GP-706 - Speed up namespace lookup and creation

Ghidra/Features/Base/ghidra_scripts/BuildGhidraJarScript.java

@@ -17,10 +17,9 @@
 //@category Examples
 
 import java.io.File;
-import java.util.*;
+import java.util.List;
 
 import generic.jar.ApplicationModule;
-import generic.jar.ResourceFile;
 import ghidra.app.script.GhidraScript;
 import ghidra.framework.Application;
 import ghidra.util.GhidraJarBuilder;
@@ -32,8 +31,7 @@ public class BuildGhidraJarScript extends GhidraScript {
 
 	@Override
 	public void run() throws Exception {
-		GhidraJarBuilder builder =
+		GhidraJarBuilder builder = new GhidraJarBuilder(Application.getApplicationLayout());
-			new GhidraJarBuilder(toFiles(Application.getApplicationRootDirectories()));
 
 		builder.setMainClass("ghidra.JarRun");  // default is ghidra.JarRun, only here if you want 
 		// to change it to something else.
@@ -69,12 +67,4 @@ public class BuildGhidraJarScript extends GhidraScript {
 		// uncomment the following line to create a src zip for debugging.
 		// builder.buildSrcZip(new File(installDir, "GhidraSrc.zip"), monitor);
 	}
-
-	private List<File> toFiles(Collection<ResourceFile> resourceFiles) {
-		List<File> fileList = new ArrayList<>();
-		for (ResourceFile resourceFile : resourceFiles) {
-			fileList.add(resourceFile.getFile(true));
-		}
-		return fileList;
-	}
 }

Ghidra/Features/Base/src/main/java/ghidra/app/plugin/core/clipboard/CodeBrowserClipboardProvider.java

@@ -24,6 +24,8 @@ import java.util.concurrent.CopyOnWriteArraySet;
 import javax.swing.event.ChangeEvent;
 import javax.swing.event.ChangeListener;
 
+import org.apache.commons.lang3.StringUtils;
+
 import docking.ActionContext;
 import docking.ComponentProvider;
 import docking.dnd.GenericDataFlavor;
@@ -303,12 +305,9 @@ public class CodeBrowserClipboardProvider extends ByteCopier
 	private Transferable copyAddress() {
 
 		AddressSetView addressSet = getSelectedAddresses();
-		StringBuilder buffy = new StringBuilder();
 		AddressIterator it = addressSet.getAddresses(true);
-		while (it.hasNext()) {
+		String joined = StringUtils.join((Iterator<Address>) it, "\n");
-			buffy.append(it.next()).append('\n');
+		return createStringTransferable(joined);
-		}
-		return createStringTransferable(buffy.toString());
 	}
 
 	protected Transferable copyCode(TaskMonitor monitor) {
@@ -377,8 +376,8 @@ public class CodeBrowserClipboardProvider extends ByteCopier
 	private boolean pasteLabelsComments(Transferable pasteData, boolean pasteLabels,
 			boolean pasteComments) {
 		try {
-			List<?> list = (List<?>) pasteData.getTransferData(
+			List<?> list =
-				CodeUnitInfoTransferable.localDataTypeFlavor);
+				(List<?>) pasteData.getTransferData(CodeUnitInfoTransferable.localDataTypeFlavor);
 			List<CodeUnitInfo> infos = CollectionUtils.asList(list, CodeUnitInfo.class);
 			Command cmd = new CodeUnitInfoPasteCmd(currentLocation.getAddress(), infos, pasteLabels,
 				pasteComments);
@@ -451,8 +450,8 @@ public class CodeBrowserClipboardProvider extends ByteCopier
 			String oldName = symbol.getName();
 			Namespace namespace = symbol.getParentNamespace();
 			Address symbolAddress = symbol.getAddress();
-			RenameLabelCmd cmd = new RenameLabelCmd(symbolAddress, oldName, labelName,
+			RenameLabelCmd cmd = new RenameLabelCmd(symbolAddress, oldName, labelName, namespace,
-				namespace, SourceType.USER_DEFINED);
+				SourceType.USER_DEFINED);
 			return tool.execute(cmd, currentProgram);
 		}
 

Ghidra/Features/Base/src/main/java/ghidra/app/util/demangler/DemangledObject.java

@@ -441,6 +441,7 @@ public abstract class DemangledObject implements Demangled {
 			namespace = program.getGlobalNamespace();
 		}
 
+		SymbolTable symbolTable = program.getSymbolTable();
 		for (String namespaceName : getNamespaceList(typeNamespace)) {
 
 			// TODO - This is compensating for too long templates.  We should probably genericize
@@ -448,16 +449,9 @@ public abstract class DemangledObject implements Demangled {
 			//        same name is the same class--would that reflect reality?
 			namespaceName = ensureNameLength(namespaceName);
 
-			SymbolTable symbolTable = program.getSymbolTable();
-
-			List<Symbol> symbols = symbolTable.getSymbols(namespaceName, namespace);
-			Symbol namespaceSymbol =
-				symbols.stream().filter(s -> (s.getSymbolType() == SymbolType.NAMESPACE ||
-					s.getSymbolType() == SymbolType.CLASS)).findFirst().orElse(null);
-			if (namespaceSymbol == null) {
 			try {
 				namespace =
-						symbolTable.createNameSpace(namespace, namespaceName, SourceType.IMPORTED);
+					symbolTable.getOrCreateNameSpace(namespace, namespaceName, SourceType.IMPORTED);
 			}
 			catch (DuplicateNameException e) {
 				Msg.error(DemangledObject.class,
@@ -471,22 +465,27 @@ public abstract class DemangledObject implements Demangled {
 					"Failed to create namespace: " + e.getMessage());
 				break;
 			}
+
+			Symbol nsSymbol = namespace.getSymbol();
+			if (!isPermittedNamespaceType(nsSymbol.getSymbolType(), functionPermitted)) {
+
+				String allowedTypes = "SymbolType.CLASS, SymbolType.NAMESPACE";
+				if (functionPermitted) {
+					allowedTypes += ", SymbolType.FUNCTION";
 				}
-			else if (isPermittedNamespaceSymbol(namespaceSymbol, functionPermitted)) {
+
-				namespace = (Namespace) namespaceSymbol.getObject();
-			}
-			else {
 				Msg.error(DemangledObject.class,
-					"Failed to create namespace due to name conflict: " +
+					"Bad namespace type - must be one of: " + allowedTypes +
 						NamespaceUtils.getNamespaceQualifiedName(namespace, namespaceName, false));
 				break;
 			}
+
 		}
 		return namespace;
 	}
 
-	private static boolean isPermittedNamespaceSymbol(Symbol symbol, boolean functionPermitted) {
+	private static boolean isPermittedNamespaceType(SymbolType symbolType,
-		SymbolType symbolType = symbol.getSymbolType();
+			boolean functionPermitted) {
 		if (symbolType == SymbolType.CLASS || symbolType == SymbolType.NAMESPACE) {
 			return true;
 		}

Ghidra/Features/Base/src/main/java/ghidra/program/util/VarnodeContext.java

@@ -34,8 +34,7 @@ import ghidra.program.model.scalar.Scalar;
 import ghidra.program.model.symbol.Reference;
 import ghidra.program.model.symbol.ReferenceIterator;
 import ghidra.util.Msg;
-import ghidra.util.exception.DuplicateNameException;
+import ghidra.util.exception.*;
-import ghidra.util.exception.NotFoundException;
 
 public class VarnodeContext implements ProcessorContext {
 
@@ -88,7 +87,7 @@ public class VarnodeContext implements ProcessorContext {
 		this.program = program;
 
 		// make a copy, because we could be making new spaces.
-		this.addrFactory = new OffsetAddressFactory(program.getAddressFactory());
+		this.addrFactory = new OffsetAddressFactory(program);
 
 		BAD_ADDRESS = addrFactory.getAddress(getAddressSpace("BAD_ADDRESS_SPACE"), 0);
 
@@ -1435,8 +1434,24 @@ public class VarnodeContext implements ProcessorContext {
 
 class OffsetAddressFactory extends DefaultAddressFactory {
 
-	OffsetAddressFactory(AddressFactory baseFactory) {
+	OffsetAddressFactory(Program program) {
-		super(filterSpaces(baseFactory.getAllAddressSpaces()));
+		// We are only calling super with the address spaces from the language first, and then
+		// following up to explicitly add more spaces due to the treatment of memory address
+		// spaces by DefaultAddressFactory when constructed vs. when added later.
+		// If there is more than one memory address space (e.g., TYPE_RAM, TYPE_CODE, or
+		// TYPE_OTHER), then addresses are output with the space name prefix, which we do not want.
+		super(program.getLanguage().getAddressFactory().getAllAddressSpaces(),
+			program.getLanguage().getAddressFactory().getDefaultAddressSpace());
+		for (AddressSpace space : program.getAddressFactory().getAllAddressSpaces()) {
+			if (space.isLoadedMemorySpace() && getAddressSpace(space.getName()) == null) {
+				try {
+					addAddressSpace(space);
+				}
+				catch (DuplicateNameException e) {
+					throw new AssertException("Duplicate name should not occur.");
+				}
+			}
+		}
 	}
 
 	private int getNextUniqueID() {
@@ -1466,17 +1481,4 @@ class OffsetAddressFactory extends DefaultAddressFactory {
 		return (type == AddressSpace.TYPE_SYMBOL);
 	}
 
-	private static AddressSpace[] filterSpaces(AddressSpace[] allSpaces) {
-		List<AddressSpace> spaces = new ArrayList<>();
-		for (AddressSpace space : allSpaces) {
-			int type = space.getType();
-			if (type == AddressSpace.TYPE_VARIABLE || type == AddressSpace.TYPE_STACK ||
-				type == AddressSpace.TYPE_EXTERNAL || type == AddressSpace.TYPE_JOIN) {
-				continue;
-			}
-			spaces.add(space);
-		}
-		return spaces.toArray(new AddressSpace[0]);
-	}
-
 }

Ghidra/Features/Base/src/main/java/ghidra/util/GhidraJarBuilder.java

@@ -25,28 +25,24 @@ import java.util.zip.*;
 import generic.jar.*;
 import ghidra.GhidraApplicationLayout;
 import ghidra.GhidraLaunchable;
-import ghidra.framework.Application;
+import ghidra.framework.*;
-import ghidra.framework.HeadlessGhidraApplicationConfiguration;
 import ghidra.framework.plugintool.dialog.ExtensionUtils;
 import ghidra.util.classfinder.ClassFinder;
 import ghidra.util.classfinder.ClassSearcher;
 import ghidra.util.exception.AssertException;
 import ghidra.util.exception.CancelledException;
 import ghidra.util.task.TaskMonitor;
-import ghidra.util.task.TaskMonitorAdapter;
 import utilities.util.FileUtilities;
+import utility.application.ApplicationLayout;
 import utility.module.ModuleUtilities;
 
 public class GhidraJarBuilder implements GhidraLaunchable {
 
 	private static final String ROOT = "_Root/";
 	private static final String ROOT_GHIDRA = "_Root/Ghidra/";
-	private static final String LIBS_FILE_MODULE_KEY = "Module: ";
 
 	// this is set in the buildGhidraJar batch/script files
-	private static final String GHIDRA_DIR = "Ghidra.Install.Root.Dir";
 	private static final String INVOCATION_NAME_PROPERTY = "GhidraJarBuilder.Name";
-	private static HashMap<String, List<String>> libsMap = new HashMap<>();
 	private List<File> rootGhidraDirs = new ArrayList<>();
 	private List<ApplicationModule> allModules;
 	private Set<ApplicationModule> includedModules = new HashSet<>();
@@ -57,19 +53,18 @@ public class GhidraJarBuilder implements GhidraLaunchable {
 	private Pattern extensionPointSuffixPattern;
 	private List<String> extensionPointClasses = new ArrayList<>();
 	private ClassLoader classLoader;
-	private boolean inGradleMode = false;
 	private Set<File> processedJars = new HashSet<>();
 
 	public GhidraJarBuilder() {
 		// Required for GhidraLaunchable
 	}
 
-	public GhidraJarBuilder(List<File> rootDirs) throws IOException {
+	public GhidraJarBuilder(ApplicationLayout layout) throws IOException {
-		for (File file : rootDirs) {
+		for (ResourceFile file : layout.getApplicationRootDirs()) {
-			File rgd = file.getCanonicalFile();
+			File rgd = file.getFile(false).getCanonicalFile();
 			rootGhidraDirs.add(rgd);
 		}
-		allModules = findAllModules();
+		allModules = findAllModules(layout);
 		Collections.sort(allModules);
 		for (ApplicationModule module : allModules) {
 			if (includeByDefault(module)) {
@@ -203,7 +198,7 @@ public class GhidraJarBuilder implements GhidraLaunchable {
 
 		for (ApplicationModule module : moduleList) {
 			writeModuleClassesAndResources(jar, module);
-			if (!excludeHelp && !inGradleMode) {
+			if (!excludeHelp) {
 				writeModuleHelp(jar, module);
 			}
 		}
@@ -360,16 +355,6 @@ public class GhidraJarBuilder implements GhidraLaunchable {
 	private void writeModuleClassesAndResources(Jar jar, ApplicationModule module)
 			throws CancelledException, IOException {
 
-		if (inGradleMode) {
-			File gradleBuildFileForModule =
-				new File(module.getModuleDir(), "build/libs/" + module.getName() + ".jar");
-			processJarFile(jar, gradleBuildFileForModule, module);
-			File gradleBuildFileForGPLModule =
-				new File(module.getModuleDir(), "build/data/lib/" + module.getName() + ".jar");
-			processJarFile(jar, gradleBuildFileForGPLModule, module);
-			processExternalLibs(jar, module);
-			return;
-		}
 		// NOTE: This only works in a distribution where the 3rd party jars live in each
 		// module's libs directory
 		File binDir = new File(module.getModuleDir(), "bin/main");
@@ -380,18 +365,6 @@ public class GhidraJarBuilder implements GhidraLaunchable {
 		processLibDir(jar, module);
 	}
 
-	private void processExternalLibs(Jar jar, ApplicationModule module)
-			throws CancelledException, IOException {
-		List<String> list = libsMap.get(module.getName());
-		if (list == null) {
-			return;
-		}
-		for (String libPath : list) {
-			File file = new File(libPath);
-			processJarFile(jar, file, module);
-		}
-	}
-
 	private void processLibDir(Jar jar, ApplicationModule module)
 			throws CancelledException, IOException {
 		File libDir = new File(module.getModuleDir(), "lib");
@@ -586,16 +559,34 @@ public class GhidraJarBuilder implements GhidraLaunchable {
 		return manifest;
 	}
 	
-	private List<ApplicationModule> findAllModules() {
+	private List<ApplicationModule> findAllModules(ApplicationLayout layout) throws IOException {
 		List<ApplicationModule> modules = new ArrayList<>();
-		for (File appRoot : rootGhidraDirs) {
-			findModules(appRoot, appRoot, modules);
-			findModules(appRoot, new File(appRoot, "../GPL"), modules);
 		
+		for (GModule module : layout.getModules().values()) {
+			File moduleDir = module.getModuleRoot().getFile(false).getCanonicalFile();
+			File rootDir = getModuleRootDir(moduleDir);
+			modules.add(new ApplicationModule(rootDir, moduleDir));
 		}
+		
 		return modules;
 	}
 	
+	private File getModuleRootDir(File moduleDir) {
+		// Look in GPL directories too
+		List<File> rootDirs = new ArrayList<>(rootGhidraDirs);
+		for (File rootDir : rootGhidraDirs) {
+			rootDirs.add(new File(rootDir.getParentFile(), "GPL"));
+		}
+		
+		// Check each root directory to see if it contains the module
+		for (File rootDir : rootDirs) {
+			if (FileUtilities.isPathContainedWithin(rootDir, moduleDir)) {
+				return rootDir;
+			}
+		}
+		throw new AssertException("Module root directory could not be determined: " + moduleDir);
+	}
+
 	private String getPathFromRoot(String rootPath, File file) {
 		String filePath = file.getAbsolutePath();
 		if (!filePath.startsWith(rootPath)) {
@@ -604,23 +595,6 @@ public class GhidraJarBuilder implements GhidraLaunchable {
 		return filePath.substring(rootPath.length() + 1);
 	}
 
-	private void findModules(File rootAppDir, File dir, List<ApplicationModule> modules) {
-		File moduleManifest = new File(dir, "Module.manifest");
-		if (moduleManifest.exists()) {
-			ApplicationModule module = new ApplicationModule(rootAppDir, dir);
-			modules.add(module);
-			return;  // modules can't live in other modules;
-		}
-		File[] listFiles = dir.listFiles();
-		if (listFiles != null) {
-			for (File file : listFiles) {
-				if (file.isDirectory()) {
-					findModules(rootAppDir, file, modules);
-				}
-			}
-		}
-	}
-
 	private void checkExtensionPointClass(String path, InputStream inputStream) {
 		// remove .class
 		path = path.substring(0, path.length() - 6);
@@ -931,44 +905,15 @@ public class GhidraJarBuilder implements GhidraLaunchable {
 		}
 	}
 
-	private static void parseLibsFile(String libsFilePath) {
-		try {
-			List<String> lines = FileUtilities.getLines(new File(libsFilePath));
-
-			List<String> libPaths = new ArrayList<>();
-			String currentModule = null;
-			for (String line : lines) {
-				if (line.startsWith(LIBS_FILE_MODULE_KEY)) {
-					if (currentModule != null) {
-						libsMap.put(currentModule, libPaths);
-						libPaths = new ArrayList<>();
-					}
-					currentModule = line.substring(LIBS_FILE_MODULE_KEY.length()).trim();
-				}
-				else {
-					libPaths.add(line.trim());
-				}
-			}
-		}
-		catch (IOException e) {
-			System.err.println("Could not read lib paths file: " + libsFilePath);
-			System.exit(0);
-		}
-	}
-
 	private static void usage(String[] args) {
 		for (int i = 0; i < args.length; i++) {
 			System.err.println("arg " + i + ": " + args[i]);
 		}
 		String invocationName = System.getProperty(INVOCATION_NAME_PROPERTY);
-		String property = System.getProperty(GHIDRA_DIR);
 
 		StringBuffer buf = new StringBuffer();
 		buf.append("\nUsage: ");
 		buf.append(invocationName != null ? invocationName : "GhidraJarBuilder");
-		if (property == null) {
-			buf.append("<Installation Root Directory> [<Installation Root Directory> ...] ");
-		}
 		buf.append(
 			" [-output <output file>] [-srczip <src zip output file>] [-bin <compiled classes dir>] [-main <main-class>]\n");
 		System.err.println(buf.toString());
@@ -992,17 +937,10 @@ public class GhidraJarBuilder implements GhidraLaunchable {
 			usage(args);
 		}
 
-		List<File> ghidraDirs = new ArrayList<>();
 		File outputFile = null;
 		File srczip = null;
 		File extraBinDir = null;
 		String mainClassArg = null;
-		boolean usingGradle = false;
-
-		String property = System.getProperty(GHIDRA_DIR);
-		if (property != null) {
-			ghidraDirs.add(new File(property));
-		}
 
 		for (int i = 0; i < args.length; i++) {
 			String arg = args[i];
@@ -1030,28 +968,14 @@ public class GhidraJarBuilder implements GhidraLaunchable {
 				}
 				mainClassArg = args[++i];
 			}
-			else if (arg.equals("-gradle")) {
-				if (i == args.length - 1) {
-					usage(args);
-				}
-				usingGradle = true;
-				parseLibsFile(args[++i]);
-			}
-			else if (arg.startsWith("-")) {
-				usage(args);
-			}
 			else {
-				ghidraDirs.add(new File(arg));
-			}
-		}
-		if (ghidraDirs.isEmpty()) {
 				usage(args);
 			}
+		}
 		if (outputFile == null) {
 			outputFile = new File("ghidra.jar");
 		}
 
-		System.out.println("Ghidra dirs = " + ghidraDirs);
 		System.out.println("Output file = " + outputFile);
 		if (srczip != null) {
 			System.out.println("Source Zip File = " + srczip);
@@ -1061,13 +985,10 @@ public class GhidraJarBuilder implements GhidraLaunchable {
 		}
 
 		try {
-			GhidraJarBuilder builder = new GhidraJarBuilder(ghidraDirs);
+			GhidraJarBuilder builder = new GhidraJarBuilder(layout);
 			if (mainClassArg != null) {
 				builder.setMainClass(mainClassArg);
 			}
-			if (usingGradle) {
-				builder.setGradleMode();
-			}
 			builder.addExcludedFileExtension(".pdf");
 
 //		builder.addExcludedFileExtension(".htm");
@@ -1082,10 +1003,10 @@ public class GhidraJarBuilder implements GhidraLaunchable {
 				System.out.println("Exclude " + module.getName());
 			}
 
-			builder.buildJar(outputFile, extraBinDir, TaskMonitorAdapter.DUMMY_MONITOR);
+			builder.buildJar(outputFile, extraBinDir, TaskMonitor.DUMMY);
 
 			if (srczip != null) {
-				builder.buildSrcZip(srczip, TaskMonitorAdapter.DUMMY_MONITOR);
+				builder.buildSrcZip(srczip, TaskMonitor.DUMMY);
 			}
 		}
 		catch (Exception e) {
@@ -1099,8 +1020,4 @@ public class GhidraJarBuilder implements GhidraLaunchable {
 		return new File(ghidraRootDir, "application.properties");
 	}
 
-	private void setGradleMode() {
-		inGradleMode = true;
-	}
-
 }

Ghidra/Features/Base/src/main/java/org/apache/felix/framework/util/MultiReleaseContent.java

@@ -1,6 +1,7 @@
 /* ###
  * IP: Apache License 2.0
- * 
+ */
+/***
  * This is fix for a bug found in the Felix Framework:
  * 
  *   https://issues.apache.org/jira/browse/FELIX-6297
@@ -9,8 +10,8 @@
  *  
  *  THIS FILE SHOULD BE REMOVED WHEN THE ISSUE IS ADDRESSED.
  *  
- */
+ *** 
-/*
+ *
  * Licensed to the Apache Software Foundation (ASF) under one
  * or more contributor license agreements.  See the NOTICE file
  * distributed with this work for additional information
@@ -30,24 +31,15 @@
  */
 package org.apache.felix.framework.util;
 
-import org.apache.felix.framework.cache.Content;
-import org.osgi.framework.Version;
-
 import java.io.IOException;
 import java.io.InputStream;
 import java.net.URL;
-import java.util.ArrayList;
+import java.util.*;
-import java.util.Collections;
-import java.util.Enumeration;
-import java.util.HashSet;
-import java.util.Iterator;
-import java.util.LinkedHashSet;
-import java.util.List;
-import java.util.Map;
-import java.util.Set;
-import java.util.jar.Attributes;
 import java.util.jar.Manifest;
 
+import org.apache.felix.framework.cache.Content;
+import org.osgi.framework.Version;
+
 public class MultiReleaseContent implements Content
 {
     private final Content m_content;

Ghidra/Features/FunctionGraph/src/main/help/help/topics/FunctionGraphPlugin/Function_Graph.html

@@ -840,6 +840,22 @@
       location when zooming from the middle-mouse. The default for this option is off, which
       triggers zoom to work from the center of the graph, regardless of the mouse location.</P>
 
+	 <P>The <B>View Settings</B> option describes how the graph will be zoomed when it is first
+	 loaded.  The values are:</P>
+
+      <UL>
+        <LI><B>Start Fully Zoomed Out</B> - always start fully zoomed out so that the entire
+        graph can be seen.</LI>
+
+        <LI><B>Start Fully Zoomed In/B> - always start fully zoomed in on the vertex containing
+        the current location.</LI>
+
+        <LI><B>Remember User Settings</B> - keep the zoom level where the user previously left
+        it.</LI>
+      </UL>
+      <BR>
+      <BR>    
+
       <P>There are various edge color and highlight color options available to change. The
       highlight colors are those to be used when the flow animations take place.</P>
     </BLOCKQUOTE>

Ghidra/Features/FunctionGraph/src/main/help/help/topics/FunctionGraphPlugin/Function_Graph_Layouts.html

@@ -50,6 +50,13 @@
 		      </P>
 	      </BLOCKQUOTE>
 	      
+	      <BLOCKQUOTE>
+		      <P>The <B>Use Dim Return Edges</B> option makes default code block return flow edges 
+		      lighter than conditional edges.  This makes it easier for users to scan the
+		      graph and ignore return flows.
+		      </P>
+	      </BLOCKQUOTE>
+    
     </BLOCKQUOTE>
     
     

Ghidra/Features/FunctionGraph/src/main/java/ghidra/app/plugin/core/functiongraph/mvc/FunctionGraphOptions.java

@@ -185,8 +185,8 @@ public class FunctionGraphOptions extends VisualGraphOptions {
 		options.registerOption(SCROLL_WHEEL_PANS_KEY, getScrollWheelPans(), help,
 			SCROLL_WHEEL_PANS_DESCRIPTION);
 
-		options.registerOption(GRAPH_BACKGROUND_COLOR_KEY, DEFAULT_GRAPH_BACKGROUND_COLOR,
+		options.registerOption(GRAPH_BACKGROUND_COLOR_KEY, DEFAULT_GRAPH_BACKGROUND_COLOR, help,
-			help, GRAPH_BACKGROUND_COLOR_DESCRPTION);
+			GRAPH_BACKGROUND_COLOR_DESCRPTION);
 
 		options.registerOption(DEFAULT_VERTEX_BACKGROUND_COLOR_KEY, DEFAULT_VERTEX_BACKGROUND_COLOR,
 			help, DEFAULT_VERTEX_BACKGROUND_COLOR_DESCRPTION);

Ghidra/Features/FunctionGraphDecompilerExtension/src/main/java/ghidra/app/plugin/core/functiongraph/graph/layout/DNLayoutOptions.java

@@ -31,7 +31,12 @@ public class DNLayoutOptions implements FGLayoutOptions {
 		"edges should be routed around any intersecting vertex.  When toggled off, edges will " +
 		"pass through any intersecting vertices.";
 
+	private static final String DIM_RETURN_EDGES_KEY = "Use Dim Return Edges";
+	private static final String DIM_RETURN_EDGES_DESCRIPTION =
+		"Signals to lighten the default return edges.";
+
 	private boolean useEdgeRoutingAroundVertices;
+	private boolean useDimmedReturnEdges = true;
 
 	@Override
 	public void registerOptions(Options options) {
@@ -40,21 +45,32 @@ public class DNLayoutOptions implements FGLayoutOptions {
 
 		options.registerOption(USE_EDGE_ROUTING_AROUND_VERTICES_KEY, useEdgeRoutingAroundVertices,
 			help, USE_EDGE_ROUTING_AROUND_VERTICES_DESCRIPTION);
+
+		options.registerOption(DIM_RETURN_EDGES_KEY, useDimmedReturnEdges, help,
+			DIM_RETURN_EDGES_DESCRIPTION);
 	}
 
 	@Override
 	public void loadOptions(Options options) {
 		useEdgeRoutingAroundVertices =
 			options.getBoolean(USE_EDGE_ROUTING_AROUND_VERTICES_KEY, useEdgeRoutingAroundVertices);
+
+		useDimmedReturnEdges = options.getBoolean(DIM_RETURN_EDGES_KEY, useDimmedReturnEdges);
+
 	}
 
 	public boolean useEdgeRoutingAroundVertices() {
 		return useEdgeRoutingAroundVertices;
 	}
 
+	public boolean useDimmedReturnEdges() {
+		return useDimmedReturnEdges;
+	}
+
 	@Override
 	public boolean optionChangeRequiresRelayout(String optionName) {
 		// format: 'Nested Code Layout.Route Edges....'
-		return optionName.endsWith(USE_EDGE_ROUTING_AROUND_VERTICES_KEY);
+		return optionName.endsWith(USE_EDGE_ROUTING_AROUND_VERTICES_KEY) ||
+			optionName.endsWith(DIM_RETURN_EDGES_KEY);
 	}
 }

Ghidra/Features/FunctionGraphDecompilerExtension/src/main/java/ghidra/app/plugin/core/functiongraph/graph/layout/DecompilerNestedLayout.java

@@ -38,6 +38,7 @@ import ghidra.app.plugin.core.functiongraph.graph.jung.renderer.DNLArticulatedEd
 import ghidra.app.plugin.core.functiongraph.graph.vertex.FGVertex;
 import ghidra.app.plugin.core.functiongraph.graph.vertex.GroupedFunctionGraphVertex;
 import ghidra.graph.VisualGraph;
+import ghidra.graph.viewer.GraphViewerUtils;
 import ghidra.graph.viewer.layout.*;
 import ghidra.graph.viewer.vertex.VisualGraphVertexShapeTransformer;
 import ghidra.program.model.address.Address;
@@ -262,11 +263,8 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 				DecompilerBlock loop = block.getParentLoop();
 
 				if (loop != null) {
-					Set<FGVertex> vertices = loop.getVertices();
+					List<Point2D> articulations =
-
+						routeUpwardLoop(layoutToGridMap, vertex2dFactory, start, end, loop);
-					Column outermostCol = getOutermostCol(layoutToGridMap, vertices);
-					Column loopEndColumn = layoutToGridMap.nextColumn(outermostCol);
-					List<Point2D> articulations = routeLoopEdge(start, end, loopEndColumn);
 					newEdgeArticulations.put(e, articulations);
 					continue;
 				}
@@ -331,6 +329,70 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 		return newEdgeArticulations;
 	}
 
+	private List<Point2D> routeUpwardLoop(LayoutLocationMap<FGVertex, FGEdge> layoutToGridMap,
+			Vertex2dFactory vertex2dFactory, Vertex2d start, Vertex2d end, DecompilerBlock loop) {
+		Set<FGVertex> loopVertices = loop.getVertices();
+		FGVertex rightmostLoopVertex =
+			getRightmostVertex(layoutToGridMap, vertex2dFactory, loopVertices);
+
+		int startRow = start.rowIndex;
+		int endRow = end.rowIndex;
+		int startColumn = Math.min(start.columnIndex, end.columnIndex);
+		int endColumn = Math.max(start.columnIndex, end.columnIndex);
+
+		Column rightmostLoopColumn = layoutToGridMap.col(rightmostLoopVertex);
+		endColumn = Math.max(endColumn, rightmostLoopColumn.index);
+
+		// Look for any vertices that are no part of the loop, but are placed inside
+		// of the loop bounds.  This can happen in a graph when the decompiler uses
+		// goto statements.   Use the loop's rightmost vertex to establish the loops
+		// right edge and then use that to check for any stray non-loop vertices.
+		List<Vertex2d> interlopers =
+			getVerticesInBounds(vertex2dFactory, startRow, endRow, startColumn, endColumn);
+
+		// place the right x position to the right of the rightmost vertex, not
+		// extending past the next column
+		FGVertex rightmostVertex = getRightmostVertex(interlopers);
+		Column rightmostColumn = layoutToGridMap.col(rightmostVertex);
+		Column nextColumn = layoutToGridMap.nextColumn(rightmostColumn);
+		Vertex2d rightmostV2d = vertex2dFactory.get(rightmostVertex);
+
+		// the padding used for these two lines is somewhat arbitrary and may be changed
+		double rightSide = rightmostV2d.getRight() + GraphViewerUtils.EXTRA_LAYOUT_COLUMN_SPACING;
+		double x = Math.min(rightSide,
+			nextColumn.x - GraphViewerUtils.EXTRA_LAYOUT_COLUMN_SPACING_CONDENSED);
+
+		List<Point2D> articulations = routeLoopEdge(start, end, x);
+		return articulations;
+	}
+
+	private List<Vertex2d> getVerticesInBounds(Vertex2dFactory vertex2dFactory, int startRow,
+			int endRow, int startColumn, int endColumn) {
+
+		if (startRow > endRow) { // going upwards
+			int temp = endRow;
+			endRow = startRow;
+			startRow = temp;
+		}
+
+		List<Vertex2d> toCheck = new LinkedList<>();
+		for (int row = startRow; row < endRow + 1; row++) {
+
+			for (int col = startColumn; col < endColumn + 1; col++) {
+
+				// assume any other vertex in our column can clip (it will not clip when
+				// the 'spacing' above pushes the edge away from this column, like for
+				// large row delta values)
+				Vertex2d otherVertex = vertex2dFactory.get(row, col);
+				if (otherVertex != null) {
+					toCheck.add(otherVertex);
+				}
+			}
+		}
+
+		return toCheck;
+	}
+
 	private void routeToTheRightGoingUpwards(Vertex2d start, Vertex2d end,
 			Vertex2dFactory vertex2dFactory, List<Point2D> articulations) {
 
@@ -347,11 +409,16 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 		}
 		int distanceSpacing = delta * multiplier;
 
+		// Condensing is when the graph will pull nodes closer together on the x axis to
+		// reduce whitespace and make the entire graph easier to see.   In this case, update
+		// the offset to avoid running into the moved vertices.
+
 		// Condensing Note: we have guilty knowledge that our parent class my condense the
 		// vertices and edges towards the center of the graph after we calculate positions.
 		// To prevent the edges from moving to far behind the vertices, we will compensate a
 		// bit for that effect using this offset value.   The getEdgeOffset() method is
 		// updated for the condense factor.
+
 		int exaggerationFactor = 1;
 		if (isCondensedLayout()) {
 			exaggerationFactor = 2; // determined by trial-and-error; can be made into an option
@@ -556,19 +623,6 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 	private void routeAroundColumnVertices(Vertex2d start, Vertex2d end,
 			Vertex2dFactory vertex2dFactory, List<Point2D> articulations, double edgeX) {
 
-		Column column = vertex2dFactory.getColumn(edgeX);
-		int columnIndex = 0;
-		if (column != null) {
-			// a null column happens with a negative x value that is outside of any column
-			columnIndex = column.index;
-		}
-
-		routeAroundColumnVertices(start, end, columnIndex, vertex2dFactory, articulations, edgeX);
-	}
-
-	private void routeAroundColumnVertices(Vertex2d start, Vertex2d end, int column,
-			Vertex2dFactory vertex2dFactory, List<Point2D> articulations, double edgeX) {
-
 		if (useSimpleRouting()) {
 			return;
 		}
@@ -582,16 +636,36 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 			startRow = end.rowIndex;
 		}
 
+		int startColumn = Math.min(start.columnIndex, end.columnIndex);
+		int endColumn = Math.max(start.columnIndex, end.columnIndex);
+		if (goingDown) {
+			endRow -= 1;
+			endColumn -= 1;
+
+			if (start.columnIndex <= end.columnIndex) {
+				startRow += 1;
+			}
+		}
+		else {
+			// going up we swing out to the right; grab the column that is out to the right
+			Column rightColumn = vertex2dFactory.getColumn(edgeX);
+			endColumn = rightColumn.index;
+		}
+
 		List<Vertex2d> toCheck = new LinkedList<>();
-		for (int row = startRow + 1; row < endRow; row++) {
+		for (int row = startRow; row < endRow + 1; row++) {
+
+			for (int col = startColumn; col < endColumn + 1; col++) {
+
 				// assume any other vertex in our column can clip (it will not clip when
 				// the 'spacing' above pushes the edge away from this column, like for
 				// large row delta values)
-			Vertex2d otherVertex = vertex2dFactory.get(row, column);
+				Vertex2d otherVertex = vertex2dFactory.get(row, col);
 				if (otherVertex != null) {
 					toCheck.add(otherVertex);
 				}
 			}
+		}
 
 		// always process the vertices from the start vertex so that the articulation adjustments
 		// are correct
@@ -605,11 +679,16 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 			int padding = VERTEX_TO_EDGE_AVOIDANCE_PADDING;
 			int distanceSpacing = padding + delta; // adding the delta makes overlap less likely
 
+			// Condensing is when the graph will pull nodes closer together on the x axis to
+			// reduce whitespace and make the entire graph easier to see.   In this case, update
+			// the offset to avoid running into the moved vertices.
+
 			// Condensing Note: we have guilty knowledge that our parent class my condense the
 			// vertices and edges towards the center of the graph after we calculate positions.
 			// To prevent the edges from moving to far behind the vertices, we will compensate a
 			// bit for that effect using this offset value.   The getEdgeOffset() method is
 			// updated for the condense factor.
+
 			int vertexToEdgeOffset = otherVertex.getEdgeOffset();
 			int exaggerationFactor = 1;
 			if (isCondensedLayout()) {
@@ -696,15 +775,11 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 		return !getLayoutOptions().useEdgeRoutingAroundVertices();
 	}
 
-	private List<Point2D> routeLoopEdge(Vertex2d start, Vertex2d end, Column loopEndColumn) {
+	private List<Point2D> routeLoopEdge(Vertex2d start, Vertex2d end, double x) {
 
 		// going backwards
 		List<Point2D> articulations = new ArrayList<>();
 
-		// loop first point - same y coord as the vertex; x is the middle of the next col
-		int halfWidth = loopEndColumn.getPaddedWidth(isCondensedLayout()) >> 1;
-		double x = loopEndColumn.x + halfWidth; // middle of the column
-
 		int startRow = start.rowIndex;
 		int endRow = end.rowIndex;
 		if (startRow > endRow) { // going upwards			
@@ -733,27 +808,47 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 
 	private void lighten(FGEdge e) {
 
+		if (!getLayoutOptions().useDimmedReturnEdges()) {
+			return;
+		}
+
 		// assumption: edges that move to the left in this layout are return flows that happen
 		//             after the code block has been executed.  We dim those a bit so that they
 		//             produce less clutter.
 		e.setDefaultAlpha(.25);
 	}
 
-	private Column getOutermostCol(LayoutLocationMap<FGVertex, FGEdge> layoutLocations,
+	private FGVertex getRightmostVertex(LayoutLocationMap<FGVertex, FGEdge> layoutLocations,
-			Set<FGVertex> vertices) {
+			Vertex2dFactory vertex2dFactory, Set<FGVertex> vertices) {
 
-		Column outermost = null;
+		List<Vertex2d> points = new ArrayList<>();
 		for (FGVertex v : vertices) {
-			Column col = layoutLocations.col(v);
+			Vertex2d v2d = vertex2dFactory.get(v);
-			if (outermost == null) {
+			points.add(v2d);
-				outermost = col;
+		}
+
+		FGVertex v = getRightmostVertex(points);
+		return v;
+	}
+
+	private FGVertex getRightmostVertex(Collection<Vertex2d> points) {
+
+		Vertex2d rightmost = null;
+		for (Vertex2d v2d : points) {
+			if (rightmost == null) {
+				rightmost = v2d;
+			}
+			else {
+				// the rightmost is that which extends furthest to the right
+				double current = rightmost.getRight();
+				double other = v2d.getRight();
+				if (other > current) {
+					rightmost = v2d;
 				}
-			else if (col.x > outermost.x) {
-				outermost = col;
 			}
 		}
 
-		return outermost;
+		return rightmost.v;
 	}
 
 	@Override
@@ -840,8 +935,11 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 			BlockCopy copy = (BlockCopy) child;
 
 			StringBuilder buffy = new StringBuilder();
-			buffy.append(printDepth(depth, depth + 1)).append(' ').append(ID).append(
+			buffy.append(printDepth(depth, depth + 1))
-				" plain - ").append(copy.getRef());
+					.append(' ')
+					.append(ID)
+					.append(" plain - ")
+					.append(copy.getRef());
 
 			debug(buffy.toString());
 		}
@@ -1207,8 +1305,7 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 
 			int row = startRow;
 
-			for (int i = 0; i < allChildren.size(); i++) {
+			for (DecompilerBlock block : allChildren) {
-				DecompilerBlock block = allChildren.get(i);
 				if (block instanceof DecompilerBlockGraph) {
 					row = ((DecompilerBlockGraph) block).setRows(row);
 				}
@@ -1229,8 +1326,7 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 		String getChildrenString(int depth) {
 			StringBuilder buffy = new StringBuilder();
 			int childCount = 0;
-			for (int i = 0; i < allChildren.size(); i++) {
+			for (DecompilerBlock block : allChildren) {
-				DecompilerBlock block = allChildren.get(i);
 				if (block instanceof DecompilerBlockGraph) {
 
 					String blockName = block.getName();
@@ -1447,9 +1543,8 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 			// The 'list' structure for children's nesting:
 			// -all nodes are at the same level
 			//
-			for (int i = 0; i < allChildren.size(); i++) {
+			for (DecompilerBlock block : allChildren) {
 				int column = col;
-				DecompilerBlock block = allChildren.get(i);
 				block.setCol(column);
 			}
 
@@ -1477,8 +1572,7 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 			// -each successive condition is another level nested
 			//
 			int column = col;
-			for (int i = 0; i < allChildren.size(); i++) {
+			for (DecompilerBlock block : allChildren) {
-				DecompilerBlock block = allChildren.get(i);
 				block.setCol(column);
 				column++;
 			}
@@ -1518,8 +1612,7 @@ public class DecompilerNestedLayout extends AbstractFGLayout {
 			// -all blocks nested
 			//
 			int column = col + 1;
-			for (int i = 0; i < allChildren.size(); i++) {
+			for (DecompilerBlock block : allChildren) {
-				DecompilerBlock block = allChildren.get(i);
 				block.setCol(column);
 			}
 

Ghidra/Features/GhidraServer/src/main/java/ghidra/server/ServerAdmin.java

@@ -52,7 +52,7 @@ public class ServerAdmin implements GhidraLaunchable {
 	 * The following properties may be set:
 	 * <pre>
 	 *   UserAdmin.invocation - identifies the name of the application used when displaying usage text.
-	 *   UserAdmin.serverDir - identifies the server directory instead of passing on command line.
+	 *   UserAdmin.config - identifies the config file instead of passing on command line.
 	 * </pre>
 	 * @param args command line arguments
 	 */
@@ -75,22 +75,18 @@ public class ServerAdmin implements GhidraLaunchable {
 	 * The following properties may be set:
 	 * <pre>
 	 *   UserAdmin.invocation - identifies the name of the application used when displaying usage text.
-	 *   UserAdmin.serverDir - identifies the server directory instead of passing on command line.
+	 *   UserAdmin.config - identifies the config file instead of passing on command line.
 	 * </pre>
 	 * @param args command line arguments
 	 */
 	public void execute(String[] args) {
 
-		File serverDir = null;
-
 		int ix = 0;
-		if (args.length != 0 && !args[0].startsWith("-")) {
-			serverDir = new File(args[ix++]);
-		}
-		else {
-			serverDir = getServerDirFromConfig();
-		}
 
+		String configFilePath = args.length != 0 && !args[0].startsWith("-") ? args[ix++]
+				: System.getProperty(CONFIG_FILE_PROPERTY);
+
+		File serverDir = getServerDirFromConfig(configFilePath);
 		if (serverDir == null || (args.length - ix) == 0) {
 			displayUsage("");
 			System.exit(-1);
@@ -105,9 +101,7 @@ public class ServerAdmin implements GhidraLaunchable {
 			System.exit(-1);
 		}
 
-		if (propertyUsed) {
 		System.out.println("Using server directory: " + serverDir);
-		}
 
 		File userFile = new File(serverDir, UserManager.USER_PASSWORD_FILE);
 		if (!serverDir.isDirectory() || !userFile.isFile()) {
@@ -423,13 +417,14 @@ public class ServerAdmin implements GhidraLaunchable {
 		}
 	}
 
-	private File getServerDirFromConfig() {
+	private File getServerDirFromConfig(String configFilePath) {
-		String p = System.getProperty(CONFIG_FILE_PROPERTY);
+		System.out.println("Using config file: " + configFilePath);
-		if (p == null) {
+
+		if (configFilePath == null) {
 			return null;
 		}
-		propertyUsed = true;
+
-		File configFile = new File(p);
+		File configFile = new File(configFilePath);
 
 		if (!configFile.exists()) {
 			System.out.println("Config file not found: " + configFile.getAbsolutePath());
@@ -455,8 +450,9 @@ public class ServerAdmin implements GhidraLaunchable {
 			}
 		}
 
-		p = config.getProperty(SERVER_DIR_CONFIG_PROPERTY);
+		String p = config.getProperty(SERVER_DIR_CONFIG_PROPERTY);
 		if (p == null) {
+			System.out.println("Failed to find property: " + SERVER_DIR_CONFIG_PROPERTY);
 			return null;
 		}
 		File dir = new File(p);
@@ -482,8 +478,8 @@ public class ServerAdmin implements GhidraLaunchable {
 		}
 		String invocationName = System.getProperty(INVOCATION_NAME_PROPERTY);
 		System.err.println("Usage: " +
-			(invocationName != null ? invocationName : "java " + UserAdmin.class.getName()) +
+			(invocationName != null ? invocationName : "java " + ServerAdmin.class.getName()) +
-			(propertyUsed ? "" : " <serverPath>") + " [<command>] [<command>] ...");
+			(invocationName != null ? "" : " <configPath>") + " [<command>] [<command>] ...");
 		System.err.println("\nSupported commands:");
 		System.err.println("  -add <sid> [--p]");
 		System.err.println(

Ghidra/Framework/Docking/src/main/java/docking/DockableComponent.java

@@ -151,6 +151,10 @@ public class DockableComponent extends JPanel implements ContainerListener {
 	}
 
 	private void showContextMenu(MouseEvent e) {
+		if (e.isConsumed()) {
+			return;
+		}
+
 		Component component = e.getComponent();
 		if (component == null) {
 			return; // not sure this can happen

Ghidra/Framework/Docking/src/main/java/docking/framework/DockingApplicationLayout.java

@@ -16,12 +16,12 @@
 package docking.framework;
 
 import java.io.FileNotFoundException;
-import java.util.ArrayList;
+import java.util.*;
-import java.util.Objects;
 
 import generic.jar.ResourceFile;
 import ghidra.framework.ApplicationProperties;
 import ghidra.util.SystemUtilities;
+import util.CollectionUtils;
 import utility.application.ApplicationLayout;
 import utility.application.ApplicationUtilities;
 import utility.module.ModuleUtilities;
@@ -34,16 +34,6 @@ public class DockingApplicationLayout extends ApplicationLayout {
 
 	private static final String NO_RELEASE_NAME = "NO_RELEASE";
 
-	/**
-	 * Constructs a new docking application layout object with the given name.
-	 * 
-	 * @param name The name of the application.
-	 * @throws FileNotFoundException if there was a problem getting a user directory.
-	 */
-	public DockingApplicationLayout(String name) throws FileNotFoundException {
-		this(name, "0.1");
-	}
-
 	/**
 	 * Constructs a new docking application layout object with the given name and version.
 	 * 
@@ -57,24 +47,31 @@ public class DockingApplicationLayout extends ApplicationLayout {
 
 	/**
 	 * Constructs a new docking application layout object with the given set of application
-	 * properties.
+	 * properties.  The default Ghidra application root directory(s) will be used.
 	 * 
 	 * @param applicationProperties The properties object that will be read system properties.
 	 * @throws FileNotFoundException if there was a problem getting a user directory.
 	 */
 	public DockingApplicationLayout(ApplicationProperties applicationProperties)
 			throws FileNotFoundException {
+		this(getDefaultApplicationRootDirs(), applicationProperties);
+	}
+
+	/**
+	 * Constructs a new docking application layout object with the given set of application
+	 * properties.
+	 * 
+	 * @param applicationRootDirs list of application root directories which should be
+	 * used to idenitfy modules and resources.  The first entry will be treated as the 
+	 * installation root.
+	 * @param applicationProperties The properties object that will be read system properties.
+	 * @throws FileNotFoundException if there was a problem getting a user directory.
+	 */
+	public DockingApplicationLayout(Collection<ResourceFile> applicationRootDirs,
+			ApplicationProperties applicationProperties) throws FileNotFoundException {
 
 		this.applicationProperties = Objects.requireNonNull(applicationProperties);
-
+		this.applicationRootDirs = applicationRootDirs;
-		// Application root directories
-		if (SystemUtilities.isInDevelopmentMode()) {
-			applicationRootDirs = ApplicationUtilities.findDefaultApplicationRootDirs();
-		}
-		else {
-			applicationRootDirs = new ArrayList<>();
-			applicationRootDirs.add(new ResourceFile(System.getProperty("user.dir")));
-		}
 
 		// Application installation directory
 		applicationInstallationDir = applicationRootDirs.iterator().next().getParentFile();
@@ -97,4 +94,18 @@ public class DockingApplicationLayout extends ApplicationLayout {
 			applicationInstallationDir);
 	}
 
+	/**
+	 * Get the default list of Application directories.  In repo-based 
+	 * development mode this includes the root Ghidra directory within each repo.
+	 * When not in development mode, the requirement is that the current working 
+	 * directory correspond to the installation root.  The first entry will be 
+	 * the primary root in both cases.
+	 * @return root directories
+	 */
+	public static Collection<ResourceFile> getDefaultApplicationRootDirs() {
+		if (SystemUtilities.isInDevelopmentMode()) {
+			return ApplicationUtilities.findDefaultApplicationRootDirs();
+		}
+		return CollectionUtils.asList(new ResourceFile(System.getProperty("user.dir")));
+	}
 }

Ghidra/Framework/Graph/src/main/java/ghidra/graph/viewer/layout/AbstractVisualGraphLayout.java

@@ -313,14 +313,7 @@ public abstract class AbstractVisualGraphLayout<V extends VisualVertex,
 		Map<V, Point2D> vertexLayoutLocations =
 			positionVerticesInLayoutSpace(transformer, vertices, layoutLocations);
 
-		Map<E, List<Point2D>> edgeLayoutArticulationLocations =
+		Map<E, List<Point2D>> edgeLayoutArticulationLocations = new HashMap<>();
-			positionEdgeArticulationsInLayoutSpace(transformer, vertexLayoutLocations, edges,
-				layoutLocations);
-
-		// DEGUG triggers grid lines to be printed; useful for debugging
-//		VisualGraphRenderer.DEBUG_ROW_COL_MAP.put((Graph<?, ?>) visualGraph,
-//			layoutLocations.copy());
-
 		Rectangle graphBounds =
 			getTotalGraphSize(vertexLayoutLocations, edgeLayoutArticulationLocations, transformer);
 		double centerX = graphBounds.getCenterX();
@@ -332,6 +325,12 @@ public abstract class AbstractVisualGraphLayout<V extends VisualVertex,
 				centerX, centerY);
 		}
 
+		edgeLayoutArticulationLocations = positionEdgeArticulationsInLayoutSpace(transformer,
+			vertexLayoutLocations, edges, layoutLocations);
+
+		// DEGUG triggers grid lines to be printed; useful for debugging
+		// VisualGraphRenderer.DEBUG_ROW_COL_MAP.put(this, layoutLocations.copy());
+
 		layoutLocations.dispose();
 		gridLocations.dispose();
 

Ghidra/Framework/Graph/src/main/java/ghidra/graph/viewer/renderer/VisualGraphRenderer.java

@@ -22,8 +22,8 @@ import java.util.*;
 import com.google.common.base.Function;
 
 import edu.uci.ics.jung.algorithms.layout.Layout;
-import edu.uci.ics.jung.graph.Graph;
 import edu.uci.ics.jung.visualization.*;
+import edu.uci.ics.jung.visualization.layout.ObservableCachingLayout;
 import edu.uci.ics.jung.visualization.renderers.Renderer;
 import edu.uci.ics.jung.visualization.transform.shape.GraphicsDecorator;
 import ghidra.graph.viewer.*;
@@ -44,7 +44,8 @@ public class VisualGraphRenderer<V extends VisualVertex, E extends VisualEdge<V>
 	/**
 	 * Used for displaying grid information for graph layouts
 	 */
-	public static Map<Graph<?, ?>, LayoutLocationMap<?, ?>> DEBUG_ROW_COL_MAP = new HashMap<>();
+	public static Map<VisualGraphLayout<?, ?>, LayoutLocationMap<?, ?>> DEBUG_ROW_COL_MAP =
+		new HashMap<>();
 
 	private Renderer.EdgeLabel<V, E> edgeLabelRenderer = new BasicEdgeLabelRenderer<>();
 
@@ -122,11 +123,15 @@ public class VisualGraphRenderer<V extends VisualVertex, E extends VisualEdge<V>
 		edgeLabelRenderer.labelEdge(rc, layout, e, xform.apply(e));
 	}
 
+	@SuppressWarnings({ "unchecked", "rawtypes" }) // the types in the cast matter not
 	private void paintLayoutGridCells(RenderContext<V, E> renderContext, Layout<V, E> layout) {
 
 		// to enable this debug, search java files for commented-out uses of 'DEBUG_ROW_COL_MAP'
-		Graph<V, E> graph = layout.getGraph();
+		Layout<V, E> key = layout;
-		LayoutLocationMap<?, ?> locationMap = DEBUG_ROW_COL_MAP.get(graph);
+		if (layout instanceof ObservableCachingLayout) {
+			key = ((ObservableCachingLayout) layout).getDelegate();
+		}
+		LayoutLocationMap<?, ?> locationMap = DEBUG_ROW_COL_MAP.get(key);
 		if (locationMap == null) {
 			return;
 		}

Ghidra/Framework/Project/src/main/java/ghidra/framework/plugintool/StandAloneApplication.java

@@ -33,7 +33,6 @@ import ghidra.framework.model.ToolServices;
 import ghidra.util.Msg;
 import ghidra.util.SystemUtilities;
 import ghidra.util.classfinder.ClassSearcher;
-import ghidra.util.exception.AssertException;
 import ghidra.util.exception.CancelledException;
 import ghidra.util.xml.GenericXMLOutputter;
 import ghidra.util.xml.XmlUtilities;
@@ -52,7 +51,6 @@ public abstract class StandAloneApplication implements GenericStandAloneApplicat
 	/**
 	 * Creates a new application using the given properties filename. The
 	 * filename is expected reside in the current working directory.
-	 * 
 	 * <p>
 	 * <b>The given properties file is expected to have the
 	 * {@link ApplicationProperties#APPLICATION_NAME_PROPERTY} and
@@ -60,43 +58,59 @@ public abstract class StandAloneApplication implements GenericStandAloneApplicat
 	 * set.</b>
 	 * 
 	 * @param propertiesFilename the name of the properties file.
+	 * @throws IOException error causing application initialization failure
 	 */
-	public StandAloneApplication(String propertiesFilename) {
+	public StandAloneApplication(String propertiesFilename) throws IOException {
+		this(new DockingApplicationLayout(readApplicationProperties(propertiesFilename)));
+	}
 
-		try {
+	/**
+	 * Creates a new application using the specified application name 
+	 * and version.
+	 * @param name application name
+	 * @param version application version
+	 * @throws IOException error causing application initialization failure
+	 */
+	public StandAloneApplication(String name, String version) throws IOException {
+		this(new DockingApplicationLayout(name, version));
+	}
+
+	/**
+	 * reates a new application using the given application layout
+	 * and associated application properties.
+	 * @param applicationLayout application layout
+	 */
+	public StandAloneApplication(ApplicationLayout applicationLayout) {
+		init(applicationLayout);
+	}
+
+	/**
+	 * Read {@link ApplicationProperties} from the specified file path relative
+	 * to the current working directory.
+	 * <p>
+	 * <b>The given properties file is expected to have the
+	 * {@link ApplicationProperties#APPLICATION_NAME_PROPERTY} and
+	 * {@link ApplicationProperties#APPLICATION_VERSION_PROPERTY} properties
+	 * set.</b>
+	 * @param propertiesFilename the name of the properties file.
+	 * @return application properties
+	 * @throws IOException if file read error occurs
+	 */
+	public static ApplicationProperties readApplicationProperties(String propertiesFilename)
+			throws IOException {
 		ApplicationProperties properties = ApplicationProperties.fromFile(propertiesFilename);
 		String name = properties.getProperty(ApplicationProperties.APPLICATION_NAME_PROPERTY);
 		if (name == null) {
-				Msg.error(this,
+			Msg.error(StandAloneApplication.class,
 				"The application.name property is not set in " + propertiesFilename);
 		}
 
-			String version =
+		String version = properties.getProperty(ApplicationProperties.APPLICATION_VERSION_PROPERTY);
-				properties.getProperty(ApplicationProperties.APPLICATION_VERSION_PROPERTY);
 		if (version == null) {
-				Msg.error(this,
+			Msg.error(StandAloneApplication.class,
 				"The application.name property is not set in " + propertiesFilename);
 		}
-
+		return properties;
-			ApplicationLayout applicationLayout = new DockingApplicationLayout(properties);
-			init(applicationLayout);
-		}
-		catch (IOException e) {
-			throw new AssertException(e);
-		}
-	}
-
-	public StandAloneApplication(String name, String version) {
-
-		// Setup application layout
-		try {
-			ApplicationLayout applicationLayout = new DockingApplicationLayout(name, version);
-			init(applicationLayout);
-		}
-		catch (IOException e) {
-			throw new AssertException(e);
-		}
-
 	}
 
 	private void init(ApplicationLayout applicationLayout) {

Ghidra/Framework/SoftwareModeling/src/main/java/ghidra/app/util/NamespaceUtils.java

@@ -534,53 +534,7 @@ public class NamespaceUtils {
 			throws InvalidInputException {
 
 		Symbol namespaceSymbol = namespace.getSymbol();
-		String name = namespaceSymbol.getName();
-		SourceType originalSource = namespaceSymbol.getSource();
-
 		SymbolTable symbolTable = namespaceSymbol.getProgram().getSymbolTable();
-
+		return symbolTable.convertNamespaceToClass(namespace);
-		// Temporarily rename old namespace (it will be removed at the end)
-		int count = 1;
-		while (true) {
-			String n = name + "_" + count++;
-			try {
-				namespaceSymbol.setName(n, SourceType.ANALYSIS);
-				break;
-			}
-			catch (DuplicateNameException e) {
-				// continue
-			}
-			catch (InvalidInputException e) {
-				throw new AssertException(e);
-			}
-		}
-
-		// create new class namespace
-		GhidraClass classNamespace = null;
-		try {
-			classNamespace =
-				symbolTable.createClass(namespace.getParentNamespace(), name, originalSource);
-		}
-		catch (DuplicateNameException e) {
-			throw new AssertException(e);
-		}
-		catch (InvalidInputException e) {
-			// The only cause of this exception can be assumed but we need to
-			// avoid showing the user a temporary name
-			throw new InvalidInputException(
-				"Namespace contained within Function may not be converted to a class: " + name);
-		}
-
-		// move everything from old namespace into new class namespace
-		try {
-			for (Symbol s : symbolTable.getSymbols(namespace)) {
-				s.setNamespace(classNamespace);
-			}
-			namespaceSymbol.delete();
-		}
-		catch (DuplicateNameException | InvalidInputException | CircularDependencyException e) {
-			throw new AssertException(e);
-		}
-		return classNamespace;
 	}
 }

Ghidra/Framework/SoftwareModeling/src/main/java/ghidra/program/database/data/DataTypeManagerDB.java

@@ -1695,6 +1695,9 @@ abstract public class DataTypeManagerDB implements DataTypeManager {
 
 	@Override
 	public void disassociate(DataType dataType) {
+
+		lock.acquire();
+		try {
 			UniversalID oldDtID = dataType.getUniversalID();
 			SourceArchive sourceArchive = dataType.getSourceArchive();
 			sourceArchive = resolveSourceArchive(sourceArchive);
@@ -1724,6 +1727,10 @@ abstract public class DataTypeManagerDB implements DataTypeManager {
 
 			dataTypeChanged(dataType);
 		}
+		finally {
+			lock.release();
+		}
+	}
 
 	private Collection<DataType> filterOutNonSourceSettableDataTypes(
 			Collection<DataType> datatypes) {
@@ -2694,7 +2701,8 @@ abstract public class DataTypeManagerDB implements DataTypeManager {
 		}
 		try {
 			creatingDataType++;
-			DBRecord record = functionDefAdapter.createRecord(name, funDef.getComment(), cat.getID(),
+			DBRecord record =
+				functionDefAdapter.createRecord(name, funDef.getComment(), cat.getID(),
 					DEFAULT_DATATYPE_ID, funDef.hasVarArgs(), funDef.getGenericCallingConvention(),
 					sourceArchiveIdValue, universalIdValue, funDef.getLastChangeTime());
 			FunctionDefinitionDB funDefDb =
@@ -3696,8 +3704,14 @@ abstract public class DataTypeManagerDB implements DataTypeManager {
 	@Override
 	public DataType getDataType(SourceArchive sourceArchive, UniversalID datatypeID) {
 		UniversalID sourceID = sourceArchive == null ? null : sourceArchive.getSourceArchiveID();
+		lock.acquire();
+		try {
 			return idsToDataTypeMap.getDataType(sourceID, datatypeID);
 		}
+		finally {
+			lock.release();
+		}
+	}
 
 	@Override
 	public DataType findDataTypeForID(UniversalID datatypeID) {
@@ -4162,7 +4176,11 @@ abstract public class DataTypeManagerDB implements DataTypeManager {
 
 			Map<UniversalID, DataType> idMap =
 				map.computeIfAbsent(sourceID, k -> new ConcurrentHashMap<>());
-			final UniversalID sourceArchiveID = sourceID;
+			UniversalID sourceArchiveID = sourceID;
+
+			// note: this call is atomic and has a lock on the 'idMap'.  It may call to a method
+			//       that requires a db lock.  As such, the call to computeIfAbsent() must be 
+			//       made while holding the db lock.
 			return idMap.computeIfAbsent(dataTypeID,
 				k -> findDataTypeForIDs(sourceArchiveID, dataTypeID));
 		}

Ghidra/Framework/SoftwareModeling/src/main/java/ghidra/program/database/symbol/GhidraClassDB.java

@@ -1,6 +1,5 @@
 /* ###
  * IP: GHIDRA
- * REVIEWED: YES
  *
  * Licensed under the Apache License, Version 2.0 (the "License");
  * you may not use this file except in compliance with the License.
@@ -19,8 +18,7 @@ package ghidra.program.database.symbol;
 import ghidra.program.model.address.AddressSetView;
 import ghidra.program.model.listing.CircularDependencyException;
 import ghidra.program.model.listing.GhidraClass;
-import ghidra.program.model.symbol.Namespace;
+import ghidra.program.model.symbol.*;
-import ghidra.program.model.symbol.Symbol;
 import ghidra.util.exception.DuplicateNameException;
 import ghidra.util.exception.InvalidInputException;
 
@@ -63,6 +61,19 @@ class GhidraClassDB implements GhidraClass {
 		return symbol.getName();
 	}
 
+	public void setName(String name, SourceType source, boolean checkForDuplicates)
+			throws DuplicateNameException, InvalidInputException {
+
+		try {
+			symbol.doSetNameAndNamespace(name, symbol.getParentNamespace(), source,
+				checkForDuplicates);
+		}
+		catch (CircularDependencyException e) {
+			// can't happen since we are not changing the namespace
+		}
+
+	}
+
 	/**
 	 * @see ghidra.program.model.symbol.Namespace#getID()
 	 */

Ghidra/Framework/SoftwareModeling/src/main/java/ghidra/program/database/symbol/SymbolDB.java

@@ -104,7 +104,8 @@ public abstract class SymbolDB extends DatabaseObject implements Symbol {
 				return false;
 			}
 			record = rec;
-			address = symbolMgr.getAddressMap().decodeAddress(
+			address = symbolMgr.getAddressMap()
+					.decodeAddress(
 						rec.getLongValue(SymbolDatabaseAdapter.SYMBOL_ADDR_COL));
 			return true;
 		}
@@ -522,8 +523,8 @@ public abstract class SymbolDB extends DatabaseObject implements Symbol {
 		return source;
 	}
 
-	@Override
+	public void doSetNameAndNamespace(String newName, Namespace newNamespace, SourceType source,
-	public void setNameAndNamespace(String newName, Namespace newNamespace, SourceType source)
+			boolean checkForDuplicates)
 			throws DuplicateNameException, InvalidInputException, CircularDependencyException {
 
 		lock.acquire();
@@ -563,7 +564,11 @@ public abstract class SymbolDB extends DatabaseObject implements Symbol {
 				if (!namespaceChange && !nameChange) {
 					return;
 				}
-				symbolMgr.checkDuplicateSymbolName(address, newName, newNamespace, getSymbolType());
+
+				if (checkForDuplicates) {
+					symbolMgr.checkDuplicateSymbolName(address, newName, newNamespace,
+						getSymbolType());
+				}
 			}
 
 			if (record != null) {
@@ -617,6 +622,13 @@ public abstract class SymbolDB extends DatabaseObject implements Symbol {
 		}
 	}
 
+	@Override
+	public void setNameAndNamespace(String newName, Namespace newNamespace, SourceType source)
+			throws DuplicateNameException, InvalidInputException, CircularDependencyException {
+
+		doSetNameAndNamespace(newName, newNamespace, source, true);
+	}
+
 	protected List<SymbolDB> getSymbolsDynamicallyRenamedByMyRename() {
 		return null;
 	}

Ghidra/Framework/SoftwareModeling/src/main/java/ghidra/program/database/symbol/SymbolManager.java

@@ -40,7 +40,6 @@ import ghidra.program.util.LanguageTranslator;
 import ghidra.util.*;
 import ghidra.util.exception.*;
 import ghidra.util.task.TaskMonitor;
-import ghidra.util.task.TaskMonitorAdapter;
 
 public class SymbolManager implements SymbolTable, ManagerDB {
 
@@ -128,7 +127,7 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 	 * Find previously defined variable storage address
 	 * @param storage variable storage
 	 * @return previously defined variable storage address or null if not found
-	 * @throws IOException
+	 * @throws IOException if there is database exception
 	 */
 	public Address findVariableStorageAddress(VariableStorage storage) throws IOException {
 		return variableStorageMgr.getVariableStorageAddress(storage, false);
@@ -183,7 +182,7 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 	 * where all the moved external addresses will be placed.
 	 * The triggering of this upgrade relies on the addition of the VariableManager which
 	 * trigger an upgrade.
-	 * @param monitor
+	 * @param monitor the task monitor
 	 */
 	private boolean upgradeOldNamespaceAddresses(TaskMonitor monitor)
 			throws IOException, CancelledException {
@@ -239,9 +238,9 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 	/**
 	 * Upgrade old stack and register variable symbol address to variable addresses.
 	 * Also force associated references to be updated to new variable addresses.
-	 * @param monitor
+	 * @param monitor the task monitor
-	 * @throws IOException
+	 * @throws IOException if there is database exception
-	 * @throws CancelledException
+	 * @throws CancelledException if the operation is cancelled
 	 */
 	private void processOldVariableAddresses(TaskMonitor monitor)
 			throws IOException, CancelledException {
@@ -296,8 +295,8 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 	 * No more sharing the same variable address for multiple variable symbols.
 	 * Must split these up.  Only reference to variable addresses should be the
 	 * symbol address - reference refer to physical/stack addresses, and symbolIDs.
-	 * @param monitor
+	 * @param monitor the task monitor
-	 * @throws CancelledException
+	 * @throws CancelledException if the operation is cancelled
 	 */
 	public void migrateFromOldVariableStorageManager(TaskMonitor monitor)
 			throws CancelledException {
@@ -396,9 +395,8 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 
 	/**
 	 * Add old local symbols
-	 * @param table
+	 * @throws IOException if there is database exception
-	 * @throws IOException
+	 * @throws CancelledException if the operation is cancelled
-	 * @throws CancelledException
 	 */
 	private void processOldLocalSymbols(TaskMonitor monitor)
 			throws IOException, CancelledException {
@@ -450,6 +448,7 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 	 * @param oldAddr old address value from symbol table
 	 * @param name symbol name
 	 * @param isPrimary true if symbol is primary at oldAddr
+	 * @throws IOException if there is database exception
 	 */
 	public static void saveLocalSymbol(DBHandle tmpHandle, long symbolID, long oldAddr, String name,
 			boolean isPrimary) throws IOException {
@@ -480,18 +479,15 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 			return;
 		}
 
-		List<Symbol> symbolList = getSymbols(name, namespace);
+		Symbol symbol = getFirstSymbol(name, namespace, s -> !s.getSymbolType().allowsDuplicates());
-		for (Symbol symbol : symbolList) {
+		if (symbol != null) {
-			if (!symbol.getSymbolType().allowsDuplicates()) {
 			throw new DuplicateNameException(
 				"A " + symbol.getSymbolType() + " symbol with name " + name +
 					" already exists in namespace " + symbol.getParentNamespace().getName());
 		}
 	}
 
-	}
+	/*
-
-	/**
 	 * Convert the specified dynamic symbol to a named symbol. Both symbol removed and symbol added
 	 * notifications are performed, although the symbol instance is changed and continues to be
 	 * valid.
@@ -509,7 +505,8 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 			Address address = symbol.getAddress();
 			symbolRemoved(symbol, address, symbol.getName(), oldKey, Namespace.GLOBAL_NAMESPACE_ID,
 				null);
-			DBRecord record = adapter.createSymbol(newName, address, newParentID, SymbolType.LABEL, 0,
+			DBRecord record =
+				adapter.createSymbol(newName, address, newParentID, SymbolType.LABEL, 0,
 					1, null, source);
 			symbol.setRecord(record);// symbol object was morphed
 			symbolAdded(symbol);
@@ -987,10 +984,11 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 				return searchSymbolsByNamespaceFirst(name, namespace);
 			}
 
-			// Try to find the symbols by searching through all the symbols with the given name and including
+			// Try to find the symbols by searching through all the symbols with the given name 
-			// only those in the specified namespace.  If there are too many symbols with the same name and
+			// and including only those in the specified namespace.  If there are too many symbols 
-			// we are not in the global space, abandon this approach and instead search through all
+			// with the same name and we are not in the global space, abandon this approach and 
-			// the symbols in the namespace and only include those with the specified name.
+			// instead search through all the symbols in the namespace and only include those with 
+			// the specified name.
 			int count = 0;
 			List<Symbol> list = new ArrayList<>();
 			SymbolIterator symbols = getSymbols(name);
@@ -1009,6 +1007,42 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 		}
 	}
 
+	// note: this could be public; adding it may be confusing due to the potential for having 
+	//       multiple symbols and not knowing when to call which method.
+	private Symbol getFirstSymbol(String name, Namespace namespace, Predicate<Symbol> test) {
+		if (namespace == null) {
+			namespace = namespaceMgr.getGlobalNamespace();
+		}
+
+		if (namespace.isExternal() &&
+			SymbolUtilities.isReservedExternalDefaultName(name, program.getAddressFactory())) {
+			return findFirstSymbol(name, namespace, test);
+		}
+
+		else if (namespace instanceof Function && hasDefaultVariablePrefix(name)) {
+			return findFirstSymbol(name, namespace, test);
+		}
+
+		// Try to find the symbols by searching through all the symbols with the given name 
+		// and including only those in the specified namespace.  If there are too many symbols 
+		// with the same name and we are not in the global space, abandon this approach and 
+		// instead search through all the symbols in the namespace and only include those with 
+		// the specified name.
+		int count = 0;
+		SymbolIterator symbols = getSymbols(name);
+		for (Symbol s : symbols) {
+			if (++count == MAX_DUPLICATE_COUNT && !namespace.isGlobal()) {
+				return findFirstSymbol(name, namespace, test);
+			}
+			if (s.getParentNamespace().equals(namespace) &&
+				test.test(s)) {
+				return s;
+			}
+		}
+
+		return null;
+	}
+
 	/**
 	 * Returns the list of symbols with the given name and namespace.
 	 *
@@ -1143,7 +1177,7 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 
 	/**
 	 * Returns the next available external symbol address
-	 * @return
+	 * @return the address
 	 */
 	public Address getNextExternalSymbolAddress() {
 		int extID = 1;
@@ -1414,6 +1448,7 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 		if (!symbol.isDynamic()) {
 			createLabelHistoryRecord(addr, oldName, newName, LabelHistory.RENAME);
 		}
+
 		program.symbolChanged(symbol, ChangeManager.DOCR_SYMBOL_RENAMED, addr, symbol, oldName,
 			newName);
 	}
@@ -1493,7 +1528,7 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 
 		// fire event
 		program.symbolChanged(symbol, ChangeManager.DOCR_SYMBOL_REMOVED, addr, symbol, name,
-			new Long(symbolID));
+			symbolID);
 	}
 
 	void externalEntryPointRemoved(Address addr) {
@@ -1543,11 +1578,6 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 
 		Symbol sym;
 
-		/**
-		 * Construct iterator which returns a single symbol
-		 *
-		 * @param addr
-		 */
 		SingleSymbolIterator(Symbol sym) {
 			this.sym = sym;
 		}
@@ -2175,8 +2205,7 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 
 	void moveLabelHistory(Address oldAddress, Address address) {
 		try {
-			historyAdapter.moveAddressRange(oldAddress, address, 1, addrMap,
+			historyAdapter.moveAddressRange(oldAddress, address, 1, addrMap, TaskMonitor.DUMMY);
-				TaskMonitorAdapter.DUMMY_MONITOR);
 		}
 		catch (CancelledException e) {
 			// can't happen, used dummy monitor
@@ -2266,6 +2295,109 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 		return new NamespaceDB(s, namespaceMgr);
 	}
 
+	@Override
+	public GhidraClass convertNamespaceToClass(Namespace namespace) {
+
+		if (namespace instanceof GhidraClass) {
+			return (GhidraClass) namespace;
+		}
+
+		lock.acquire();
+		try {
+
+			checkIsValidNamespaceForMyProgram(namespace);
+
+			Symbol namespaceSymbol = namespace.getSymbol();
+			String name = namespaceSymbol.getName();
+			SourceType originalSource = namespaceSymbol.getSource();
+
+			// no duplicate check, since this class name will be set to that of the existing namespace
+			String tempName = name + System.nanoTime();
+			SymbolDB classSymbol =
+				doCreateSpecialSymbol(Address.NO_ADDRESS, tempName, namespace.getParentNamespace(),
+					SymbolType.CLASS, -1, -1, null, originalSource, false /*check for duplicate */);
+			GhidraClassDB classNamespace = new GhidraClassDB(classSymbol, namespaceMgr);
+
+			// move everything from old namespace into new class namespace
+			for (Symbol s : getSymbols(namespace)) {
+
+				// no duplicate check, since these symbols all lived under the existing namespace
+				((SymbolDB) s).doSetNameAndNamespace(s.getName(), classNamespace, s.getSource(),
+					false /*check for duplicate */);
+			}
+
+			namespaceSymbol.delete();
+
+			// fix name now that the old namespace is deleted
+			classNamespace.setName(name, SourceType.ANALYSIS, false /*check for duplicate */);
+
+			return classNamespace;
+		}
+		catch (DuplicateNameException | InvalidInputException | CircularDependencyException e) {
+			throw new AssertException("Unexpected exception creating class from namespace", e);
+		}
+		finally {
+			lock.release();
+		}
+	}
+
+	private void checkIsValidNamespaceForMyProgram(Namespace namespace) {
+
+		if (namespace == null) {
+			return;
+		}
+
+		if (namespace == program.getGlobalNamespace()) {
+			return;
+		}
+
+		if (!(namespace instanceof NamespaceDB)) {
+			throw new IllegalArgumentException(
+				"Namespace is not a valid parent for symbols: " +
+					namespace.getClass());
+		}
+
+		SymbolDB dbSymbol = (SymbolDB) namespace.getSymbol();
+		if (program != dbSymbol.getProgram()) {
+			throw new IllegalArgumentException(
+				"Namespace symbol is from a different program");
+		}
+
+		// may throw a ConcurrentModificationException
+		dbSymbol.checkDeleted();
+	}
+
+	@Override
+	public Namespace getOrCreateNameSpace(Namespace parent, String name, SourceType source)
+			throws DuplicateNameException, InvalidInputException {
+
+		lock.acquire();
+		try {
+
+			checkIsValidNamespaceForMyProgram(parent);
+
+			Symbol namespaceSymbol = getFirstSymbol(name, parent, s -> {
+				return s.getSymbolType() == SymbolType.NAMESPACE ||
+					s.getSymbolType() == SymbolType.CLASS;
+			});
+
+			if (namespaceSymbol != null) {
+				return (Namespace) namespaceSymbol.getObject();
+			}
+
+			// Note: We know there are no namespaces with the name; do we still have to check for 
+			//       duplicates?  Assuming yes, as another symbol type may exist with this name.
+			SymbolDB s =
+				doCreateSpecialSymbol(Address.NO_ADDRESS, name, parent, SymbolType.NAMESPACE, -1,
+					-1, null, source, true /*check for duplicates*/);
+			return new NamespaceDB(s, namespaceMgr);
+
+		}
+		finally {
+			lock.release();
+		}
+	}
+
 	@Override
 	public Symbol createSymbolPlaceholder(Address address, long id) {
 		return SymbolDB.createSymbolPlaceholder(this, address, id);
@@ -2293,12 +2425,24 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 			SymbolType symbolType, long data1, int data2, String data3, SourceType source)
 			throws DuplicateNameException, InvalidInputException {
 
+		return doCreateSpecialSymbol(addr, name, parent, symbolType, data1, data2, data3, source,
+			true);
+	}
+
+	private SymbolDB doCreateSpecialSymbol(Address addr, String name, Namespace parent,
+			SymbolType symbolType, long data1, int data2, String data3, SourceType source,
+			boolean checkForDuplicates)
+			throws DuplicateNameException, InvalidInputException {
+
 		lock.acquire();
 		try {
 			parent = validateNamespace(parent, addr, symbolType);
 			source = validateSource(source, name, addr, symbolType);
 			name = validateName(name, source);
+
+			if (checkForDuplicates) {
 				checkDuplicateSymbolName(addr, name, parent, symbolType);
+			}
 
 			return doCreateSymbol(name, addr, parent, symbolType, data1, data2, data3, source);
 		}
@@ -2378,7 +2522,8 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 	}
 
 	/**
-	 * Internal method for creating funcions symbols.
+	 * Internal method for creating function symbols
+	 * 
 	 * @param addr the address for the new symbol
 	 * @param name the name of the new symbol
 	 * @param namespace the namespace for the new symbol
@@ -2489,7 +2634,8 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 			long data1, int data2, String data3, SourceType source) {
 
 		try {
-			DBRecord record = adapter.createSymbol(name, addr, namespace.getID(), type, data1, data2,
+			DBRecord record =
+				adapter.createSymbol(name, addr, namespace.getID(), type, data1, data2,
 					data3, source);
 
 			SymbolDB newSymbol = makeSymbol(addr, record, type);
@@ -2633,19 +2779,29 @@ public class SymbolManager implements SymbolTable, ManagerDB {
 
 	@Override
 	public Symbol getVariableSymbol(String name, Function function) {
-		return findFirstSymbol(name, function, s -> {
+		return getFirstSymbol(name, function, s -> {
 			SymbolType t = s.getSymbolType();
 			return t == SymbolType.PARAMETER || t == SymbolType.LOCAL_VAR;
 		});
 	}
 
 	private Symbol getSpecificSymbol(String name, Namespace namespace, SymbolType type) {
-		return findFirstSymbol(name, namespace, s -> s.getSymbolType() == type);
+		return getFirstSymbol(name, namespace, s -> s.getSymbolType() == type);
 	}
 
 	private Symbol findFirstSymbol(String name, Namespace namespace, Predicate<Symbol> test) {
-		List<Symbol> symbols = getSymbols(name, namespace);
+		if (namespace == null) {
-		return symbols.stream().filter(test).findFirst().orElse(null);
+			namespace = namespaceMgr.getGlobalNamespace();
+		}
+
+		SymbolIterator it = getSymbols(namespace);
+		while (it.hasNext()) {
+			Symbol s = it.next();
+			if (s.getName().equals(name) && test.test(s)) {
+				return s;
+			}
+		}
+		return null;
 	}
 }
 

Ghidra/Framework/SoftwareModeling/src/main/java/ghidra/program/model/symbol/SymbolTable.java

@@ -15,8 +15,7 @@
  */
 package ghidra.program.model.symbol;
 
-import java.util.Iterator;
+import java.util.*;
-import java.util.List;
 
 import ghidra.program.model.address.*;
 import ghidra.program.model.listing.*;
@@ -504,7 +503,7 @@ public interface SymbolTable {
 	 * @param name name of the namespace
 	 * @param source the source of this class namespace's symbol
 	 * @return new class namespace
-	 * @throws DuplicateNameException thrown if another non function or lable symbol exists with the given name
+	 * @throws DuplicateNameException thrown if another non function or label symbol exists with the given name
 	 * @throws InvalidInputException throw if the name has invalid characters or is null
 	 * @throws IllegalArgumentException if you try to set the source to 'Symbol.DEFAULT'.
 	 */
@@ -523,7 +522,7 @@ public interface SymbolTable {
 	 * @param source the source of this external library's symbol
 	 * @return the new Library namespace.
 	 * @throws IllegalArgumentException if you try to set the source to 'Symbol.DEFAULT'.
-	 * @throws DuplicateNameException thrown if another non function or lable symbol exists with the given name
+	 * @throws DuplicateNameException thrown if another non function or label symbol exists with the given name
 	 */
 	public Library createExternalLibrary(String name, SourceType source)
 			throws DuplicateNameException, InvalidInputException;
@@ -534,7 +533,7 @@ public interface SymbolTable {
 	 * @param name the name of the new namespace
 	 * @param source the source of this namespace's symbol
 	 * @return the new Namespace object.
-	 * @throws DuplicateNameException thrown if another non function or lable symbol exists with the given name
+	 * @throws DuplicateNameException thrown if another non function or label symbol exists with the given name
 	 * @throws InvalidInputException if the name is invalid.
 	 * @throws IllegalArgumentException if you try to set the source to 'Symbol.DEFAULT'.
 	 */
@@ -552,4 +551,32 @@ public interface SymbolTable {
 	 */
 	public Symbol createSymbolPlaceholder(Address address, long id);
 
+	/**
+	 * Converts the given namespace to a class namespace
+	 * 
+	 * @param namespace the namespace to convert
+	 * @return the new class
+	 * @throws IllegalArgumentException if the given parent namespace is from a different program
+	 *         than that of this symbol table
+	 * @throws ConcurrentModificationException if the given parent namespace has been deleted
+	 */
+	public GhidraClass convertNamespaceToClass(Namespace namespace);
+
+	/**
+	 * Gets an existing namespace with the given name in the given parent.  If no namespace exists,
+	 * then one will be created.
+	 *  
+	 * @param parent the parent namespace
+	 * @param name the namespace name
+	 * @param source the source type for the namespace if one is created
+	 * @return the namespace
+	 * @throws DuplicateNameException thrown if another non function or label symbol exists with 
+	 *         the given name
+	 * @throws InvalidInputException if the name is invalid
+	 * @throws IllegalArgumentException if the given parent namespace is from a different program
+	 *         than that of this symbol table
+	 * @throws ConcurrentModificationException if the given parent namespace has been deleted
+	 */
+	public Namespace getOrCreateNameSpace(Namespace parent, String name, SourceType source)
+			throws DuplicateNameException, InvalidInputException;
 }

Ghidra/Processors/SuperH4/data/languages/SuperH4.sinc

@@ -518,15 +518,15 @@ N_0t_dbr1:  @^N_0^"+,"^DBR  is N_0 & DBR { export N_0; }
 
 N_0t_bank1: @^N_0^"+"  is N_0 { export N_0; }
 
-FR0_t:   fr0  is OP_0 & fr0 { x:4 = 0; export x; } # dummy export, just looking for the display
+FR0_t:   fr0  is OP_0 & fr0 { export fr0; }
 
 XMTRX_t: "xmtrx"  is OP_0 { x:4 = 0; export x; } # dummy export, just looking for the display
 
-mach_t:  MACH  is OP_0 & MACH { x:4 = 0; export x; } # dummy export, just looking for the display
+mach_t:  MACH  is OP_0 & MACH { export MACH; }
 
-macl_t:  MACL  is OP_0 & MACL { x:4 = 0; export x; } # dummy export, just looking for the display
+macl_t:  MACL  is OP_0 & MACL { export MACL; }
 
-fpul_t:  FPUL  is OP_0 & FPUL { x:4 = 0; export x; } # dummy export, just looking for the display
+fpul_t:  FPUL  is OP_0 & FPUL { export FPUL; }
 
 fpscr_t: "FPSCR"  is OP_0 { x:4 = 0; export x; } # dummy export, just looking for the display
 

Ghidra/RuntimeScripts/Linux/server/svrAdmin

@@ -45,8 +45,8 @@ fi
 OWNER="$(grep '^wrapper.app.account=' "${CONFIG}" | sed -e 's/^.*=\(.*\)\s*.*$/\1/')"
 
 if [ -z "${OWNER}" -o "${OWNER}" = "$(whoami)" ]; then
-	VMARGS="-DUserAdmin.invocation=$(basename "${SCRIPT_FILE}") -DUserAdmin.config=\"${CONFIG}\""
+	VMARGS="-DUserAdmin.invocation=$(basename "${SCRIPT_FILE}")"
-	"${SCRIPT_DIR}"/../support/launch.sh fg svrAdmin "${MAXMEM}" "$VMARGS" ghidra.server.ServerAdmin "$@"
+	"${SCRIPT_DIR}"/../support/launch.sh fg svrAdmin "${MAXMEM}" "$VMARGS" ghidra.server.ServerAdmin "${CONFIG}" "$@"
 else
 	echo "Running svrAdmin with $SUDO as ${OWNER} ..."
 	$SUDO -u $OWNER "$0" "$@"

Ghidra/RuntimeScripts/Linux/support/buildGhidraJar

@@ -25,7 +25,7 @@ if [ ! -d "${GHIDRA_ROOT_DIR}" ]; then
 fi
 
 # Set required VMARGS for jar builder application
-APP_VMARGS="-DGhidraJarBuilder.Name=$(basename "${SCRIPT_FILE}") -DGhidra.Install.Root.Dir=\"${GHIDRA_ROOT_DIR}\" "
+APP_VMARGS="-DGhidraJarBuilder.Name=$(basename "${SCRIPT_FILE}")"
 
 # Launch jar builder
 "${SCRIPT_DIR}"/launch.sh "${LAUNCH_MODE}" Ghidra "${MAXMEM}" "${APP_VMARGS}" ghidra.util.GhidraJarBuilder -main ghidra.JarRun "$@"

Ghidra/RuntimeScripts/Windows/server/ghidraSvr.bat

@@ -11,7 +11,7 @@ rem  runtime which has been configured into the system PATH ahead of other Java
 rem  it may be necessary to explicitly specify the path to the installation by setting JAVA_HOME
 rem  below:
 
-rem set JAVA_HOME=
+rem set "JAVA_HOME="
 
 setlocal enabledelayedexpansion
 
@@ -50,7 +50,7 @@ if "%IS_ADMIN%"=="NO" (
 
 rem Find the script directory
 rem %~dsp0 is location of current script under NT
-set _REALPATH=%~dp0
+set "_REALPATH=%~dp0"
 
 set APP_NAME=ghidraSvr
 set APP_LONG_NAME=Ghidra Server
@@ -64,26 +64,26 @@ if exist "%_REALPATH%..\Ghidra\" goto normal
 rem NOTE: If adjusting JAVA command assignment - do not attempt to add parameters (e.g., -d64, -version:1.7, etc.)
 
 rem Development Environment
-set GHIDRA_HOME=%_REALPATH%..\..\..\..
+set "GHIDRA_HOME=%_REALPATH%..\..\..\.."
-set WRAPPER_CONF=%_REALPATH%..\..\Common\server\server.conf
+set "WRAPPER_CONF=%_REALPATH%..\..\Common\server\server.conf"
-set DATA_DIR=%GHIDRA_HOME%\%MODULE_DIR%\build\data
+set "DATA_DIR=%GHIDRA_HOME%\%MODULE_DIR%\build\data"
-set CLASSPATH_FRAG=%GHIDRA_HOME%\%MODULE_DIR%\build\dev-meta\classpath.frag
+set "CLASSPATH_FRAG=%GHIDRA_HOME%\%MODULE_DIR%\build\dev-meta\classpath.frag"
-set LS_CPATH=%GHIDRA_HOME%\GhidraBuild\LaunchSupport\bin\main
+set "LS_CPATH=%GHIDRA_HOME%\GhidraBuild\LaunchSupport\bin\main"
 
 goto lab1
 
 :normal
-set GHIDRA_HOME=%_REALPATH%..
+set "GHIDRA_HOME=%_REALPATH%.."
-set WRAPPER_CONF=%_REALPATH%server.conf
+set "WRAPPER_CONF=%_REALPATH%server.conf"
-set DATA_DIR=%GHIDRA_HOME%\%MODULE_DIR%\data
+set "DATA_DIR=%GHIDRA_HOME%\%MODULE_DIR%\data"
-set CLASSPATH_FRAG=%GHIDRA_HOME%\%MODULE_DIR%\data\classpath.frag
+set "CLASSPATH_FRAG=%GHIDRA_HOME%\%MODULE_DIR%\data\classpath.frag"
-set LS_CPATH=%GHIDRA_HOME%\support\LaunchSupport.jar
+set "LS_CPATH=%GHIDRA_HOME%\support\LaunchSupport.jar"
 
 :lab1
 
 rem set WRAPPER_HOME to unpacked yajsw location (crazy FOR syntax to set variable from command output)
 for /F "usebackq delims=" %%p in (`dir "%DATA_DIR%" /ad /b ^| findstr "^%WRAPPER_NAME_PREFIX%"`) do set WRAPPER_DIRNAME=%%p
-set WRAPPER_HOME=%DATA_DIR%\%WRAPPER_DIRNAME%
+set "WRAPPER_HOME=%DATA_DIR%\%WRAPPER_DIRNAME%"
 
 if not exist "%WRAPPER_HOME%\" (
 	echo.
@@ -104,8 +104,7 @@ set ERROR=ERROR: JAVA_HOME is not set and no 'java' command could be found in yo
 goto reportError
 
 :findJavaFromJavaHome
-set JAVA_HOME=%JAVA_HOME:"=%
+set "JAVA=%JAVA_HOME%\bin\java.exe"
-set JAVA=%JAVA_HOME%\bin\java.exe
 
 if exist "%JAVA%" goto lab2
 set ERROR=ERROR: JAVA_HOME is set to an invalid directory: %JAVA_HOME%
@@ -122,15 +121,7 @@ if "%JAVA_HOME%" == "" (
 )
 
 rem reestablish JAVA path based upon final JAVA_HOME
-set JAVA=%JAVA_HOME%\bin\java.exe
+set "JAVA=%JAVA_HOME%\bin\java.exe"
-
-set OS_NAME=win32
-"%JAVA%" -version 2>&1 | findstr /I " 64-Bit " >NUL
-if errorlevel 0 (
-	set OS_NAME=win64
-)
-
-set OS_DIR=%GHIDRA_HOME%\%MODULE_DIR%\os\%OS_NAME%
 
 :: set DEBUG=-Xdebug -Xnoagent -Djava.compiler=NONE -Xrunjdwp:transport=dt_socket,server=y,suspend=y,address=*:18888
 

Ghidra/RuntimeScripts/Windows/server/svrAdmin.bat

@@ -31,18 +31,18 @@ set MAXMEM=128M
 :: '% ~' dereferences the value in param 0
 :: 'd' - drive
 :: 'p' - path (without filename)
-set SCRIPT_DIR=%~dp0
+set "SCRIPT_DIR=%~dp0"
 
 :: Production Environment
-set CONFIG=%SCRIPT_DIR%.\server.conf
+set "CONFIG=%SCRIPT_DIR%.\server.conf"
 
 if exist "%CONFIG%" goto continue
 
 :: Development Environment
-set CONFIG=%SCRIPT_DIR%..\..\Common\server\server.conf
+set "CONFIG=%SCRIPT_DIR%..\..\Common\server\server.conf"
 
 :continue
 
-set VMARGS=-DUserAdmin.invocation="%0" -DUserAdmin.config="%CONFIG%"
+set VMARGS=-DUserAdmin.invocation=%~n0
 
-call "%~dp0\..\support\launch.bat" fg svrAdmin "%MAXMEM%" "%VMARGS%" ghidra.server.ServerAdmin %*
+call "%~dp0\..\support\launch.bat" fg svrAdmin "%MAXMEM%" "%VMARGS%" ghidra.server.ServerAdmin "%CONFIG%" %*

Ghidra/RuntimeScripts/Windows/server/svrInstall.bat

@@ -3,7 +3,7 @@ setlocal
 
 rem Find the script directory
 rem %~dsp0 is location of current script under NT
-set _REALPATH=%~dp0
+set "_REALPATH=%~dp0"
 
 call "%_REALPATH%\ghidraSvr" install
 

Ghidra/RuntimeScripts/Windows/server/svrUninstall.bat

@@ -3,7 +3,7 @@ setlocal
 
 rem Find the script directory
 rem %~dsp0 is location of current script under NT
-set _REALPATH=%~dp0
+set "_REALPATH=%~dp0"
 
 call "%_REALPATH%\ghidraSvr" uninstall
 

Ghidra/RuntimeScripts/Windows/support/analyzeHeadless.bat

@@ -24,7 +24,7 @@ set VMARG_LIST=-XX:ParallelGCThreads=2
 set VMARG_LIST=%VMARG_LIST% -XX:CICompilerCount=2
 
 :: store current path
-set filepath=%~dp0
+set "filepath=%~dp0"
 
 :: Loop through parameters (if there aren't any, just continue) and store
 ::   in params variable.

Ghidra/RuntimeScripts/Windows/support/buildGhidraJar.bat

@@ -8,9 +8,9 @@ setlocal
 set LAUNCH_MODE=fg
 
 :: Sets SCRIPT_DIR to the directory that contains this file (ends with '\')
-set SCRIPT_DIR=%~dp0
+set "SCRIPT_DIR=%~dp0"
 
-set GHIDRA_ROOT_DIR=%SCRIPT_DIR%..\Ghidra
+set "GHIDRA_ROOT_DIR=%SCRIPT_DIR%..\Ghidra"
 if exist "%GHIDRA_ROOT_DIR%" goto continue
 
 echo This script does not support development mode use
@@ -18,6 +18,6 @@ exit /B 1
 
 :continue
 
-set APP_VMARGS=-DGhidraJarBuilder.Name=%0 -DGhidra.Install.Root.Dir=%GHIDRA_ROOT_DIR%
+set APP_VMARGS=-DGhidraJarBuilder.Name=%~n0
 
 call "%~dp0launch.bat" %LAUNCH_MODE% Ghidra "" "%APP_VMARGS%" ghidra.util.GhidraJarBuilder -main ghidra.JarRun %*

Ghidra/RuntimeScripts/Windows/support/createPdbXmlFiles.bat

@@ -11,16 +11,16 @@
 setlocal
 
 REM Get parent of current folder
-set SCRIPT_DIR=%~dp0
+set "SCRIPT_DIR=%~dp0"
 
-set GHIDRA_DIR=%SCRIPT_DIR%..\Ghidra
+set "GHIDRA_DIR=%SCRIPT_DIR%..\Ghidra"
 set OS_DIR=os
 
 REM Production Environment
 if exist "%GHIDRA_DIR%" goto continue
 
 REM Development Environment
-set GHIDRA_DIR=%SCRIPT_DIR%..\..\..
+set "GHIDRA_DIR=%SCRIPT_DIR%..\..\.."
 set OS_DIR=build\os
 
 :continue
@@ -35,7 +35,7 @@ if exist "%PROGRAMFILES(X86)%" (
 	set OS_TYPE=win32
 )
 
-set PDB_EXE=%GHIDRA_DIR%\Features\PDB\%OS_DIR%\%OS_TYPE%\pdb.exe
+set "PDB_EXE=%GHIDRA_DIR%\Features\PDB\%OS_DIR%\%OS_TYPE%\pdb.exe"
 
 if not exist "%PDB_EXE%" (
 	echo "%PDB_EXE% not found"

Ghidra/RuntimeScripts/Windows/support/launch.bat

@@ -36,7 +36,7 @@ for /f "tokens=2" %%# in ("%cmdcmdline%") do if /i "%%#" equ "/c" set DOUBLE_CLI
 :: '% ~' dereferences the value in param 0
 :: 'd' - drive
 :: 'p' - path (without filename)
-set SUPPORT_DIR=%~dp0
+set "SUPPORT_DIR=%~dp0"
 
 ::
 :: Parse arguments
@@ -63,20 +63,20 @@ goto showUsage
 ::
 :: Production Environment
 ::
-set INSTALL_DIR=%SUPPORT_DIR%..\
+set "INSTALL_DIR=%SUPPORT_DIR%..\"
-set CPATH=%INSTALL_DIR%Ghidra\Framework\Utility\lib\Utility.jar
+set "CPATH=%INSTALL_DIR%Ghidra\Framework\Utility\lib\Utility.jar"
-set LS_CPATH=%SUPPORT_DIR%LaunchSupport.jar
+set "LS_CPATH=%SUPPORT_DIR%LaunchSupport.jar"
-set DEBUG_LOG4J=%SUPPORT_DIR%debug.log4j.xml
+set "DEBUG_LOG4J=%SUPPORT_DIR%debug.log4j.xml"
 
 if exist "%INSTALL_DIR%Ghidra" goto continue2
 
 ::
 :: Development Environment
 ::
-set INSTALL_DIR=%INSTALL_DIR%..\..\..\
+set "INSTALL_DIR=%INSTALL_DIR%..\..\..\"
-set CPATH=%INSTALL_DIR%Ghidra\Framework\Utility\bin\main
+set "CPATH=%INSTALL_DIR%Ghidra\Framework\Utility\bin\main"
-set LS_CPATH=%INSTALL_DIR%GhidraBuild\LaunchSupport\bin\main
+set "LS_CPATH=%INSTALL_DIR%GhidraBuild\LaunchSupport\bin\main"
-set DEBUG_LOG4J=%INSTALL_DIR%Ghidra\RuntimeScripts\Common\support\debug.log4j.xml
+set "DEBUG_LOG4J=%INSTALL_DIR%Ghidra\RuntimeScripts\Common\support\debug.log4j.xml"
 
 :continue2
 
@@ -108,7 +108,7 @@ if "%JAVA_HOME%" == "" (
 		goto exit1
 	)
 )
-set JAVA_CMD=%JAVA_HOME%\bin\java
+set "JAVA_CMD=%JAVA_HOME%\bin\java"
 
 :: Get the configurable VM arguments from the launch properties
 for /f "delims=*" %%i in ('java -cp "%LS_CPATH%" LaunchSupport "%INSTALL_DIR%\" -vmargs') do set VMARG_LIST=%VMARG_LIST% %%i

Ghidra/RuntimeScripts/Windows/support/pythonRun.bat

@@ -26,6 +26,6 @@ set VMARG_LIST=-XX:ParallelGCThreads=2
 set VMARG_LIST=%VMARG_LIST% -XX:CICompilerCount=2
 
 :: store current path
-set filepath=%~dp0
+set "filepath=%~dp0"
 
 call "%filepath%launch.bat" %LAUNCH_MODE% Ghidra-Python "%MAXMEM%" "%VMARG_LIST%" ghidra.python.PythonRun %params%