType.setValue(null);
@@ -96,7 +97,7 @@ public class BearingAnnotationSQL implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		Float[] Angles = new Float[2];
 		int nNans = 0;
 		for (int i = 0; i < 2; i++) {

src/binaryFileStorage/BinarySettingsStorage.java

@@ -110,6 +110,12 @@ public class BinarySettingsStorage implements PamSettingsSource {
 		return false;*/
 	}
 
+	@Override
+	public boolean saveEndSettings(long timeNow) {
+		// do nothing at the end of a run with binary store. 
+		return true;
+	}
+
 //	private boolean writeData(DataOutputStream dos, int objectId, byte[] data) {
 //		int totalLen = data.length + 16;
 //		int dataLen = data.length;

src/binaryFileStorage/BinaryStore.java

@@ -540,6 +540,12 @@ PamSettingsSource, DataOutputStore {
 		return binarySettingsStorage.saveStartSettings(timeNow);
 	}
 
+	@Override
+	public boolean saveEndSettings(long timeNow) {
+		// TODO Auto-generated method stub
+		return false;
+	}
+	
 	@Override
 	public int getNumSettings() {
 		if (binarySettingsStorage == null) {

src/binaryFileStorage/BinaryStoreProcess.java

@@ -46,6 +46,7 @@ public class BinaryStoreProcess extends PamProcess {
 		startTime = PamCalendar.getTimeInMillis();
 		long round = binaryStore.binaryStoreSettings.fileSeconds * 1000;
 		nextFileTime = (startTime/round) * round + round;
+		// this was a print of the time of the NEXT binary file. Not really of interest. 
 //		System.out.println("Next file start at " + PamCalendar.formatDateTime(nextFileTime));
 		timer = new Timer();
 		timer.schedule(new FileTimerTask(), 1000, 1000);

src/clickDetector/ClickClassifiers/annotation/ClickAnnotationSQL.java

@@ -3,6 +3,7 @@ package clickDetector.ClickClassifiers.annotation;
 import java.sql.Types;
 
 import PamguardMVC.PamDataUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLLoggingAddon;
@@ -33,12 +34,12 @@ public class ClickAnnotationSQL implements SQLLoggingAddon {
 	}
 
 	@Override
-	public void addTableItems(PamTableDefinition pamTableDefinition) {
+	public void addTableItems(EmptyTableDefinition pamTableDefinition) {
 		pamTableDefinition.addTableItem(classifierSetTable);
 	}
 
 	@Override
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		ClickClassifierAnnotation clickAnnotation = (ClickClassifierAnnotation) pamDataUnit.findDataAnnotation(ClickClassificationType.class);
 		
 		//create a comma delimited string
@@ -53,7 +54,7 @@ public class ClickAnnotationSQL implements SQLLoggingAddon {
 
 	@Override
 	
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		String array = classifierSetTable.getDeblankedStringValue();
 		
 		//read in the classification set. This a list of all the classifiers the clicks passed. 

src/clickDetector/TrackedClickGroupLogging.java

@@ -1,5 +1,6 @@
 package clickDetector;
 
+import generalDatabase.PamTableDefinition;
 import generalDatabase.SQLTypes;
 import PamguardMVC.PamDataUnit;
 import clickDetector.offlineFuncs.OfflineEventDataUnit;
@@ -30,7 +31,8 @@ public class TrackedClickGroupLogging extends ClickGroupLogging {
 		boolean isUpdate = true;
 //		Timestamp ts = (Timestamp) getTableDefinition().getTimeStampItem().getValue();
 //		long t = PamCalendar.millisFromTimeStamp(ts);
-		int updateIndex = (Integer) getTableDefinition().getUpdateReference().getValue();
+		PamTableDefinition tableDef = (PamTableDefinition) getTableDefinition();
+		int updateIndex = (Integer) tableDef.getUpdateReference().getValue();
 		if (updateIndex > 0) {
 			tcg = this.clickGroupDataBlock.findByDatabaseIndex(updateIndex);
 		}

src/clickDetector/dataSelector/ClickTrainDataSelector2.java

@@ -82,7 +82,7 @@ public class ClickTrainDataSelector2 extends DataSelector {
 		}
 		SQLLogging logging = getPamDataBlock().getLogging();
 		if (logging == null) return null; //cannot happen!
-		PamTableDefinition tableDef = logging.getTableDefinition();
+		EmptyTableDefinition tableDef = logging.getTableDefinition();
 		if (params.isIncludeUnclassified()) {
 			return null;
 		}

src/clickDetector/layoutFX/clickClassifiers/SweepClassifierSetPaneFX.java

@@ -1628,8 +1628,7 @@ public class SweepClassifierSetPaneFX extends SettingsPane<ClickTypeProperty> {
 		
 			p.setLayout(new GridBagLayout());
 			GridBagConstraints c = new PamGridBagContraints();
-			
+	
-
 //			c.gridx = 0;
 //			addComponent(p, enableBearings, c);
 //			c.gridx += c.gridwidth;
@@ -1737,7 +1736,7 @@ public class SweepClassifierSetPaneFX extends SettingsPane<ClickTypeProperty> {
 //			}
 //		}
 //		else multiChan = true;
-//		Debug.out.println("Check multi-channel: " + multiChan);
+////		Debug.out.println("Check multi-channel: " + multiChan);
 		
 		return multiChan; 
 	}

src/clickDetector/offlineFuncs/DatabaseChecks.java

@@ -102,16 +102,17 @@ public class DatabaseChecks {
 		long resultTime;
 		long firstTime = Long.MAX_VALUE;
 		long lastTime = Long.MIN_VALUE;
+		PamTableDefinition pamTableDef = (PamTableDefinition) clickLogging.getTableDefinition();
 		try {
 			Statement stmt = con.getConnection().createStatement();
 			ResultSet result = stmt.executeQuery(sqlStr);
 			while (result.next()) {
 				nClicks++;
 				clickLogging.transferDataFromResult(sqlTypes, result);			
-				ts = clickLogging.getTableDefinition().getTimeStampItem().getValue();
+				ts = pamTableDef.getTimeStampItem().getValue();
 				resultTime = sqlTypes.millisFromTimeStamp(ts);
 				if (resultTime%1000 == 0) {
-					resultTime += clickLogging.getTableDefinition().getTimeStampMillis().getIntegerValue();
+					resultTime += pamTableDef.getTimeStampMillis().getIntegerValue();
 				}
 				firstTime = Math.min(firstTime, resultTime);
 				lastTime = Math.max(lastTime, resultTime);
@@ -188,7 +189,7 @@ public class DatabaseChecks {
 		eventDataBlock.addPamData(event);
 		PamConnection con = DBControlUnit.findConnection();
 		// now find a cursor and save it. 
-		PamTableDefinition eventTableDef = eventDataBlock.getLogging().getTableDefinition();
+		PamTableDefinition eventTableDef = (PamTableDefinition) eventDataBlock.getLogging().getTableDefinition();
 		PamCursor cursor = eventDataBlock.getLogging().getViewerCursorFinder().getCursor(con, eventTableDef);
 		cursor.immediateInsert(con);
 		int newId = event.getDatabaseIndex();

src/clickDetector/offlineFuncs/OfflineClickLogging.java

@@ -277,13 +277,14 @@ public class OfflineClickLogging extends SQLLogging {
 		Integer millis;
 		Object ts;
 		SQLTypes sqlTypes = dbControl.getConnection().getSqlTypes();
+		PamTableDefinition tableDef = (PamTableDefinition) getTableDefinition();
 		try {
 			while (resultSet.next()) {
 				transferDataFromResult(sqlTypes, resultSet);
-				ts = getTableDefinition().getTimeStampItem().getValue();
+				ts = tableDef.getTimeStampItem().getValue();
 				long m = SQLTypes.millisFromTimeStamp(ts); 
 				if (m%1000 == 0) {
-					millis = (Integer) getTableDefinition().getTimeStampMillis().getValue();
+					millis = (Integer) tableDef.getTimeStampMillis().getValue();
 					if (millis != null) {
 						m += millis;
 					}

src/clickDetector/offlineFuncs/rcImport/RainbowDatabseConverter.java

@@ -148,7 +148,7 @@ public class RainbowDatabseConverter {
 		
 		ClickDataBlock clickDataBlock = clickControl.getClickDataBlock();
 		clickLogging = new ClickImportLogging(clickControl);
-		PamTableDefinition tableDef = clickLogging.getTableDefinition();
+		PamTableDefinition tableDef = (PamTableDefinition) clickLogging.getTableDefinition();
 		boolean ok = checkTable(pamConnection, tableDef);
 		if (!ok) {
 			System.out.println("Error in Pamguard clicks table");
@@ -156,7 +156,7 @@ public class RainbowDatabseConverter {
 		}
 		
 		eventLogging = new OfflineEventLogging(clickControl, clickControl.getClickDetector().getOfflineEventDataBlock());
-		tableDef = eventLogging.getTableDefinition();
+		tableDef = (PamTableDefinition) eventLogging.getTableDefinition();
 		ok = checkTable(pamConnection, tableDef);
 		if (!ok) {
 			System.out.println("Error in Pamguard events table");

src/difar/trackedGroups/TrackedGroupSqlLogging.java

@@ -125,7 +125,7 @@ public class TrackedGroupSqlLogging extends SQLLogging {
 	 */
 	protected void updateData(SQLTypes sqlTypes, PamDataUnit pamDataUnit) {
 
-		PamTableDefinition tableDef = getTableDefinition();
+		PamTableDefinition tableDef = (PamTableDefinition) getTableDefinition();
 		PamTableItem tableItem;
 
 		tableDef.getIndexItem().setValue(pamDataUnit.getDatabaseIndex());

src/fftManager/FFTDataBlock.java

@@ -4,6 +4,9 @@ import java.util.List;
 import java.util.ListIterator;
 import java.util.Vector;
 
+import org.w3c.dom.Document;
+import org.w3c.dom.Element;
+
 import PamView.GeneralProjector.ParameterType;
 import PamView.GeneralProjector.ParameterUnits;
 import PamguardMVC.DataBlock2D;
@@ -186,6 +189,13 @@ public class FFTDataBlock extends DataBlock2D<FFTDataUnit> {
 	public DataTypeInfo getScaleInfo() {
 		return dataTypeInfo;
 	}
+	@Override
+	public Element getDataBlockXML(Document doc) {
+		Element el = super.getDataBlockXML(doc);
+		el.setAttribute("FFTLength", String.format("%d", getFftLength()));
+		el.setAttribute("FFTHop", String.format("%d", getFftHop()));
+		return el;
+	}
 
 
 

src/generalDatabase/DBControl.java

@@ -577,10 +577,16 @@ PamSettingsSource {
 	 */
 	@Override
 	public boolean saveStartSettings(long timeNow) {
-		return dbProcess.saveStartSettings();
+		return dbProcess.saveStartSettings(timeNow);
 	}
 
 
+	@Override
+	public boolean saveEndSettings(long timeNow) {
+		// TODO Auto-generated method stub
+		return true;
+	}
+
 	@Override
 	public int getNumSettings() {
 		if (dbSettingsStore == null) {

src/generalDatabase/DBProcess.java

@@ -102,6 +102,8 @@ public class DBProcess extends PamProcess {
 		dbSpecials.add(logSettings = new LogSettings(databaseControll, "Pamguard Settings", false));
 		dbSpecials.add(logLastSettings = new LogSettings(databaseControll, "Pamguard Settings Last", true));
 		dbSpecials.add(logViewerSettings = new LogSettings(databaseControll, "Pamguard Settings Viewer", true));
+		
+		dbSpecials.add(new LogXMLSettings(databaseControll));
 
 	}
 
@@ -113,9 +115,13 @@ public class DBProcess extends PamProcess {
 		}
 	}
 
-	protected boolean saveStartSettings() {
+	protected boolean saveStartSettings(long timeNow) {
 		PamConnection con = databaseControll.getConnection();
 		if (con != null) {
+			/**
+			 * This first one is the 'old' pre 2022 method which saves a serialised lump of all
+			 * the settings in the database. It ain't broke, so not fixing it. 
+			 */
 			for (int i = 0; i < dbSpecials.size(); i++) {
 				dbSpecials.get(i).pamStart(con);
 			}
@@ -124,6 +130,11 @@ public class DBProcess extends PamProcess {
 		return false;
 	}
 
+	protected boolean saveEndSettings(long timeNow) {
+		
+		return true;
+	}
+
 	@Override
 	public void pamStop() {
 		PamConnection con = databaseControll.getConnection();
@@ -212,7 +223,7 @@ public class DBProcess extends PamProcess {
 		}
 
 		dataBlocks = PamController.getInstance().getDataBlocks();
-		PamTableDefinition tableDefinition;
+		EmptyTableDefinition tableDefinition;
 		SQLLogging logging;
 
 		// for each datablock, check that the process can log (ignoring GPS process)

src/generalDatabase/DBSchemaWriter.java

@@ -48,7 +48,7 @@ public class DBSchemaWriter {
 		}
 
 
-		PamTableDefinition tableDef = logging.getTableDefinition();
+		EmptyTableDefinition tableDef = logging.getTableDefinition();
 		tableDef = logging.getBaseTableDefinition();
 
 		if (tableDef instanceof PamTableDefinition) {
@@ -63,13 +63,14 @@ public class DBSchemaWriter {
 		return true;
 	}
 
-	private void exportDatabaseSchema(File outputFolder, PamDataBlock dataBlock, SQLLogging logging, PamTableDefinition tableDef) {
+	/**
-
+	 * Generate an xml schema for a datablock.  
-		/**
+	 * @param dataBlock
-		 * write a parent item, e.g. if tableDef is a sub class of PamTableDefinition
+	 * @param logging
-		 */
+	 * @param tableDef
-		//		String parentName = writeParentTableSchema(outputFolder, dataBlock, tableDef);
+	 * @return
-
+	 */
+	public Document generateDatabaseSchema(PamDataBlock dataBlock, SQLLogging logging, EmptyTableDefinition tableDef) {
 		String tableName = tableDef.getTableName();
 		Document doc = PamUtils.XMLUtils.createBlankDoc();
 		Element schemaEl = doc.createElement("xs:schema");
@@ -95,7 +96,20 @@ public class DBSchemaWriter {
 				}
 			}
 		}
+		return doc;
+	}
+	
+	private void exportDatabaseSchema(File outputFolder, PamDataBlock dataBlock, SQLLogging logging, EmptyTableDefinition tableDef) {
 
+		/**
+		 * write a parent item, e.g. if tableDef is a sub class of PamTableDefinition
+		 */
+		//		String parentName = writeParentTableSchema(outputFolder, dataBlock, tableDef);
+
+		Document doc = generateDatabaseSchema(dataBlock, logging, tableDef);
+		
+		String tableName = tableDef.getTableName();
+		
 		try {
 			File outputFile = new File(outputFolder, tableName+".xsd");
 			XMLUtils.writeToFile(doc, outputFile);

src/generalDatabase/DbSpecial.java

@@ -9,7 +9,7 @@ import PamguardMVC.PamDataUnit;
  * @author Doug Gillespie
  *
  */
-abstract public class DbSpecial extends SQLLogging{
+abstract public class DbSpecial extends SQLLogging {
 
 	private DBControl dbControl;
 	

src/generalDatabase/EmptyTableDefinition.java

@@ -300,7 +300,7 @@ public class EmptyTableDefinition implements Cloneable {
 	 * @param tableName
 	 * @return reference to the database deinition if it exists, or null 
 	 */
-	static PamTableDefinition findTableDefinition(String tableName) {
+	static EmptyTableDefinition findTableDefinition(String tableName) {
 		String searchName = EmptyTableDefinition.deblankString(tableName);
 		SQLLogging log = SQLLogging.findLogger(searchName);
 		if (log == null) return null;
@@ -389,6 +389,15 @@ public class EmptyTableDefinition implements Cloneable {
 		this.updatePolicy = updatePolicy;
 	}
 
+	public PamConnection getCheckedConnection() {
+		return checkedConnection;
+	}
+
+	public void setCheckedConnection(PamConnection checkedConnection) {
+		this.checkedConnection = checkedConnection;
+	}
+
+
 	@Override
 	protected EmptyTableDefinition clone() {
 		try {

src/generalDatabase/LogSettings.java

@@ -23,7 +23,7 @@ import PamUtils.PamCalendar;
 import PamguardMVC.PamDataUnit;
 
 /**
- * Functions for writing Pamguard Settings into any database as character data
+ * Functions for writing serialised Pamguard Settings into any database as character data
  * Runs at DAQ start, goes through the settings manager list and for each
  * set of settings, it serialises the settings data into a binary array, this
  * is then converted from binary data to 6 bit ascii data (using the character set
@@ -185,6 +185,7 @@ public class LogSettings extends DbSpecial {
 		DeserialisationWarning dsWarning = new DeserialisationWarning(getDbControl().getDatabaseName());
 
 		SQLTypes sqlTypes = con.getSqlTypes();
+		
 		boolean haveData;
 		if (result != null) try {
 			haveData = result.next();
@@ -193,7 +194,7 @@ public class LogSettings extends DbSpecial {
 				// transfer data back into the tableItems store.
 				transferDataFromResult(sqlTypes, result);
 
-				tableItem = getTableDefinition().getTimeStampItem();
+				tableItem = tableDef.getTimeStampItem();
 //				timestamp = (Timestamp) tableItem.getTimestampValue();
 				timeMillis = sqlTypes.millisFromTimeStamp(tableItem.getValue());
 

src/generalDatabase/LogXMLDataUnit.java

@@ -0,0 +1,75 @@
+package generalDatabase;
+
+import PamController.PamSettings;
+import PamguardMVC.PamDataUnit;
+
+/**
+ * simple data unit for use with the LogXMLSettings class
+ * @author dg50
+ *
+ */
+public class LogXMLDataUnit extends PamDataUnit {
+
+	private long processTime;
+	private PamSettings pamSettings;
+	private String xml;
+	private Long dataEnd, processEnd;
+
+	public LogXMLDataUnit(long timeMilliseconds, long processTime, PamSettings pamSettings, String xml) {
+		super(timeMilliseconds);
+		this.processTime = processTime;
+		this.pamSettings = pamSettings;
+		this.xml = xml;
+	}
+
+	/**
+	 * @return the dataEnd
+	 */
+	public Long getDataEnd() {
+		return dataEnd;
+	}
+
+	/**
+	 * @param dataEnd the dataEnd to set
+	 */
+	public void setDataEnd(Long dataEnd) {
+		this.dataEnd = dataEnd;
+	}
+
+	/**
+	 * @return the processEnd
+	 */
+	public Long getProcessEnd() {
+		return processEnd;
+	}
+
+	/**
+	 * @param processEnd the processEnd to set
+	 */
+	public void setProcessEnd(Long processEnd) {
+		this.processEnd = processEnd;
+	}
+
+	/**
+	 * @return the processTime
+	 */
+	public long getProcessTime() {
+		return processTime;
+	}
+
+	/**
+	 * @return the pamSettings
+	 */
+	public PamSettings getPamSettings() {
+		return pamSettings;
+	}
+
+	/**
+	 * @return the xml
+	 */
+	public String getXml() {
+		return xml;
+	}
+
+
+}

src/generalDatabase/LogXMLSettings.java

@@ -0,0 +1,123 @@
+package generalDatabase;
+
+import java.io.Serializable;
+import java.util.HashMap;
+
+import org.w3c.dom.Document;
+
+import PamController.PamControlledUnit;
+import PamController.PamController;
+import PamController.PamSettings;
+import PamController.PamguardVersionInfo;
+import PamController.settings.output.xml.PamguardXMLWriter;
+import PamUtils.PamCalendar;
+import PamguardMVC.PamDataUnit;
+/**
+ * 2022 Additional say of saving settings for each module into the database in more human readable 
+ * XML format. <p>
+ * In other ways, similar to LogSettings which saves serialised Java. This will write a line
+ * per module. A main difference is that on pamStop it will update the end time for each line, so 
+ * that we have a record of analysis effort for each module. Will therefore need to store the last
+ * index of the entry for each module, so that we can update the appropriate row. 
+ * @author dg50
+ *
+ */
+public class LogXMLSettings extends DbSpecial {
+	
+	private XMLSettingsTableDefinition xmlTableDef;
+	
+	private HashMap<String, LogXMLDataUnit> moduleRows;
+	
+	private PamguardXMLWriter xmlWriter;
+
+	public LogXMLSettings(DBControl dbControl) {
+		super(dbControl);
+		xmlTableDef = new XMLSettingsTableDefinition("Module Effort");
+		setTableDefinition(xmlTableDef);
+		moduleRows = new HashMap<>();
+		xmlWriter = PamguardXMLWriter.getXMLWriter();
+	}
+
+	@Override
+	public void pamStart(PamConnection con) {
+		long time = PamCalendar.getTimeInMillis();
+		saveModuleSettings(con, time);
+	}
+
+	@Override
+	public void pamStop(PamConnection con) {
+		long time = PamCalendar.getTimeInMillis();
+		updateModuleSettings(con, time);
+	}
+
+	private void saveModuleSettings(PamConnection con, long dataTime) {
+		int n = PamController.getInstance().getNumControlledUnits();
+		long now = System.currentTimeMillis();
+		for (int i = 0; i < n; i++) {
+			saveModuleSettings(con, dataTime, now, PamController.getInstance().getControlledUnit(i));
+		}
+		
+	}
+
+	private void saveModuleSettings(PamConnection con, long dataTime, long now, PamControlledUnit controlledUnit) {
+		if (controlledUnit instanceof PamSettings == false) {
+			return;
+		}
+		PamSettings pamSettings = (PamSettings) controlledUnit;
+		Serializable settings = pamSettings.getSettingsReference();
+		Document doc = xmlWriter.writeOneModule(pamSettings, dataTime);
+		String xmlString = xmlWriter.getAsString(doc, true);
+		LogXMLDataUnit logXMLDataUnit = new LogXMLDataUnit(dataTime, now, pamSettings, xmlString);
+				
+		logData(logXMLDataUnit);
+		int dbIndex = logXMLDataUnit.getDatabaseIndex();
+		moduleRows.put(getModuleHash(pamSettings), logXMLDataUnit);
+	}
+
+	private void updateModuleSettings(PamConnection con, long dataTime) {
+		int n = PamController.getInstance().getNumControlledUnits();
+		long now = System.currentTimeMillis();
+		for (int i = 0; i < n; i++) {
+			updateModuleSettings(con, dataTime, now, PamController.getInstance().getControlledUnit(i));
+		}
+		
+	}
+	
+	private void updateModuleSettings(PamConnection con, long dataTime, long now, PamControlledUnit controlledUnit) {
+		if (controlledUnit instanceof PamSettings == false) {
+			return;
+		}
+		PamSettings pamSettings = (PamSettings) controlledUnit;
+		LogXMLDataUnit logXMLDataUnit = moduleRows.get(getModuleHash(pamSettings));
+		if (logXMLDataUnit == null) {
+			return;
+		}
+		logXMLDataUnit.setDataEnd(dataTime);
+		logXMLDataUnit.setProcessEnd(now);
+		reLogData(con, logXMLDataUnit);
+	}
+
+	private String getModuleHash(PamSettings pamSettings) {
+		if (pamSettings == null) {
+			return null;
+		}
+		return pamSettings.getUnitName()+pamSettings.getUnitType();
+	}
+
+	@Override
+	public void setTableData(SQLTypes sqlTypes, PamDataUnit pamDataUnit) {
+		LogXMLDataUnit logXMLDataUnit = (LogXMLDataUnit) pamDataUnit;
+		PamSettings pamSettings = logXMLDataUnit.getPamSettings();
+		
+		xmlTableDef.getDataStart().setValue(sqlTypes.getTimeStamp(pamDataUnit.getTimeMilliseconds()));
+		xmlTableDef.getDataEnd().setValue(sqlTypes.getTimeStamp(logXMLDataUnit.getDataEnd()));
+		xmlTableDef.getProcessStart().setValue(sqlTypes.getTimeStamp(logXMLDataUnit.getProcessTime()));
+		xmlTableDef.getProcessEnd().setValue(sqlTypes.getTimeStamp(logXMLDataUnit.getProcessEnd()));
+		xmlTableDef.getName().setValue(pamSettings.getUnitName());
+		xmlTableDef.getType().setValue(pamSettings.getUnitType());
+		xmlTableDef.getPamGuardVersion().setValue(PamguardVersionInfo.version);
+		xmlTableDef.getSettingsVersion().setValue(pamSettings.getSettingsVersion());
+		xmlTableDef.getXmlSettings().setValue(logXMLDataUnit.getXml());
+	}
+
+}

src/generalDatabase/PamTableDefinition.java

@@ -192,14 +192,7 @@ public class PamTableDefinition extends EmptyTableDefinition implements Cloneabl
 	public PamTableItem getUidItem() {
 		return uid;
 	}
-	public PamConnection getCheckedConnection() {
+	
-		return checkedConnection;
-	}
-
-	public void setCheckedConnection(PamConnection checkedConnection) {
-		this.checkedConnection = checkedConnection;
-	}
-
 	public PamTableItem getUpdateReference() {
 		return updateReference;
 	}

src/generalDatabase/PamTableItem.java

@@ -377,7 +377,7 @@ public class PamTableItem implements Cloneable {
 	 * column for use in cross referencing. 
 	 */
 	public static PamTableItem findTableItem(String tableName, String columnName) {
-		PamTableDefinition tableDef = EmptyTableDefinition.
+		EmptyTableDefinition tableDef = EmptyTableDefinition.
 			findTableDefinition(EmptyTableDefinition.deblankString(tableName));
 		if (tableDef == null) return null;
 		return tableDef.findTableItem(EmptyTableDefinition.deblankString(columnName));

src/generalDatabase/SQLLogging.java

@@ -92,7 +92,7 @@ public abstract class SQLLogging {
 	 * Reference to the table definition object.
 	 * This MUST be set from within the concrete logging class.  
 	 */
-	private PamTableDefinition pamTableDefinition;
+	private EmptyTableDefinition pamTableDefinition;
 	
 	/**
 	 * More and more data blocks are starting to use annotations, which require
@@ -102,7 +102,7 @@ public abstract class SQLLogging {
 	 * table definition is set, so that it can be got and modified by the 
 	 * annotation handler shortly after the main table is created.  
 	 */
-	private PamTableDefinition baseTableDefinition;
+	private EmptyTableDefinition baseTableDefinition;
 
 	//	private long selectT1, selectT2;
 	private PamViewParameters currentViewParameters;
@@ -190,7 +190,7 @@ public abstract class SQLLogging {
 		ArrayList<PamDataBlock> blockList = PamController.getInstance()
 				.getDataBlocks();
 		SQLLogging logger;
-		PamTableDefinition tableDef;
+		EmptyTableDefinition tableDef;
 		for (int i = 0; i < blockList.size(); i++) {
 			if ((logger = blockList.get(i).getLogging()) != null) {
 				tableDef = logger.getTableDefinition();
@@ -234,7 +234,7 @@ public abstract class SQLLogging {
 	 * @return a Pamguard database table definition object
 	 * @see PamTableDefinition
 	 */
-	public final PamTableDefinition getTableDefinition() {
+	public final EmptyTableDefinition getTableDefinition() {
 		return pamTableDefinition;
 	}
 
@@ -243,7 +243,7 @@ public abstract class SQLLogging {
 	 * 
 	 * @param pamTableDefinition PamTableDefinition to set
 	 */
-	public void setTableDefinition(PamTableDefinition pamTableDefinition) {
+	public void setTableDefinition(EmptyTableDefinition pamTableDefinition) {
 		this.pamTableDefinition = pamTableDefinition;
 		if (baseTableDefinition == null && pamTableDefinition != null) {
 			baseTableDefinition = pamTableDefinition.clone();
@@ -293,37 +293,42 @@ public abstract class SQLLogging {
 	 * @param superDetection 
 	 */
 	protected void fillTableData(SQLTypes sqlTypes, PamDataUnit pamDataUnit, PamDataUnit superDetection) {
+		
+		EmptyTableDefinition emptyTableDef = getTableDefinition();
 
-		PamTableDefinition tableDef = getTableDefinition();
 		PamTableItem tableItem;
 
-		tableDef.getIndexItem().setValue(pamDataUnit.getDatabaseIndex());
+		emptyTableDef.getIndexItem().setValue(pamDataUnit.getDatabaseIndex());
-		/*
+		
-		 * All tables have a timestamp near the front of the table. And all data
+		if (emptyTableDef instanceof PamTableDefinition) {
-		 * units have a time in milliseconds, so always fill this in !
+			PamTableDefinition tableDef = (PamTableDefinition) emptyTableDef;
-		 */
+			/*
-		tableDef.getTimeStampItem().setValue(
+			 * All tables have a timestamp near the front of the table. And all data
-				sqlTypes.getTimeStamp(pamDataUnit.getTimeMilliseconds()));
+			 * units have a time in milliseconds, so always fill this in !
+			 */
+			tableDef.getTimeStampItem().setValue(
+					sqlTypes.getTimeStamp(pamDataUnit.getTimeMilliseconds()));
 
-		tableDef.getTimeStampMillis().setValue((int) (pamDataUnit.getTimeMilliseconds()%1000));
+			tableDef.getTimeStampMillis().setValue((int) (pamDataUnit.getTimeMilliseconds()%1000));
 
-		tableDef.getLocalTimeItem().setValue(sqlTypes.getLocalTimeStamp(pamDataUnit.getTimeMilliseconds()));
+			tableDef.getLocalTimeItem().setValue(sqlTypes.getLocalTimeStamp(pamDataUnit.getTimeMilliseconds()));
 
-		tableDef.getPCTimeItem().setValue(sqlTypes.getTimeStamp(System.currentTimeMillis()));
+			tableDef.getPCTimeItem().setValue(sqlTypes.getTimeStamp(System.currentTimeMillis()));
 
-		tableDef.getUidItem().setValue(pamDataUnit.getUID());
+			tableDef.getUidItem().setValue(pamDataUnit.getUID());
 
-		tableDef.getChannelBitmap().setValue(pamDataUnit.getChannelBitmap());
+			tableDef.getChannelBitmap().setValue(pamDataUnit.getChannelBitmap());
 
-		tableDef.getSequenceBitmap().setValue(pamDataUnit.getSequenceBitmapObject());
+			tableDef.getSequenceBitmap().setValue(pamDataUnit.getSequenceBitmapObject());
 
-		if (tableDef.getUpdateReference() != null) {
+			if (tableDef.getUpdateReference() != null) {
-			tableDef.getUpdateReference().setValue(pamDataUnit.getDatabaseIndex());
+				tableDef.getUpdateReference().setValue(pamDataUnit.getDatabaseIndex());
+			}
 		}
 
-		for (int i = 0; i < tableDef.getTableItemCount(); i++) {
+		for (int i = 0; i < emptyTableDef.getTableItemCount(); i++) {
 
-			tableItem = tableDef.getTableItem(i);
+			tableItem = emptyTableDef.getTableItem(i);
 			// if (tableItem.isCounter()) {
 			// tableItem.setValue(1);
 			// }
@@ -333,8 +338,8 @@ public abstract class SQLLogging {
 			}
 		}
 
-		if (tableDef instanceof PamSubtableDefinition) {
+		if (emptyTableDef instanceof PamSubtableDefinition) {
-			PamSubtableDefinition subTableDef = (PamSubtableDefinition) tableDef;
+			PamSubtableDefinition subTableDef = (PamSubtableDefinition) emptyTableDef;
 			fillSubTableData(subTableDef, pamDataUnit, superDetection);
 		}
 
@@ -525,7 +530,7 @@ public abstract class SQLLogging {
 		}
 		// now put some sql into the statement
 		//		if (resultSet == null) {
-		PamTableDefinition tableDef = getTableDefinition();
+		EmptyTableDefinition tableDef = getTableDefinition();
 		String sqlString = tableDef.getSQLSelectString(con.getSqlTypes());
 		// sqlString = "select \"comment\" from userinput";
 		try {
@@ -1079,7 +1084,7 @@ public abstract class SQLLogging {
 
 	public boolean transferDataFromResult(SQLTypes sqlTypes, ResultSet resultSet) {
 
-		PamTableDefinition tableDef = getTableDefinition();
+		EmptyTableDefinition tableDef = getTableDefinition();
 		PamTableItem tableItem;
 		try {
 			for (int i = 0; i < tableDef.getTableItemCount(); i++) {
@@ -1090,17 +1095,20 @@ public abstract class SQLLogging {
 			//			Timestamp ts = (Timestamp) getTableDefinition().getTimeStampItem().getValue();
 			//			Timestamp ts = getTableDefinition().getTimeStampItem().getTimestampValue();
 			//			lastTime = sqlTypes.millisFromTimeStamp(ts);
-			lastTime = sqlTypes.millisFromTimeStamp(getTableDefinition().getTimeStampItem().getValue());
-			if (lastTime%1000 == 0) {
-				// some databases may have stored the milliseconds, in which 
-				// case this next bit is redundant. 
-				lastTime += getTableDefinition().getTimeStampMillis().getIntegerValue();
-			}
-			
 			lastLoadIndex = getTableDefinition().getIndexItem().getIntegerValue();
-			lastLoadUID = getTableDefinition().getUidItem().getLongObject();
+			if (tableDef instanceof PamTableDefinition) {
-			lastChannelBitmap = getTableDefinition().getChannelBitmap().getIntegerValue();
+				PamTableDefinition pamTableDef = (PamTableDefinition) tableDef;
-			lastSequenceBitmap = getTableDefinition().getSequenceBitmap().getIntegerObject();
+				lastTime = sqlTypes.millisFromTimeStamp(pamTableDef.getTimeStampItem().getValue());
+				if (lastTime%1000 == 0) {
+					// some databases may have stored the milliseconds, in which 
+					// case this next bit is redundant. 
+					lastTime += pamTableDef.getTimeStampMillis().getIntegerValue();
+				}
+
+				lastLoadUID = pamTableDef.getUidItem().getLongObject();
+				lastChannelBitmap = pamTableDef.getChannelBitmap().getIntegerValue();
+				lastSequenceBitmap = pamTableDef.getSequenceBitmap().getIntegerObject();
+			}
 			return true;
 
 		} catch (SQLException ex) {
@@ -1757,7 +1765,7 @@ public abstract class SQLLogging {
 	 * annotation handler shortly after the main table is created.  
 	 * @return the baseTableDefinition
 	 */
-	public PamTableDefinition getBaseTableDefinition() {
+	public EmptyTableDefinition getBaseTableDefinition() {
 		return baseTableDefinition;
 	}
 

src/generalDatabase/SQLLoggingAddon.java

@@ -15,7 +15,7 @@ public interface SQLLoggingAddon {
 	 * Add a load of columns to an existing table definition
 	 * @param pamTableDefinition
 	 */
-	public void addTableItems(PamTableDefinition pamTableDefinition);
+	public void addTableItems(EmptyTableDefinition pamTableDefinition);
 	
 	/**
 	 * Save data - that is transfer data from the pamDataUnit to the data objects
@@ -24,7 +24,7 @@ public interface SQLLoggingAddon {
 	 * @param pamDataUnit data unit
 	 * @return true if successful
 	 */
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit);
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit);
 	
 	/**
 	 * Load data - that is read data from the table definition and turn it into something sensible
@@ -33,7 +33,7 @@ public interface SQLLoggingAddon {
 	 * @param pamDataUnit data unit
 	 * @return true if successful
 	 */
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit);
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit);
 	
 	/**
 	 * Get a name for the SQLLogging Addon. this is used

src/generalDatabase/XMLSettingsTableDefinition.java

@@ -0,0 +1,94 @@
+package generalDatabase;
+
+import java.sql.Types;
+
+import PamguardMVC.PamConstants;
+
+public class XMLSettingsTableDefinition extends EmptyTableDefinition {
+	
+	private PamTableItem dataStart, dataEnd, processStart, processEnd, type, name, pamGuardVersion, settingsVersion, xmlSettings;
+	
+	public XMLSettingsTableDefinition(String tableName) {
+		super(tableName, SQLLogging.UPDATE_POLICY_WRITENEW);
+		pamTableItems.add(dataStart = new PamTableItem("Data Start", Types.TIMESTAMP, "Data start time"));
+		pamTableItems.add(dataEnd = new PamTableItem("Data End", Types.TIMESTAMP, "Data end time"));
+		pamTableItems.add(processStart = new PamTableItem("Process Start", Types.TIMESTAMP, "Process start time"));
+		pamTableItems.add(processEnd = new PamTableItem("Process End", Types.TIMESTAMP, "Process end time"));
+		addTableItem(type = new PamTableItem("unitType", Types.CHAR, PamConstants.MAX_ITEM_NAME_LENGTH));
+		addTableItem(name = new PamTableItem("unitName", Types.CHAR, PamConstants.MAX_ITEM_NAME_LENGTH));
+		addTableItem(pamGuardVersion = new PamTableItem("PAMGuardVersion", Types.INTEGER));
+		addTableItem(settingsVersion = new PamTableItem("SettingsVersion", Types.INTEGER));
+		addTableItem(xmlSettings = new PamTableItem("XMLSettings", Types.VARCHAR));		
+		setUseCheatIndexing(false);
+	}
+
+
+	/**
+	 * @return the dataStart
+	 */
+	public PamTableItem getDataStart() {
+		return dataStart;
+	}
+
+
+	/**
+	 * @return the dataEnd
+	 */
+	public PamTableItem getDataEnd() {
+		return dataEnd;
+	}
+
+
+	/**
+	 * @return the processStart
+	 */
+	public PamTableItem getProcessStart() {
+		return processStart;
+	}
+
+
+	/**
+	 * @return the processEnd
+	 */
+	public PamTableItem getProcessEnd() {
+		return processEnd;
+	}
+
+
+	/**
+	 * @return the type
+	 */
+	public PamTableItem getType() {
+		return type;
+	}
+
+	/**
+	 * @return the name
+	 */
+	public PamTableItem getName() {
+		return name;
+	}
+
+	/**
+	 * @return the pamGuardVersion
+	 */
+	public PamTableItem getPamGuardVersion() {
+		return pamGuardVersion;
+	}
+
+	/**
+	 * @return the settingsVersion
+	 */
+	public PamTableItem getSettingsVersion() {
+		return settingsVersion;
+	}
+
+	/**
+	 * @return the xmlSettings
+	 */
+	public PamTableItem getXmlSettings() {
+		return xmlSettings;
+	}
+
+
+}

src/generalDatabase/parameterstore/ParameterDatabaseStore.java

@@ -0,0 +1,187 @@
+package generalDatabase.parameterstore;
+
+import java.sql.PreparedStatement;
+import java.sql.ResultSet;
+import java.sql.SQLException;
+import java.sql.Statement;
+import java.sql.Types;
+import java.util.Arrays;
+import java.util.Collection;
+
+import PamModel.parametermanager.ManagedParameters;
+import PamModel.parametermanager.PamParameterData;
+import PamModel.parametermanager.PamParameterSet;
+import generalDatabase.DBControlUnit;
+import generalDatabase.EmptyTableDefinition;
+import generalDatabase.PamConnection;
+import generalDatabase.PamTableItem;
+import generalDatabase.SQLTypes;
+
+/**
+ * Store parameters from a managed parameter set in the PAMGuard database. These go into a dead simple table, which has
+ * two columns. The first is a name, the second a string value. Each parameter can only appear once. 
+ * This works with ManagedParameters using the same names and field names that go into the xml output. 
+ * @author dg50
+ *
+ */
+public class ParameterDatabaseStore {
+
+	
+	private EmptyTableDefinition tableDef;
+	private PamTableItem nameItem, dataItem;
+	
+	public ParameterDatabaseStore(String tableName) {
+		tableDef = new EmptyTableDefinition(tableName);
+		tableDef.addTableItem(nameItem = new PamTableItem("ParameterName", Types.VARCHAR));
+		tableDef.addTableItem(dataItem = new PamTableItem("Value", Types.VARCHAR));
+	}
+	
+	public boolean saveParameterSet(ManagedParameters managedParameters) {
+		if (managedParameters == null) {
+			return false;
+		}
+		return saveParameterSet(managedParameters.getClass().getSimpleName(), managedParameters);
+	}
+
+	private boolean saveParameterSet(String name, ManagedParameters managedParameters) {
+		DBControlUnit dbControl = DBControlUnit.findDatabaseControl();
+		if (dbControl == null) {
+			return false;
+		}
+		PamConnection con = dbControl.getConnection();
+		if (checkTable(con) == false) {
+			return false;
+		}
+		
+		String prefix;
+		if (name == null) {
+			prefix = "";
+		}
+		else {
+			prefix = name + ".";
+		}
+		PamParameterSet paramSet = managedParameters.getParameterSet();
+		Collection<PamParameterData> params = paramSet.getParameterCollection();
+		for (PamParameterData paramData : params) {
+			String paramName = paramData.getFieldName();
+			paramName = prefix + paramName;
+			Object data = null;
+			try {
+				data = paramData.getData();// .getField().get(managedParameters);
+			} catch (IllegalArgumentException | IllegalAccessException e) {
+				e.printStackTrace();
+			}
+//			System.out.printf("Store param \"%s\" as \"%s\"\n", paramName, data);
+			saveToDatabase(con, paramName, data);
+		}
+		dbControl.commitChanges();
+		
+		return true;
+	}
+	
+	private boolean saveToDatabase(PamConnection con, String name, Object data) {
+		int[] existing = findExistingRows(con, name);
+		boolean ok = true;
+		if (existing == null || existing.length == 0) {
+			ok |= newRecord(con, name, data);
+		}
+		else {
+			ok |= updateRecord(con, existing[0], name, data);
+			if (existing.length > 1) {
+				for (int i = 1; i < existing.length; i++) {
+					ok |= deleteDuplicateRow(con, existing[i]);
+				}
+			}
+		}
+		return true;
+	}
+	
+	private int[] findExistingRows(PamConnection con, String name) {
+		/**
+		 * Find existing rows with that name. 
+		 */
+		int[] rows = new int[0];
+		if (con == null) {
+			return rows;
+		}
+		String qStr = String.format("SELECT Id FROM %s WHERE %s='%s'", tableDef.getTableName(), nameItem.getName(), name);
+		try {
+			Statement stmt = con.getConnection().createStatement();
+			ResultSet res = stmt.executeQuery(qStr);
+			while (res.next()) {
+				int rowId = res.getInt(1);
+				rows = Arrays.copyOf(rows, rows.length+1);
+				rows[rows.length-1] = rowId;
+			}
+			res.close();
+			stmt.close();
+		} catch (SQLException e) {
+			e.printStackTrace();
+		}
+		return rows;
+	}
+
+	private boolean newRecord(PamConnection con, String name, Object data) {
+		
+		String insertStr = tableDef.getSQLInsertString(con.getSqlTypes());
+		try {
+			PreparedStatement stmt = con.getConnection().prepareStatement(insertStr);
+			stmt.setString(1, name);
+			if (data == null) {
+				stmt.setNull(2, Types.VARCHAR);
+			}
+			else {
+				stmt.setString(2, data.toString());
+			}
+			stmt.executeUpdate();
+
+		} catch (SQLException e) {
+			e.printStackTrace();
+			return false;
+		}
+		
+		return true;
+	}
+
+	private boolean updateRecord(PamConnection con, int iRow, String name, Object data) {
+		SQLTypes st = con.getSqlTypes();
+		String updateString = String.format("UPDATE %s SET %s = '%s' WHERE Id = %d", tableDef.getTableName(), 
+			st.formatColumnName(dataItem.getName()), data, iRow);
+
+		try {
+			PreparedStatement stmt = con.getConnection().prepareStatement(updateString);
+			stmt.executeUpdate();
+
+		} catch (SQLException e) {
+			e.printStackTrace();
+			return false;
+		}
+		
+		return true;
+	}
+
+	private boolean deleteDuplicateRow(PamConnection con, int rowId) {
+		
+		String delStr = String.format("DELETE FROM %s WHERE Id=%d", tableDef.getTableName(), rowId);
+
+		try {
+			PreparedStatement stmt = con.getConnection().prepareStatement(delStr);
+			stmt.executeUpdate();
+
+		} catch (SQLException e) {
+			e.printStackTrace();
+			return false;
+		}
+		return true;
+	}
+
+	private boolean checkTable(PamConnection con) {
+		DBControlUnit dbControl = DBControlUnit.findDatabaseControl();
+		if (dbControl == null) {
+			return false;
+		}
+		dbControl.commitChanges();
+		return dbControl.getDbProcess().checkTable(tableDef);
+	}
+
+}

src/gpl/io/GPLLogging.java

@@ -5,6 +5,7 @@ import java.sql.Types;
 import PamDetection.AcousticSQLLogging;
 import PamguardMVC.PamDataBlock;
 import PamguardMVC.PamDataUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLTypes;
@@ -22,7 +23,7 @@ public class GPLLogging extends AcousticSQLLogging {
 		super(gplDetectionBlock, gplControlledUnit.getUnitName() + " Detections");
 		this.gplControlledUnit = gplControlledUnit;
 		
-		PamTableDefinition pamTable = getTableDefinition();
+		EmptyTableDefinition pamTable = getTableDefinition();
 		pamTable.addTableItem(peakValue = new PamTableItem("PeakValue", Types.REAL));
 		pamTable.addTableItem(contourArea = new PamTableItem("ContourArea", Types.REAL));
 	}

src/loc3d_Thode/TowedArray3DSQLLogging.java

@@ -1,5 +1,6 @@
 package loc3d_Thode;
 
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamDetectionLogging;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
@@ -17,7 +18,6 @@ public class TowedArray3DSQLLogging extends PamDetectionLogging {
 
 	TowedArray3DController towedArray3DController;
 	
-	PamTableDefinition tableDefinition;
 	
 	PamTableItem dateItem, range_boat_Item, range_f_Item, range_r_Item, depthItem, azi_boat_Item,azi_f_Item, azi_r_Item, tdd_Item, 
 		bearing_f_Item,bearing_r_Item, tds_f_Item, tds_r_Item, za_f_Item, za_r_Item;
@@ -34,14 +34,14 @@ public class TowedArray3DSQLLogging extends PamDetectionLogging {
 		this.towedArray3DController = towedArray3DController;
 		
 		// create the table definition. 
-		tableDefinition = createTableDefinition();
+		EmptyTableDefinition tableDefinition = createTableDefinition();
 	}
 	
-	public PamTableDefinition createTableDefinition() {
+	public EmptyTableDefinition createTableDefinition() {
 		
 		
 //		PamTableDefinition tableDef = new PamTableDefinition(towedArray3DController.getUnitName(), getUpdatePolicy());
-		PamTableDefinition tableDef = super.getTableDefinition();
+		EmptyTableDefinition tableDef = super.getTableDefinition();
 		tableDef.setUpdatePolicy(SQLLogging.UPDATE_POLICY_WRITENEW);
 		
 //		PamTableItem tableItem;

src/matchedTemplateClassifer/annotation/MatchedClickAnnotationSQL.java

@@ -7,6 +7,7 @@ import java.util.List;
 import PamUtils.PamArrayUtils;
 import PamguardMVC.PamDataUnit;
 import PamguardMVC.debug.Debug;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLLoggingAddon;
@@ -49,7 +50,7 @@ public class MatchedClickAnnotationSQL implements SQLLoggingAddon {
 	}
 
 	@Override
-	public void addTableItems(PamTableDefinition pamTableDefinition) {
+	public void addTableItems(EmptyTableDefinition pamTableDefinition) {
 		pamTableDefinition.addTableItem(typeTable);
 		pamTableDefinition.addTableItem(mtThresholdsTable);
 		pamTableDefinition.addTableItem(mtMatchCorrsTable);
@@ -58,7 +59,7 @@ public class MatchedClickAnnotationSQL implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 				
 		MatchedClickAnnotation clickAnnotation = 
 				(MatchedClickAnnotation) pamDataUnit.findDataAnnotation(MatchedClickAnnotation.class);
@@ -95,7 +96,7 @@ public class MatchedClickAnnotationSQL implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 
 		String threshold		= mtThresholdsTable.getDeblankedStringValue();
 		String mtMatchCorrs		= mtMatchCorrsTable.getDeblankedStringValue();

src/metadata/MetaDataContol.java

@@ -0,0 +1,44 @@
+package metadata;
+
+import javax.swing.JFrame;
+import javax.swing.JMenuItem;
+
+import PamController.PamControlledUnit;
+import PamModel.parametermanager.ParameterSetManager;
+import generalDatabase.parameterstore.ParameterDatabaseStore;
+import metadata.deployment.DeploymentData;
+
+public class MetaDataContol extends PamControlledUnit {
+
+	public static final String unitType = "Meta Data";
+	
+	private DeploymentData deploymentData = new DeploymentData();
+	
+	private ParameterSetManager<DeploymentData> deploymentSetManager;
+	
+	
+	public MetaDataContol(String unitName) {
+		super(unitType, unitName);
+		deploymentSetManager = new ParameterSetManager<DeploymentData>(deploymentData, "Deployment Data");
+	}
+
+	@Override
+	public JMenuItem createFileMenu(JFrame parentFrame) {
+		return deploymentSetManager.getMenuItem(parentFrame);
+	}
+
+	/**
+	 * @return the deploymentData
+	 */
+	public DeploymentData getDeploymentData() {
+		return deploymentData;
+	}
+
+	/**
+	 * @param deploymentData the deploymentData to set
+	 */
+	public void setDeploymentData(DeploymentData deploymentData) {
+		this.deploymentData = deploymentData;
+	}
+
+}

src/metadata/deployment/DeploymentData.java

@@ -0,0 +1,266 @@
+package metadata.deployment;
+
+import java.io.Serializable;
+
+import PamModel.parametermanager.FieldNotFoundException;
+import PamModel.parametermanager.ManagedParameters;
+import PamModel.parametermanager.PamParameterSet;
+
+/**
+ * Class to hold Deployment data in a form consistent with the ANSI PAM
+ * Standard. This has been keep separate from the Tethys Interface to keep it
+ * easy to benefit from these data without using Tethys itself.
+ * 
+ * @author dg50
+ *
+ */
+public class DeploymentData implements Serializable, Cloneable, ManagedParameters {
+
+	public static final long serialVersionUID = 1L;
+
+	/**
+	 * String that uniquely identifies this deployment.
+	 */
+	private String id;
+
+	/**
+	 * Name of project associated with this deployment. Can be related to a
+	 * geographic region, funding source, etc
+	 */
+	private String project;
+
+	/**
+	 * Deployment identifier, a number related to either the Nth deployment
+	 * operation in a series of deployments or the Nth deployment at a specific
+	 * site. This is different from Id which is unique across all deployments
+	 */
+	private int deploymentId;
+
+	/**
+	 * Alternative deployment description.
+	 */
+	private String deploymentAlias;
+
+	/**
+	 * Name for current location.
+	 */
+	private String site;
+
+	/**
+	 * Alternative names for the deployment location
+	 */
+	private String siteAliases;
+
+	/**
+	 * Name of deployment cruise.
+	 */
+	private String cruise;
+
+	/**
+	 * On what platform is the instrument deployed? (e.g. mooring, tag)
+	 */
+	private String platform = "Unknown";
+
+	/**
+	 * Name of geographic region.
+	 */
+	private String region;
+
+	/**
+	 * Instrument type, e.g. HARP, EAR, Popup, DMON, etc.
+	 */
+	private String instrumentType;
+
+	/**
+	 * Instrument identifier, e.g. serial number
+	 */
+	private String instrumentId;
+
+	public DeploymentData() {
+	}
+
+	@Override
+	protected DeploymentData clone() {
+		try {
+			return (DeploymentData) super.clone();
+		} catch (CloneNotSupportedException e) {
+			e.printStackTrace();
+			return null;
+		}
+	}
+
+	@Override
+	public PamParameterSet getParameterSet() {
+		PamParameterSet ps = PamParameterSet.autoGenerate(this);
+		try {
+			ps.findParameterData("id").setInfo("Unique Id", null, "String that uniquely identifies this deployment", 128);
+//			ps.setOrder("id", 0);
+			ps.findParameterData("project").setInfo("Project Name", null, "Name of project associated with this deployment. Can be related to a geographic region, funding source, etc", 200);
+			ps.findParameterData("deploymentId").setInfo("Deployment Identifier", null, "Deployment identifier, a number related to either the Nth deployment operation in a series of deployments or the Nth deployment at a specific site.  This is different from Id which is unique across all deployments");
+			ps.findParameterData("deploymentAlias").setInfo("Alternative deployment description", null, "Alternative deployment description", 20);
+			ps.findParameterData("site").setInfo("Site name", null, "Name for current location", 40);
+			ps.findParameterData("siteAliases").setInfo("Alternative site name", null, "Alternative site description", 40);
+			ps.findParameterData("cruise").setInfo("Deployment cruise", null, "Name of deployment cruise");
+			ps.findParameterData("platform").setInfo("Platform type", null, "On what platform is the instrument deployed? (e.g. mooring, tag)", 20);
+			ps.findParameterData("region").setInfo("Geographic Region", "", "Name of geographic region", 40);
+		} catch (FieldNotFoundException e) {
+			e.printStackTrace();
+		}
+		return ps;
+	}
+
+	/**
+	 * @return the id
+	 */
+	public String getId() {
+		return id;
+	}
+
+	/**
+	 * @param id the id to set
+	 */
+	public void setId(String id) {
+		this.id = id;
+	}
+
+	/**
+	 * @return the project
+	 */
+	public String getProject() {
+		return project;
+	}
+
+	/**
+	 * @param project the project to set
+	 */
+	public void setProject(String project) {
+		this.project = project;
+	}
+
+	/**
+	 * @return the deploymentId
+	 */
+	public int getDeploymentId() {
+		return deploymentId;
+	}
+
+	/**
+	 * @param deploymentId the deploymentId to set
+	 */
+	public void setDeploymentId(int deploymentId) {
+		this.deploymentId = deploymentId;
+	}
+
+	/**
+	 * @return the deplomentAlias
+	 */
+	public String getDeploymentAlias() {
+		return deploymentAlias;
+	}
+
+	/**
+	 * @param deplomentAlias the deplomentAlias to set
+	 */
+	public void setDeploymentAlias(String deplomentAlias) {
+		this.deploymentAlias = deplomentAlias;
+	}
+
+	/**
+	 * @return the site
+	 */
+	public String getSite() {
+		return site;
+	}
+
+	/**
+	 * @param site the site to set
+	 */
+	public void setSite(String site) {
+		this.site = site;
+	}
+
+	/**
+	 * @return the siteAliases
+	 */
+	public String getSiteAliases() {
+		return siteAliases;
+	}
+
+	/**
+	 * @param siteAliases the siteAliases to set
+	 */
+	public void setSiteAliases(String siteAliases) {
+		this.siteAliases = siteAliases;
+	}
+
+	/**
+	 * @return the cruise
+	 */
+	public String getCruise() {
+		return cruise;
+	}
+
+	/**
+	 * @param cruise the cruise to set
+	 */
+	public void setCruise(String cruise) {
+		this.cruise = cruise;
+	}
+
+	/**
+	 * @return the platform
+	 */
+	public String getPlatform() {
+		return platform;
+	}
+
+	/**
+	 * @param platform the platform to set
+	 */
+	public void setPlatform(String platform) {
+		this.platform = platform;
+	}
+
+	/**
+	 * @return the region
+	 */
+	public String getRegion() {
+		return region;
+	}
+
+	/**
+	 * @param region the region to set
+	 */
+	public void setRegion(String region) {
+		this.region = region;
+	}
+
+	/**
+	 * @return the instrumentType
+	 */
+	public String getInstrumentType() {
+		return instrumentType;
+	}
+
+	/**
+	 * @param instrumentType the instrumentType to set
+	 */
+	public void setInstrumentType(String instrumentType) {
+		this.instrumentType = instrumentType;
+	}
+
+	/**
+	 * @return the instrumentId
+	 */
+	public String getInstrumentId() {
+		return instrumentId;
+	}
+
+	/**
+	 * @param instrumentId the instrumentId to set
+	 */
+	public void setInstrumentId(String instrumentId) {
+		this.instrumentId = instrumentId;
+	}
+
+}

src/metadata/deployment/QAData.java

@@ -0,0 +1,40 @@
+package metadata.deployment;
+
+import java.io.Serializable;
+
+import PamModel.parametermanager.ManagedParameters;
+import PamModel.parametermanager.PamParameterSet;
+
+/**
+ * Largely the content of the Tethys QualityAssurance schema
+ * @author dg50
+ *
+ */
+public class QAData  implements Serializable, Cloneable, ManagedParameters {
+
+	public static final long serialVersionUID = 1L;
+	
+	private String objectives;
+	
+	private String qaAbstract;
+	
+	private String method;
+	
+	private String responsibleName;
+	private String responsibleOrganisation;
+	private String responsiblePosition;
+	private String responsiblePhone;
+	private String responsibleAddress;
+	private String responsibleEmail;
+	
+	public QAData() {
+		// TODO Auto-generated constructor stub
+	}
+	
+	@Override
+	public PamParameterSet getParameterSet() {
+		PamParameterSet ps = PamParameterSet.autoGenerate(this);
+		return ps;
+	}
+
+}

src/nidaqdev/networkdaq/NIDaqLogging.java

@@ -3,6 +3,7 @@ package nidaqdev.networkdaq;
 import java.sql.Types;
 
 import PamguardMVC.PamDataUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLLoggingAddon;
@@ -20,12 +21,12 @@ public class NIDaqLogging implements SQLLoggingAddon {
 	}
 
 	@Override
-	public void addTableItems(PamTableDefinition pamTableDefinition) {
+	public void addTableItems(EmptyTableDefinition pamTableDefinition) {
 		pamTableDefinition.addTableItem(crioTemperature);
 	}
 
 	@Override
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		Double lastTemp = niNetworkDaq.getLastTemperature();
 		if (lastTemp == null) {
 			crioTemperature.setValue(null);
@@ -38,7 +39,7 @@ public class NIDaqLogging implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		// TODO Auto-generated method stub
 		return false;
 	}

src/rawDeepLearningClassifier/logging/DLAnnotationSQL.java

@@ -1,6 +1,7 @@
 package rawDeepLearningClassifier.logging;
 
 import PamguardMVC.PamDataUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.SQLLoggingAddon;
 import generalDatabase.SQLTypes;
@@ -12,19 +13,19 @@ public class DLAnnotationSQL implements SQLLoggingAddon   {
 	}
 
 	@Override
-	public void addTableItems(PamTableDefinition pamTableDefinition) {
+	public void addTableItems(EmptyTableDefinition pamTableDefinition) {
 		// TODO Auto-generated method stub
 		
 	}
 
 	@Override
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		// TODO Auto-generated method stub
 		return false;
 	}
 
 	@Override
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition, PamDataUnit pamDataUnit) {
 		// TODO Auto-generated method stub
 		return false;
 	}

src/targetMotionOld/TargetMotionSQLLogging.java

@@ -15,6 +15,7 @@ import PamDetection.AbstractLocalisation;
 import PamDetection.LocContents;
 import PamUtils.LatLong;
 import PamguardMVC.PamDataUnit;
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
 import generalDatabase.SQLLoggingAddon;
@@ -119,7 +120,7 @@ public class TargetMotionSQLLogging implements SQLLoggingAddon {
 	}
 	
 	@Override
-	public void addTableItems(PamTableDefinition pamTableDefinition) {
+	public void addTableItems(EmptyTableDefinition pamTableDefinition) {
 
 	
 		pamTableDefinition.addTableItem(modelName);
@@ -146,7 +147,7 @@ public class TargetMotionSQLLogging implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean saveData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition,
+	public boolean saveData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition,
 			PamDataUnit pamDataUnit) {
 		AbstractLocalisation tmResult = pamDataUnit.getLocalisation();
 		clearEverything();
@@ -218,7 +219,7 @@ public class TargetMotionSQLLogging implements SQLLoggingAddon {
 		return true;
 	}
 
-	private boolean saveGroupLocalisation(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition,
+	private boolean saveGroupLocalisation(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition,
 			PamDataUnit pamDataUnit, GroupLocalisation groupLocalisation) {
 		
 		int nAmbiguities = groupLocalisation.getAmbiguityCount();
@@ -239,7 +240,7 @@ public class TargetMotionSQLLogging implements SQLLoggingAddon {
 		return true;
 	}
 
-	private boolean saveGroupLocalisation(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition,
+	private boolean saveGroupLocalisation(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition,
 			PamDataUnit pamDataUnit, int resultIndex, GroupLocResult tmResult) {
 		
 		
@@ -323,7 +324,7 @@ public class TargetMotionSQLLogging implements SQLLoggingAddon {
 	}
 
 	@Override
-	public boolean loadData(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition,
+	public boolean loadData(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition,
 			PamDataUnit pamDataUnit) {
 		
 		GroupLocalisation tml = new GroupLocalisation(pamDataUnit, null);
@@ -341,7 +342,7 @@ public class TargetMotionSQLLogging implements SQLLoggingAddon {
 		return true;
 	}
 
-		private GroupLocResult loadLocResult(SQLTypes sqlTypes, PamTableDefinition pamTableDefinition,
+		private GroupLocResult loadLocResult(SQLTypes sqlTypes, EmptyTableDefinition pamTableDefinition,
 				PamDataUnit pamDataUnit, GroupLocalisation tml, int resultIndex) {
 			
 		double latVal, longVal;

src/tethys/TethysControl.java

@@ -0,0 +1,93 @@
+package tethys;
+
+import java.awt.event.ActionEvent;
+import java.awt.event.ActionListener;
+import java.util.ArrayList;
+
+import javax.swing.JFrame;
+import javax.swing.JMenu;
+import javax.swing.JMenuItem;
+
+import PamController.PamControlledUnit;
+import PamController.PamController;
+import PamguardMVC.PamDataBlock;
+import nilus.Deployment;
+import nilus.Deployment.Instrument;
+import tethys.output.StreamExportParams;
+import tethys.output.TethysExportParams;
+import tethys.output.TethysExporter;
+import tethys.output.swing.TethysExportDialog;
+
+/**
+ * Quick play with a simple system for outputting data to Tethys. At it's start
+ * this is simply going to offer a dialog and have a few functions which show how 
+ * to access data within PAMGuard. 
+ * @author dg50
+ *
+ */
+public class TethysControl extends PamControlledUnit {
+
+	public static final String unitType = "Tethys Interface";
+	public static String defaultName = "Tethys";
+	
+
+	private TethysExportParams tethysExportParams = new TethysExportParams();
+	
+
+	public TethysControl(String unitName) {
+		super(unitType, unitName);
+	}
+
+	@Override
+	public JMenuItem createFileMenu(JFrame parentFrame) {
+		JMenu tethysMenu = new JMenu("Tethys");
+		JMenuItem tethysExport = new JMenuItem("Export ...");
+		tethysMenu.add(tethysExport);
+		tethysExport.addActionListener(new ActionListener() {
+			
+			@Override
+			public void actionPerformed(ActionEvent e) {
+				tethysExport(parentFrame);
+			}
+		});
+		return tethysMenu;
+	}
+
+	/**
+	 * @return the tethysExportParams
+	 */
+	public TethysExportParams getTethysExportParams() {
+		return tethysExportParams;
+	}
+
+	/**
+	 * We'll probably want to 
+	 * @param parentFrame
+	 */
+	protected void tethysExport(JFrame parentFrame) {
+		TethysExportParams newExportParams = TethysExportDialog.showDialog(parentFrame, this);
+		if (newExportParams != null) {
+			// dialog returns null if cancel was pressed. 
+			tethysExportParams = newExportParams;
+			exportTethysData(tethysExportParams);
+		}
+	}
+
+	/**
+	 * We'll arrive here if the dialog has been opened and we want to export Tethys data. 
+	 * @param tethysExportParams2
+	 */
+	private void exportTethysData(TethysExportParams tethysExportParams) {
+		TethysExporter tethysExporter = new TethysExporter(this, tethysExportParams);
+		tethysExporter.doExport();		
+	}
+	
+	/**
+	 * A name for any deta selectors. 
+	 * @return
+	 */
+	public String getDataSelectName() {
+		return getUnitName();
+	}
+
+}

src/tethys/dbxml/DBXMLConnect.java

@@ -0,0 +1,24 @@
+package tethys.dbxml;
+
+import tethys.TethysControl;
+
+public class DBXMLConnect {
+
+	private TethysControl tethysControl;
+
+	public DBXMLConnect(TethysControl tethysControl) {
+		this.tethysControl = tethysControl;
+	}
+	
+	public boolean openDatabase() {
+		
+		return true;
+	}
+	
+	public void closeDatabase() {
+		
+	}
+	
+	// add whatever calls are necessary to set up schema's etc. 
+
+}

src/tethys/deployment/DeploymentWrapper.java

@@ -0,0 +1,85 @@
+package tethys.deployment;
+
+import java.io.ByteArrayOutputStream;
+import java.io.Serializable;
+import java.lang.annotation.Annotation;
+import java.lang.reflect.AnnotatedType;
+import java.util.List;
+
+import javax.xml.bind.JAXBContext;
+import javax.xml.bind.JAXBElement;
+import javax.xml.bind.Marshaller;
+import javax.xml.namespace.QName;
+import javax.xml.validation.Schema;
+
+import nilus.Deployment.Data.Audio;
+import nilus.Deployment;
+import nilus.Deployment.Data;
+import nilus.Deployment.Instrument;
+
+public class DeploymentWrapper<T extends Serializable> {
+
+	public DeploymentWrapper(T tethysObject) {
+		
+	}
+	
+	public List<String> getFieldNames() {
+		return null;
+	}
+	
+	public List<Serializable> getComplexObjects() {
+		
+		return null;
+	}
+
+	public static void main(String[] args) {
+		// quick play with some JAXB objects to see what they can do. 
+		Deployment deployment = new Deployment();
+
+		Class<? extends Deployment> deploymentClass = deployment.getClass();
+		Annotation[] annots = deploymentClass.getAnnotations();
+		AnnotatedType[] annotInterfaces = deploymentClass.getAnnotatedInterfaces();
+		Annotation[] declAnnots = deploymentClass.getDeclaredAnnotations();
+		
+		Instrument instrument = new Instrument();
+		instrument.setID("22");
+		instrument.setType("SoundTrap");
+		QName qName = new QName("Instrument");
+		JAXBElement<Instrument> jInst = new JAXBElement<Deployment.Instrument>(qName, Instrument.class, instrument);
+		deployment.getContent().add(jInst);
+		
+		Deployment.Data data = new Data();
+		Audio audio = new Audio();
+		audio.setProcessed("??");
+		data.setAudio(audio);
+		JAXBElement jData = new JAXBElement<Deployment.Data>(new QName("Data"), Data.class, data);
+		deployment.getContent().add(jData);
+		
+		String project = "Project Name";
+		JAXBElement<String> jProj = new JAXBElement<String>(new QName("Project"), String.class, project);
+		deployment.getContent().add(jProj);
+
+		String aaa = "Project Something else";
+		JAXBElement<String> jProj2 = new JAXBElement<String>(new QName("Region"), String.class, aaa);
+		deployment.getContent().add(jProj2);
+		
+		
+		try {
+			JAXBContext jContext = JAXBContext.newInstance(Deployment.class);
+			Marshaller mar = (Marshaller) jContext.createMarshaller();
+			mar.setProperty(javax.xml.bind.Marshaller.JAXB_FORMATTED_OUTPUT, true);
+			
+			ByteArrayOutputStream bos = new ByteArrayOutputStream();
+			mar.marshal(deployment, bos);
+			String xml = new String(bos.toByteArray());
+			System.out.println(xml);
+//			Schema schema = mar.getSchema(); // is null. Can't generate it's own it seems. 
+			
+		} catch (Exception e) {
+			// TODO Auto-generated catch block
+			e.printStackTrace();
+		}
+		
+	}
+
+}

src/tethys/deployment/PamDeployment.java

@@ -0,0 +1,64 @@
+package tethys.deployment;
+
+import java.io.Serializable;
+
+import nilus.DeploymentRecoveryDetails;
+
+/**
+ * Wrapper and functions associated with the Tethys Deployment object which can
+ * exchange these with the PAMGuard database and display Everything is just held
+ * within a list, in no particular order, which getContent public
+ * 
+ * This is from the Deployment JavaDoc. TBH it's pretty horrible, since it's possible to have
+ * more than one of each type of object in the list, so not sure what to do about that. Would be nicer
+ * as a HashTable. however we are where we're are for now. Start by focussing on getting the 
+ * content saved for each type 
+ * 
+ * List<Serializable> getContent()
+ * 
+ * Gets the value of the content property. This accessor method returns a
+ * reference to the live list,not a snapshot. Therefore any modification you
+ * make to the returned list will be present inside the JAXB object.This is why
+ * there is not a set method for the content property.
+ * 
+ * For example, to add a new item, do as follows: getContent().add(newItem);
+ * 
+ * 
+ * Objects of the following type(s) are allowed in the list JAXBElement<String>
+ * JAXBElement<String> 
+ * JAXBElement<Integer>
+ * JAXBElement<DeploymentRecoveryDetails> 
+ * JAXBElement<String>
+ * JAXBElement<Deployment.SamplingDetails> 
+ * JAXBElement<Deployment.Sensors>
+ * JAXBElement<Deployment.Instrument> 
+ * JAXBElement<String>
+ * JAXBElement<Deployment.Data> 
+ * JAXBElement<String> String
+ * JAXBElement<AcousticDataQAType> 
+ * JAXBElement<Deployment.SiteAliases>
+ * JAXBElement<String> 
+ * JAXBElement<DeploymentRecoveryDetails>
+ * 
+ * 
+ * @author dg50
+ *
+ */
+public class PamDeployment {
+
+	public PamDeployment() {
+
+	}
+	
+	public DeploymentRecoveryDetails getDeploymentRecoveryDetails() {
+		DeploymentRecoveryDetails drd = new DeploymentRecoveryDetails();
+		
+		return null;
+	}
+	
+	private void ripApart(Serializable object) {
+		Class cls = object.getClass();
+//		cls.get
+	}
+
+}

src/tethys/output/StreamExportParams.java

@@ -0,0 +1,27 @@
+package tethys.output;
+
+import java.io.Serializable;
+
+/**
+ * Parameters controlling export of a single stream. 
+ * Starts just with a boolean 'selected', but may grow. 
+ * These all contain data names rather than references to a Datablock so that 
+ * they can be serialised. 
+ * @author dg50
+ *
+ */
+public class StreamExportParams implements Serializable {
+
+	public static final long serialVersionUID = 1L;
+
+	public StreamExportParams(String longDataName, boolean selected) {
+		super();
+		this.longDataName = longDataName;
+		this.selected = selected;
+	}
+
+	public String longDataName;
+	
+	public boolean selected;
+
+}

src/tethys/output/TethysExportParams.java

@@ -0,0 +1,59 @@
+package tethys.output;
+
+import java.io.Serializable;
+import java.util.HashMap;
+
+import PamguardMVC.PamDataBlock;
+
+/**
+ * Parameters for controlling export of Tethys data. 
+ * @author dg50
+ *
+ */
+public class TethysExportParams implements Serializable, Cloneable{
+
+	public static final long serialVersionUID = 1L;
+	
+	/*
+	 * Need to add lots of other parameters here, such as the connection detils
+	 * for the tethys database. 
+	 */
+	
+	private HashMap<String, StreamExportParams> streamParamsMap = new HashMap();
+
+	@Override
+	public TethysExportParams clone() {
+		try {
+			return (TethysExportParams) super.clone();
+		} catch (CloneNotSupportedException e) {
+			e.printStackTrace();
+			return null;
+		}
+	}
+
+	/**
+	 * Set stream export parameters for a given datablock. 
+	 * @param dataBlock
+	 * @param exportParams
+	 */
+	public void setStreamParams(PamDataBlock dataBlock, StreamExportParams exportParams) {
+		setStreamParams(dataBlock.getLongDataName(), exportParams);
+	}
+	/**
+	 * Set stream export parameters for a given data name. 
+	 * @param dataBlock
+	 * @param exportParams
+	 */
+	public void setStreamParams(String longDataName, StreamExportParams exportParams) {
+		streamParamsMap.put(longDataName, exportParams);
+	}
+	
+	public StreamExportParams getStreamParams(PamDataBlock dataBlock) {
+		return getStreamParams(dataBlock.getLongDataName());
+	}
+
+	private StreamExportParams getStreamParams(String longDataName) {
+		return streamParamsMap.get(longDataName);
+	}
+
+}

src/tethys/output/TethysExporter.java

@@ -0,0 +1,272 @@
+package tethys.output;
+
+import java.util.ArrayList;
+
+import org.w3c.dom.Document;
+
+import Acquisition.AcquisitionControl;
+import Acquisition.AcquisitionProcess;
+import Array.ArrayManager;
+import Array.Hydrophone;
+import Array.PamArray;
+import Array.SnapshotGeometry;
+import PamController.PamControlledUnit;
+import PamController.PamController;
+import PamController.settings.output.xml.PamguardXMLWriter;
+import PamUtils.PamCalendar;
+import PamguardMVC.PamDataBlock;
+import PamguardMVC.PamDataUnit;
+import PamguardMVC.dataSelector.DataSelector;
+import generalDatabase.DBSchemaWriter;
+import generalDatabase.SQLLogging;
+import metadata.MetaDataContol;
+import metadata.deployment.DeploymentData;
+import tethys.TethysControl;
+import tethys.dbxml.DBXMLConnect;
+import tethys.pamdata.TethysDataProvider;
+import tethys.pamdata.TethysSchema;
+
+/**
+ * Class sitting at the centre of all operations. It will talk to PAMGuard objects to get schemas and data
+ * and talk to the database connection to move data out (and possibly in). Eventually, a lot of the functionality
+ * in here will be moved to worker threads (SwingWorker?) so that it's easy to keep dialogs alive, show 
+ * progress for big export jobs, etc. For now though, it's a relatively simple set of function which 
+ * we can use to a) open the database, b) check everything such as schemas, etc. c) export data and d) clean up. 
+ * @author dg50
+ *
+ */
+public class TethysExporter {
+
+	private TethysControl tethysControl;
+	private TethysExportParams tethysExportParams;
+	
+	private DBXMLConnect dbxmlConnect;
+
+	public TethysExporter(TethysControl tethysControl, TethysExportParams tethysExportParams) {
+		this.tethysControl = tethysControl;
+		this.tethysExportParams = tethysExportParams;
+		dbxmlConnect = new DBXMLConnect(tethysControl);
+	}
+	
+	/**
+	 * Does the work. In reality this will need an awful lot of changing, for instance 
+	 * to provide feedback to an observer class to show progress on the display. 
+	 * @return OK if success. 
+	 */
+	public boolean doExport() {
+		
+		boolean dbOK = dbxmlConnect.openDatabase();
+		if (!dbOK) {
+			/*
+			 *  should we set up some exceptions to throw ? Can be a lot
+			 *  more informative than a simple 'false'
+			 */
+			return false;
+		}
+		
+		SnapshotGeometry arrayGeometry = findArrayGeometrey();
+		
+		/*
+		 * Call some general export function
+		 */
+		exportGeneralData(tethysExportParams);
+		/*
+		 * go through the export params and call something for every 
+		 * data block that's enabled.
+		 */
+		ArrayList<PamDataBlock> allDataBlocks = PamController.getInstance().getDataBlocks();
+		for (PamDataBlock aDataBlock : allDataBlocks) {
+			StreamExportParams streamExportParams = tethysExportParams.getStreamParams(aDataBlock);
+			if (streamExportParams == null || streamExportParams.selected == false) {
+				continue; // not interested in this one. 
+			}
+			exportDataStream(aDataBlock, tethysExportParams, streamExportParams);
+		}
+		/*
+		 * Then do whatever else is needed to complete the document. 
+		 */
+		
+		dbxmlConnect.closeDatabase();
+		
+		return true;
+	}
+	
+	/**
+	 * find Deployment data. This is stored in a separate PAMGuard module, which may not 
+	 * be present. 
+	 * @return 
+	 */
+	public DeploymentData findDeploymentData() {
+		/**
+		 * What to do if this isn't present or is incomplete ? Should we be showing this in the 
+		 * main export dialog at some point ? More a Q for when we make a nicer UI later in the project. 
+		 */
+		MetaDataContol metaControl = (MetaDataContol) PamController.getInstance().findControlledUnit(MetaDataContol.unitType);
+		if (metaControl == null) {
+			return null;
+		}
+		else {
+			return metaControl.getDeploymentData();
+		}
+	}
+	
+	public SnapshotGeometry findArrayGeometrey() {
+		/*
+		 *  this should never be null, but again, we might want to put some warnings
+		 *  and exception handlers in here anyway. Really just an example to show how
+		 *  to find this. We'll need to dig a bit elsewhere to get more detailed 
+		 *  hydrophone information. 
+		 */
+		/*
+		 * In PAMGuard hydrophones are assigned to streamers, which can have different methods for estimating
+		 * their positions from GPS. The geometry is a sum of xyz in the streamer and xyz in the  hydrophone object
+		 * Within a streamer, hydrophones are considered rigid relative to each other. The stremer will floow 
+		 * a choice of modesl (rigid, threading, etc) to estimate it's position relative to the GPS track. Different 
+		 * errors are used when estimating localisation errors within and between streamers. 
+		 * The Snapshot geometry sorts a lot of this out for a point in time and will give back a single object
+		 * which is most of what we'll be wanting. 
+		 */
+		PamArray currentArray = ArrayManager.getArrayManager().getCurrentArray();
+		SnapshotGeometry currentGeometry = currentArray.getSnapshotGeometry(PamCalendar.getTimeInMillis());
+		/*
+		 * The following lines of code show how to get more detailed calibration info for each 
+		 * hydrophone, but we'll have to think about the easiest way to repackage this for Tethys. 
+		 * e.g. this function could be modified to return the correct Tethys object in one go. 
+		 */
+		ArrayList<Hydrophone> hydrophones = currentArray.getHydrophoneArray();
+		/*
+		 *  each object in the list will have more detailed cal information for each phone. But 
+		 *  for the full system calibration we'd need to go to the Acquisition module.  
+		 */
+		AcquisitionControl daqControl = (AcquisitionControl) PamController.getInstance().findControlledUnit(AcquisitionControl.unitType);
+		if (daqControl != null) {
+			AcquisitionProcess daqProcess = daqControl.getAcquisitionProcess();
+			for (int iPhone = 0; iPhone < hydrophones.size(); iPhone++) {
+			   Hydrophone aPhone = hydrophones.get(iPhone);
+				double totalCal = -daqProcess.rawAmplitude2dB(1, iPhone, false);
+				System.out.printf("hydrophone %d has sensitivity %3.1fdB + gain %3.1fdB. Total calibration is %3.1fdB re1U/uPa\n", 
+						iPhone, aPhone.getSensitivity(), aPhone.getPreampGain(), totalCal);
+			}
+		}
+		
+		
+		return currentGeometry;
+	}
+
+	/**
+	 * No idea if we need this or not. May want to return something different to void, e.g. 
+	 * a reference to the main object for a tethys export. I've no idea !
+	 * @param tethysExportParams2
+	 */
+	private void exportGeneralData(TethysExportParams tethysExportParams) {
+		// TODO Auto-generated method stub
+		
+	}
+
+	/**
+	 * Here is where we export data for a specific data stream to Tethys. 
+	 * 
+	 * @param aDataBlock
+	 * @param tethysExportParams
+	 * @param streamExportParams
+	 */
+	private void exportDataStream(PamDataBlock aDataBlock, TethysExportParams tethysExportParams,
+			StreamExportParams streamExportParams) {
+		/**
+		 * This will probably need to be passed additional parameters and may also want to return something
+		 * other than void in order to build a bigger Tethys document. 
+		 */
+		/*
+		 * Some examples of how to do whatever is needed to get schema and data out of PAMGuard. 
+		 */
+		/*
+		 * first we'll probably want a reference to the module containing the data.
+		 * in principle this can't get null, since the datablock was found be searching in 
+		 * the other direction. 
+		 */
+		PamControlledUnit pamControlledUnit = aDataBlock.getParentProcess().getPamControlledUnit();
+		
+		TethysDataProvider dataProvider = aDataBlock.getTethysDataProvider();
+
+		PamguardXMLWriter pamXMLWriter = PamguardXMLWriter.getXMLWriter();
+		
+		if (dataProvider == null) {
+			return;
+		}
+		
+		TethysSchema tethysSchema = dataProvider.getSchema();
+		/* 
+		 * the schema should have a Document object in it. If we wanted to turn 
+		 * that into an XML string we can ... 
+		 * (though I'd assume that having the Document is more useful)
+		 */
+		String schemaXMLString = pamXMLWriter.getAsString(tethysSchema.getXsd(), false);
+//		System.out.printf("Schema for %s is %s\n", aDataBlock.getDataName(), schemaXMLString);
+		
+		
+		/*
+		 * Get the XML settings for that datablock. This is (or should be
+		 * the parameters that were controlling that module, with adequate data about 
+		 * upstream modules). I think this has to go somewhere into the Detections document. 
+		 */
+		Document doc = pamXMLWriter.writeOneModule(pamXMLWriter, System.currentTimeMillis());
+		String moduleXML = null;
+		if (doc != null) {
+			// this string should be XML of all the settings for the module controlling this datablock. 
+			moduleXML = pamXMLWriter.getAsString(doc, true); // change to false to get smaller xml
+			System.out.printf("Module settings for datablock %s are:\n", moduleXML);
+			System.out.println(moduleXML);
+		}
+		
+		
+
+		
+		/**
+		 * Now can go through the data. Probably, we'll want to go through all the data in 
+		 * the project, but we can hold off on that for now and just go for data that 
+		 * are in memory. We'll also have to think a lot about updating parts of the 
+		 * database which have been reprocessed - what we want to do, should eventually all
+		 * be options set in the dialog and available within TethysExportParams
+		 * For now though, we're just going to export data that are in memory. 
+		 * Once basic export is working, I can easily enough write something which will go 
+		 * through an entire data set, go through between two times, etc. 
+		 */
+		// so this is a way of iterating through the data that are in memory, which will do for now ..
+		// do it with a data copy which can avoid synchronising the entire block for what may be a long time
+		// the copy function is itself synched, and is quite fast, so easier and safe this way
+		ArrayList<PamDataUnit> dataCopy = aDataBlock.getDataCopy();
+		DataSelector dataSelector = aDataBlock.getDataSelector(tethysControl.getDataSelectName(), false);
+		int nSkipped = 0;
+		int nExport = 0;
+		
+		for (PamDataUnit aData : dataCopy) {
+			/*
+			 *  see if we want this data unit. PAMGuard has a complicated system of data selectors specific to 
+			 *  each data type. These are centrally managed so you don't need to worry too much about them. They
+			 *  are identified by name for each data stream and the behaviour here should follow the selections you 
+			 *  made in the dialog. 
+			 *  the data selection system allows different displays to show different data, so a stream can have many differently
+			 *  named selectors active at any one time, all doing different things in different parts of PAMGuard.  
+			 */
+			if (dataSelector != null) {
+				if (dataSelector.scoreData(aData) <= 0) {
+					nSkipped++;
+					continue; // don't want this one. 
+				}
+			}
+			
+			/*
+			 *  then we do whatever we need to do to convert this into something for Tethys
+			 *  this might happen in the tethysSchema object for each data stream ????
+			 */
+			
+			
+			nExport ++;
+		}
+		
+		System.out.printf("Exported %d data units and skipped %d in %s", nExport, nSkipped, aDataBlock.getLongDataName());
+		
+		
+	}
+
+}

src/tethys/output/swing/TethysExportDialog.java

@@ -0,0 +1,187 @@
+package tethys.output.swing;
+
+import java.awt.BorderLayout;
+import java.awt.GridBagConstraints;
+import java.awt.GridBagLayout;
+import java.awt.Window;
+import java.util.ArrayList;
+
+import javax.swing.JButton;
+import javax.swing.JCheckBox;
+import javax.swing.JLabel;
+import javax.swing.JPanel;
+import javax.swing.border.TitledBorder;
+
+import PamController.PamController;
+import PamView.dialog.PamDialog;
+import PamView.dialog.PamGridBagContraints;
+import PamguardMVC.PamDataBlock;
+import PamguardMVC.dataSelector.DataSelector;
+import tethys.TethysControl;
+import tethys.output.StreamExportParams;
+import tethys.output.TethysExportParams;
+
+/**
+ * Start of a dialog for controlling the export of Tethys data. For first iteration
+ * this will just be a list of output streams (PamDataBlocks) which have a database
+ * connection. Each will have a checkbox. On OK it will return back a class listing 
+ * what to output and the calling function can do as it will. Future versions will 
+ * probably want to push the functionality into a SwingWorker to show progress, etc. 
+ * but that can come later. 
+ * 
+ * Normally, I use single instance dialogs for this sort of thing. 
+ * @author dg50
+ *
+ */
+public class TethysExportDialog extends PamDialog {
+	
+	private static TethysExportDialog singleInstance;
+	
+	private TethysControl tethysControl;
+	
+	private TethysExportParams exportParams;
+	
+	private JPanel streamsPanel;
+	
+	private ArrayList<DataStreamSet> dataStreamSets = new ArrayList<>();
+
+	private TethysExportDialog(Window parentFrame, TethysControl tethysControl) {
+		super(parentFrame, "Tethys Export", false);
+		this.tethysControl = tethysControl;
+		
+		JPanel mainPanel = new JPanel(new BorderLayout());
+		/*
+		 * Expect to add at least one more panel at the top of this to have options
+		 * for things like connection details to the database. If not another panel, 
+		 * then they can be arranged on tabs, as a wizard, etc. 
+		 */
+		streamsPanel = new JPanel();
+		streamsPanel.setBorder(new TitledBorder("Data Streams"));
+		mainPanel.add(BorderLayout.CENTER, streamsPanel);
+		
+		setDialogComponent(mainPanel);
+		setResizable(true);
+		
+	}
+	
+	public static TethysExportParams showDialog(Window parentFrame, TethysControl tethysControl) {
+		if (singleInstance == null || singleInstance.getOwner() != parentFrame || singleInstance.tethysControl != tethysControl) {
+			singleInstance = new TethysExportDialog(parentFrame, tethysControl);
+		}
+		singleInstance.makeStreamsPanel();
+		singleInstance.setParams();
+		singleInstance.setVisible(true);
+		return singleInstance.exportParams;
+	}
+	
+
+	/**
+	 * remake the panel. Gets rebuilt whenever dialog opens in case
+	 * the list of available data has changed. 
+	 */
+	private void makeStreamsPanel() {
+		streamsPanel.removeAll();
+		streamsPanel.setLayout(new GridBagLayout());
+		GridBagConstraints c = new PamGridBagContraints();
+		dataStreamSets = findDataStreams();
+		streamsPanel.add(new JLabel(" Data Stream ", JLabel.CENTER), c);
+		c.gridx++;
+		streamsPanel.add(new JLabel(" Data Select ", JLabel.CENTER), c);
+		for (DataStreamSet aSet : dataStreamSets) {
+			c.gridx = 0;
+			c.gridy++;
+			streamsPanel.add(aSet.checkBox, c);
+			// try to add a data selector
+			DataSelector dataSelector = aSet.dataBlock.getDataSelector(tethysControl.getDataSelectName(), false);
+			if (dataSelector != null) {
+				c.gridx++;
+				JButton button = dataSelector.getDialogButton(this);
+				if (button != null) {
+					streamsPanel.add(button, c);
+				}
+			}
+		}
+		pack();
+	}
+	
+	/**
+	 * Get a set of data blocks that can provide Tethys data. 
+	 * @return datablocks which can provide Tethys data
+	 */
+	private ArrayList<DataStreamSet> findDataStreams() {
+		ArrayList<DataStreamSet> sets = new ArrayList<>();
+		ArrayList<PamDataBlock> allDataBlocks = PamController.getInstance().getDataBlocks();
+		for (PamDataBlock aDataBlock : allDataBlocks) {
+			if (aDataBlock.getTethysDataProvider() != null) {
+				sets.add(new DataStreamSet(aDataBlock));
+			}
+		}
+		return sets;
+	}
+
+	private void setParams() {
+		this.exportParams = tethysControl.getTethysExportParams();
+		if (exportParams == null) {
+			exportParams = new TethysExportParams();
+		}
+		else {
+			exportParams = exportParams.clone();
+		}
+		setParams(exportParams);
+	}
+
+	private void setParams(TethysExportParams exportParams) {
+		if (exportParams == null || dataStreamSets == null) {
+			return;
+		}
+		for (DataStreamSet streamSet : dataStreamSets) {
+			StreamExportParams streamOpts = exportParams.getStreamParams(streamSet.dataBlock);
+			if (streamOpts == null) {
+				continue;
+			}
+			streamSet.checkBox.setSelected(streamOpts.selected);
+		}
+		
+	}
+
+	@Override
+	public boolean getParams() {
+		if (exportParams == null || dataStreamSets == null) {
+			return false;
+		}
+		int nSel = 0;
+		for (DataStreamSet streamSet : dataStreamSets) {
+			StreamExportParams streamOpts = new StreamExportParams(streamSet.dataBlock.getLongDataName(), streamSet.checkBox.isSelected());
+			exportParams.setStreamParams(streamSet.dataBlock, streamOpts);
+			nSel++;
+		}
+		return nSel > 0;
+	}
+
+	@Override
+	public void cancelButtonPressed() {
+		exportParams = null;
+	}
+
+	@Override
+	public void restoreDefaultSettings() {
+		// TODO Auto-generated method stub
+
+	}
+
+	private class DataStreamSet {
+		
+		private PamDataBlock dataBlock;
+		
+		private JCheckBox checkBox;
+
+		public DataStreamSet(PamDataBlock dataBlock) {
+			super();
+			this.dataBlock = dataBlock;
+			checkBox = new JCheckBox(dataBlock.getDataName());
+			checkBox.setToolTipText(dataBlock.getLongDataName());
+		}
+		
+		
+	}
+}

src/tethys/pamdata/AutoTethysProvider.java

@@ -0,0 +1,42 @@
+package tethys.pamdata;
+
+import org.w3c.dom.Document;
+
+import PamguardMVC.PamDataBlock;
+import PamguardMVC.PamDataUnit;
+import generalDatabase.DBSchemaWriter;
+import generalDatabase.SQLLogging;
+
+/**
+ * Automatically provides Tethys data based on the SQL database interface 
+ * for a data block. 
+ * @author dg50
+ *
+ */
+public class AutoTethysProvider implements TethysDataProvider {
+
+	private PamDataBlock pamDataBlock;
+
+	public AutoTethysProvider(PamDataBlock pamDataBlock) {
+		this.pamDataBlock = pamDataBlock;
+	}
+
+	@Override
+	public TethysSchema getSchema() {
+		SQLLogging logging = pamDataBlock.getLogging();
+		if (logging == null) {
+			return null;
+		}
+		DBSchemaWriter schemaWriter = new DBSchemaWriter();
+		Document doc = schemaWriter.generateDatabaseSchema(pamDataBlock, logging, logging.getTableDefinition());
+		TethysSchema schema = new TethysSchema(doc);
+		return schema;
+	}
+
+	@Override
+	public TethysDataPoint getDataPoint(PamDataUnit pamDataUnit) {
+		// TODO Auto-generated method stub
+		return null;
+	}
+
+}

src/tethys/pamdata/TethysDataPoint.java

@@ -0,0 +1,18 @@
+package tethys.pamdata;
+
+import PamguardMVC.PamDataUnit;
+
+/**
+ * This will be a unit of Tethys Data, e.g. a Detection. 
+ * Can it also be used for things like GPS data ? 
+ * @author dg50
+ *
+ */
+public class TethysDataPoint {
+
+	public TethysDataPoint(PamDataUnit dataUnit) {
+		// TODO Auto-generated constructor stub
+	}
+
+
+}

src/tethys/pamdata/TethysDataProvider.java

@@ -0,0 +1,32 @@
+package tethys.pamdata;
+
+import PamguardMVC.PamDataUnit;
+
+/**
+ * Any PAMGuard data stream which can provide Detection data to PAMGuard will 
+ * be able to return one of these. It will provide a schema and a function which 
+ * can turn individual data units into data formatted for Tethys. The nature of how these 
+ * work TBD. 
+ * @author dg50
+ *
+ */
+public interface TethysDataProvider {
+
+	/**
+	 * This gets the Tethys schema for this type of data in whatever
+	 * form we decide it's best stored in, an XML string, or what ? 
+	 * @return
+	 */
+	public TethysSchema getSchema();
+	
+
+	/**
+	 * This will convert a data unit for this provider into whatever format we need the 
+	 * data to be in for Tethys. Some base function but also bespoke stuff depending on the
+	 * data type. Will probably need writing for every module individually?
+	 * @param pamDataUnit
+	 * @return
+	 */
+	public TethysDataPoint getDataPoint(PamDataUnit pamDataUnit);
+	
+}

src/tethys/pamdata/TethysSchema.java

@@ -0,0 +1,32 @@
+package tethys.pamdata;
+
+import org.w3c.dom.Document;
+
+/**
+ * object for a Tethys Schema. This may just be a very simple 
+ * wrapper around an XML string, or a JAXB object or something, 
+ * but may get more sophisticated. TBD in discussions with SDSU
+ */
+public class TethysSchema {
+
+	private Document schemaDoc;
+
+	public TethysSchema(Document doc) {
+		this.setXsd(doc);
+	}
+
+	/**
+	 * @return the xsd
+	 */
+	public Document getXsd() {
+		return schemaDoc;
+	}
+
+	/**
+	 * @param xsd the xsd to set
+	 */
+	public void setXsd(Document xsd) {
+		this.schemaDoc = xsd;
+	}
+
+}

src/whistleDetector/WhistleLogger.java

@@ -1,5 +1,6 @@
 package whistleDetector;
 
+import generalDatabase.EmptyTableDefinition;
 import generalDatabase.PamDetectionLogging;
 import generalDatabase.PamTableDefinition;
 import generalDatabase.PamTableItem;
@@ -24,7 +25,7 @@ public class WhistleLogger extends PamDetectionLogging {
 		
 		this.whistleControl = whistleControl;
 		
-		PamTableDefinition tableDefinition = getTableDefinition();
+		EmptyTableDefinition tableDefinition = getTableDefinition();
 		tableDefinition.addTableItem(sliceCount = new PamTableItem("SliceCount", Types.INTEGER));
 		tableDefinition.addTableItem(length = new PamTableItem("WhistleLength", Types.DOUBLE));
 		tableDefinition.addTableItem(minFreq = new PamTableItem("MinFreq", Types.DOUBLE));