Merge from DG fork (#58)

* Plugin Help

Small change to Help system so that plugins under development can more
easily display their help

* PamModel update

Notes on how to add a plugin to the model during the plugin development
phase.

.classpath

@@ -6,9 +6,8 @@
 			<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/AdoptOpenJDK 16">
+	<classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER/org.eclipse.jdt.internal.debug.ui.launcher.StandardVMType/JavaSE-11">
 		<attributes>
-			<attribute name="module" value="true"/>
 			<attribute name="maven.pomderived" value="true"/>
 		</attributes>
 	</classpathentry>

src/PamModel/PamModel.java

@@ -1069,6 +1069,22 @@ final public class PamModel implements PamModelInterface, PamSettings {
 		pluginList.clear();
 		daqList.clear();
 		
+		/*
+		 * If developing a new PAMPlugin in eclipse, the easiest way to do it is to make a new
+		 * Eclipse project for your plugin code. Within that project, copy this PamModel class 
+		 * and put it into a package with exactly the same name within your new project (i.e. PamModel)
+		 * then add a line to the copy of this class to explicitly add the class name of your new
+		 * plugin, e.g. 
+		pluginList.add(new CollatorPlugin());
+		 * The plugin information will then be extracted from the PamPluginInterface in the same way as
+		 * it would should it be being used as a real plugin, inclusing help information which will be 
+		 * added to the PAMGuard help 
+		 * 
+		 * When you export the code for your plugin to a jar file, remember to NOT inlcude the copy of 
+		 * PamModel !
+		 */
+		
+
 		// Load up whatever default classloader was used to create this class.  Must use the same classloader
 		// for all plugins, or else we will not be able to create proper dependencies between them or be able
 		// to save properties in the psf file.  Found this problem because ipiDemo requires the

src/PamView/help/PamHelp.java

@@ -376,8 +376,18 @@ public class PamHelp {
 				// set up a URL to point to the helpset file inside the jar
 				try {
 			        //URL helpSetLoc = new URL("jar:file:\\C:\\Users\\SCANS\\workspace\\Pamguard_MikeBranch\\plugins\\TestPlugin.jar!/TestPlugin/PluginHelp.hs"); this one worked - passed argument should match
-					URL helpSetLoc = new URL("jar:file:" + File.separator + pluginList.get(i).getJarFile()+"!/"+pluginList.get(i).getHelpSetName());
-					addPluginHelpSet(helpSetLoc);
+					String pluginJar = pluginList.get(i).getJarFile();
+					URL helpSetLoc;
+					if (pluginJar != null) {
+						helpSetLoc = new URL("jar:file:" + File.separator + pluginList.get(i).getJarFile()+"!/"+pluginList.get(i).getHelpSetName());
+						addPluginHelpSet(helpSetLoc);
+					}
+					else {
+						// this used when developing plugins and they are not actually in a jar file yet, rather they
+						// have just been manually added to the list of available plugins. 
+						String hsN = pluginList.get(i).getHelpSetName();
+						addHelpSet(hsN);
+					}
 				} catch (MalformedURLException e) {
 					System.err.println("Error generating URL for help set " + pluginList.get(i).getHelpSetName());
 					System.err.println(e.getMessage());
@@ -552,16 +562,16 @@ public class PamHelp {
 		this.helpLocURL = helpLocURL;
 	}
 
-	/**
-	 * Quick main function 
-	 * @param args
-	 */
-	public static void main(String[] args) {
-		try {
-			UIManager.setLookAndFeel(UIManager.getSystemLookAndFeelClassName());
-		} catch (Exception e) { }
-		PamHelp.getInstance().displayHelp();
-	}
+//	/**
+//	 * Quick main function 
+//	 * @param args
+//	 */
+//	public static void main(String[] args) {
+//		try {
+//			UIManager.setLookAndFeel(UIManager.getSystemLookAndFeelClassName());
+//		} catch (Exception e) { }
+//		PamHelp.getInstance().displayHelp();
+//	}
 
 
 }

src/clickTrainDetector/logging/ClickTrainDetLogging.java

@@ -133,7 +133,7 @@ public class ClickTrainDetLogging extends SuperDetLogging {
 
 			String classificationData =  getClassifierData(ctDataUnit); 
 
-			System.out.println("Classifier Save: " + classificationData);
+//			System.out.println("Classifier Save: " + classificationData);
 
 			if (classificationData.length()>0) {
 				//classifiers.setLength(classificationData.length());

src/help/detectors/clickDetectorHelp/docs/ClickDetector_betterClassification.html

@@ -1,6 +1,7 @@
 <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN">
 <html><head>
-<link href="../../../pamHelpStylesheet.css" type="text/css" rel="STYLESHEET"><title>Click Classification with Frequency Sweep</title></head>
+<link href="../../../pamHelpStylesheet.css" type="text/css" rel="STYLESHEET">
+<title>Click Classification with Frequency Sweep</title></head>
 <body>
 <h1>Click Detector</h1>
 <h2>Click Classification With Frequency Sweep</h2>