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AspectJ tools most notably contains the AspectJ compiler (AJC). AJC applies aspects to Java classes during compilation, fully replacing Javac for plain Java classes and also compiling native AspectJ or annotation-based @AspectJ syntax. Furthermore, AJC can weave aspects into existing class files in a post-compile binary weaving step. This library is a superset of AspectJ weaver and hence also of AspectJ runtime.

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/* *******************************************************************
 * Copyright (c) 1999-2001 Xerox Corporation,
 *               2002 Palo Alto Research Center, Incorporated (PARC).
 * All rights reserved.
 * This program and the accompanying materials are made available
 * under the terms of the Eclipse Public License v 2.0
 * which accompanies this distribution and is available at
 * https://www.eclipse.org/org/documents/epl-2.0/EPL-2.0.txt
 *
 * Contributors:
 *     Xerox/PARC     initial implementation
 *     Mik Kersten	  port to AspectJ 1.1+ code base
 * ******************************************************************/

package org.aspectj.tools.ajdoc;

import java.io.BufferedReader;
import java.io.File;
import java.io.FileFilter;
import java.io.FileNotFoundException;
import java.io.FileOutputStream;
import java.io.FileReader;
import java.io.FilenameFilter;
import java.io.IOException;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.Collections;
import java.util.Hashtable;
import java.util.LinkedList;
import java.util.List;
import java.util.Locale;
import java.util.StringTokenizer;
import java.util.Vector;

import org.aspectj.asm.AsmManager;
import org.aspectj.bridge.IMessage;
import org.aspectj.bridge.Version;
import org.aspectj.util.FileUtil;
import org.aspectj.util.LangUtil;

/**
 * This is an old implementation of ajdoc that does not use an OO style. However, it does the job, and should serve to evolve a
 * lightweight ajdoc implementation until we can make a properly extended javadoc implementation.
 *
 * @author Mik Kersten
 */
public class Main implements Config {

	private static final String FAIL_MESSAGE = "> compile failed, exiting ajdoc";

	/** Command line options. */
	static Vector options;

	/** Options to pass to ajc. */
	static Vector ajcOptions;

	/** All of the files to be processed by ajdoc. */
	static Vector filenames;

	/** List of files to pass to javadoc. */
	static Vector fileList;

	/** List of packages to pass to javadoc. */
	static Vector packageList;

	/** Default to package visiblity. */
	static String docModifier = "package";

	static Vector sourcepath;

	static boolean verboseMode = false;
	static boolean packageMode = false;
	static boolean authorStandardDocletSwitch = false;
	static boolean versionStandardDocletSwitch = false;
	static File rootDir = null;
	static Hashtable declIDTable = new Hashtable();
	static String docDir = ".";

	private static boolean deleteTempFilesOnExit = true;

	private static boolean aborted = false;
	private static IMessage[] errors;
	private static boolean shownAjdocUsageMessage = false;

	// creating a local variable to enable us to create the ajdocworkingdir
	// in a local sandbox during testing
	private static String outputWorkingDir = Config.WORKING_DIR;

	public static void clearState() {
		options = new Vector<>();
		ajcOptions = new Vector<>();
		filenames = new Vector<>();
		fileList = new Vector<>();
		packageList = new Vector<>();
		docModifier = "package";
		sourcepath = new Vector<>();
		verboseMode = false;
		packageMode = false;
		rootDir = null;
		declIDTable = new Hashtable();
		docDir = ".";
		aborted = false;
		deleteTempFilesOnExit = true;
	}

	public static void main(String[] args) {
		clearState();

		// STEP 1: parse the command line and do other global setup
		sourcepath.addElement("."); // add the current directory to the classapth
		parseCommandLine(args);
		rootDir = getRootDir();
		File[] inputFiles = new File[filenames.size()];
		File[] signatureFiles = new File[filenames.size()];
		try {
			// create the workingdir if it doesn't exist
			if (!(new File(outputWorkingDir).isDirectory())) {
				File dir = new File(outputWorkingDir);
				dir.mkdir();
				if (deleteTempFilesOnExit)
					dir.deleteOnExit();
			}

			for (int i = 0; i < filenames.size(); i++) {
				inputFiles[i] = new File(filenames.elementAt(i));
			}

			// PHASE 0: call ajc
			AsmManager model = callAjc(inputFiles);
			if (CompilerWrapper.hasErrors()) {
				System.out.println(FAIL_MESSAGE);
				aborted = true;
				errors = CompilerWrapper.getErrors();
				return;
			}

			for (int ii = 0; ii < filenames.size(); ii++) {
				signatureFiles[ii] = createSignatureFile(model, inputFiles[ii]);
			}

			// PHASE 1: generate Signature files (Java with DeclIDs and no bodies).
			System.out.println("> Building signature files...");
			try {
				StubFileGenerator.doFiles(model, declIDTable, inputFiles, signatureFiles);
				// Copy package.html and related files over
				packageHTML(model, inputFiles);
			} catch (DocException d) {
				System.err.println(d.getMessage());
				return;
			}

			// PHASE 2: let Javadoc generate HTML (with DeclIDs)
			callJavadoc(signatureFiles);

			// PHASE 3: add AspectDoc specific stuff to the HTML (and remove the DeclIDS).
			decorateHtmlFiles(model, inputFiles);
			System.out.println("> Finished.");
		} catch (Throwable e) {
			handleInternalError(e);
			// TODO: Is this really necessary? Why not just re-throw the exception after logging the error message?
			//       This interrupts tests, making them exit hard, eg. stopping a whole Maven build somewhere in the middle.
			exit(-2);
		}
	}

	/**
	 * Method to copy over any package.html files that may be part of the documentation so that javadoc generates the
	 * package-summary properly.
	 */
	private static void packageHTML(AsmManager model, File[] inputFiles) throws IOException {
		List dirList = new ArrayList<>();
		for (File inputFile : inputFiles) {
			String packageName = StructureUtil.getPackageDeclarationFromFile(model, inputFile);
			// Only copy the package.html file once.
			if (dirList.contains(packageName))
				continue;

			// Check to see if there exist a package.html file for this package.
			String dir = inputFile.getAbsolutePath().substring(0, inputFile.getAbsolutePath().lastIndexOf(File.separator));
			File input = new File(dir + Config.DIR_SEP_CHAR + "package.html");
			File inDir = new File(dir + Config.DIR_SEP_CHAR + "doc-files");
			// If it does not exist lets go to the next package.
			if (!input.exists()) {
				dirList.add(packageName);
				continue;
			}

			String filename = "";
			String docFiles = "";
			if (packageName != null) {
				String pathName = outputWorkingDir + File.separator + packageName.replace('.', File.separatorChar);
				File packageDir = new File(pathName);
				if (!packageDir.exists()) {
					dirList.add(packageName);
					continue;
				}
				packageName = packageName.replace('.', '/'); // !!!
				filename = outputWorkingDir + Config.DIR_SEP_CHAR + packageName + Config.DIR_SEP_CHAR + "package.html";
				docFiles = rootDir.getAbsolutePath() + Config.DIR_SEP_CHAR + packageName + Config.DIR_SEP_CHAR + "doc-files";
			} else {
				filename = outputWorkingDir + Config.DIR_SEP_CHAR + "package.html";
				docFiles = rootDir.getAbsolutePath() + Config.DIR_SEP_CHAR + "doc-files";
			}

			File output = new File(filename);
			FileUtil.copyFile(input, output);// Copy package.html
			// javadoc doesn't do anything with the doc-files folder so
			// we'll just copy it directly to the document location.
			if (!inDir.exists())
				continue;
			File outDir = new File(docFiles);
			System.out.println("> Copying folder " + outDir);
			FileUtil.copyFile(inDir, outDir);// Copy doc-files folder if it exist
		}
	}

	private static AsmManager callAjc(File[] inputFiles) {
		ajcOptions.addElement("-noExit");
		ajcOptions.addElement("-XjavadocsInModel"); // TODO: wrong option to force model gen
		ajcOptions.addElement("-d");
		ajcOptions.addElement(rootDir.getAbsolutePath());
		String[] argsToCompiler = new String[ajcOptions.size() + inputFiles.length];
		int i = 0;
		for (; i < ajcOptions.size(); i++) {
			argsToCompiler[i] = ajcOptions.elementAt(i);
		}
		for (File inputFile : inputFiles) {
			argsToCompiler[i] = inputFile.getAbsolutePath();
			// System.out.println(">> file to ajc: " + inputFiles[j].getAbsolutePath());
			i++;
		}
		System.out.println("> Calling ajc...");
		return CompilerWrapper.executeMain(argsToCompiler);
	}

	private static void callJavadoc(File[] signatureFiles) throws IOException {
		System.out.println("> Calling javadoc...");
		String[] javadocargs = null;

		List files = new ArrayList<>();
		if (packageMode) {
			int numExtraArgs = 2;
			if (authorStandardDocletSwitch)
				numExtraArgs++;
			if (versionStandardDocletSwitch)
				numExtraArgs++;
			javadocargs = new String[numExtraArgs + options.size() + packageList.size() + fileList.size()];
			javadocargs[0] = "-sourcepath";
			javadocargs[1] = outputWorkingDir;
			int argIndex = 2;
			if (authorStandardDocletSwitch) {
				javadocargs[argIndex] = "-author";
				argIndex++;
			}
			if (versionStandardDocletSwitch) {
				javadocargs[argIndex] = "-version";
			}
			// javadocargs[1] = getSourcepathAsString();
			for (int k = 0; k < options.size(); k++) {
				javadocargs[numExtraArgs + k] = options.elementAt(k);
			}
			for (int k = 0; k < packageList.size(); k++) {
				javadocargs[numExtraArgs + options.size() + k] = packageList.elementAt(k);
			}
			for (int k = 0; k < fileList.size(); k++) {
				javadocargs[numExtraArgs + options.size() + packageList.size() + k] = fileList.elementAt(k);
			}
			if (LangUtil.is9VMOrGreater()) {
				options = new Vector<>();
				Collections.addAll(options, javadocargs);
			}
		} else {
			javadocargs = new String[options.size() + signatureFiles.length];
			for (int k = 0; k < options.size(); k++) {
				javadocargs[k] = options.elementAt(k);
			}
			for (int k = 0; k < signatureFiles.length; k++) {
				javadocargs[options.size() + k] = StructureUtil.translateAjPathName(signatureFiles[k].getCanonicalPath());
			}
			for (File signatureFile : signatureFiles) {
				files.add(StructureUtil.translateAjPathName(signatureFile.getCanonicalPath()));
			}
		}
		// Since JDK 20, the javadoc tool renders the surrounding HTML according to the JVM default locale. Section headers
		// such as "Class", "Method Summary" will e.g. in German be named "Klasse", "Methodenübersicht". That would derail
		// ajdoc, because it matches on English headers hard-codedly.
		//
		// The remedy is to temporarily change the JVM default locale while generating javadocs.
		Locale defaultLocale = Locale.getDefault();
		try {
			Locale.setDefault(Locale.ENGLISH);
			if (LangUtil.is9VMOrGreater()) {
				JavadocRunner.callJavadocViaToolProvider(options, files);
			} else {
				JavadocRunner.callJavadoc(javadocargs);
			}
		}
		finally {
			Locale.setDefault(defaultLocale);
		}
	}

	/**
	 * We start with the known HTML files (the ones that correspond directly to the input files.) As we go along, we may learn that
	 * Javadoc split one .java file into multiple .html files to handle inner classes or local classes. The html file decorator
	 * picks that up.
	 */
	private static void decorateHtmlFiles(AsmManager model, File[] inputFiles) throws IOException {
		System.out.println("> Decorating html files...");
		HtmlDecorator.decorateHTMLFromInputFiles(model, declIDTable, rootDir, inputFiles, docModifier);

		System.out.println("> Removing generated tags...");
		removeDeclIDsFromFile("index-all.html", true);
		removeDeclIDsFromFile("serialized-form.html", true);
		if (packageList.size() > 0) {
			for (int p = 0; p < packageList.size(); p++) {
				removeDeclIDsFromFile(packageList.elementAt(p).replace('.', '/') + Config.DIR_SEP_CHAR
						+ "package-summary.html", true);
			}
		} else {
			File[] files = rootDir.listFiles();
			if (files == null) {
				System.err.println("Destination directory is not a directory: " + rootDir.toString());
				return;
			}
			files = FileUtil.listFiles(rootDir, new FileFilter() {
				@Override
				public boolean accept(File f) {
					return f.getName().equals("package-summary.html");
				}
			});
			for (File file : files) {
				removeDeclIDsFromFile(file.getAbsolutePath(), false);
			}
		}
	}

	private static void removeDeclIDsFromFile(String filename, boolean relativePath) {
		// Remove the decl ids from "index-all.html"
		File indexFile;
		if (relativePath) {
			indexFile = new File(docDir + Config.DIR_SEP_CHAR + filename);
		} else {
			indexFile = new File(filename);
		}
		try {
			if (indexFile.exists()) {
				BufferedReader indexFileReader = new BufferedReader(new FileReader(indexFile));
				// StringBuffer greatly reduces the time it takes to remove generated tags
				StringBuilder indexFileBuffer = new StringBuilder((int) indexFile.length());
				String line = indexFileReader.readLine();
				while (line != null) {
					int indexStart = line.indexOf(Config.DECL_ID_STRING);
					int indexEnd = line.indexOf(Config.DECL_ID_TERMINATOR);
					if (indexStart != -1 && indexEnd != -1) {
						line = line.substring(0, indexStart) + line.substring(indexEnd + Config.DECL_ID_TERMINATOR.length());
					}
					indexFileBuffer.append(line);
					line = indexFileReader.readLine();
				}
				FileOutputStream fos = new FileOutputStream(indexFile);
				fos.write(indexFileBuffer.toString().getBytes());

				indexFileReader.close();
				fos.close();
			}
		} catch (IOException ioe) {
			// be siltent
		}
	}

	static Vector getSourcePath() {
		Vector sourcePath = new Vector<>();
		boolean found = false;
		for (int i = 0; i < options.size(); i++) {
			String currOption = options.elementAt(i);
			if (found && !currOption.startsWith("-")) {
				sourcePath.add(currOption);
			}
			if (currOption.equals("-sourcepath")) {
				found = true;
			}
		}
		return sourcePath;
	}

	static File getRootDir() {
		File rootDir = new File(".");
		for (int i = 0; i < options.size(); i++) {
			if (options.elementAt(i).equals("-d")) {
				rootDir = new File(options.elementAt(i + 1));
				if (!rootDir.exists()) {
					rootDir.mkdir();
					// System.out.println( "Destination directory not found: " +
					// (String)options.elementAt(i+1) );
					// System.exit( -1 );
				}
			}
		}
		return rootDir;
	}

	static File createSignatureFile(AsmManager model, File inputFile) throws IOException {
		String packageName = StructureUtil.getPackageDeclarationFromFile(model, inputFile);

		String filename = "";
		if (packageName != null) {
			String pathName = outputWorkingDir + '/' + packageName.replace('.', '/');
			File packageDir = new File(pathName);
			if (!packageDir.exists()) {
				packageDir.mkdirs();
				if (deleteTempFilesOnExit)
					packageDir.deleteOnExit();
			}
			// verifyPackageDirExists(packageName, null);
			packageName = packageName.replace('.', '/'); // !!!
			filename = outputWorkingDir + Config.DIR_SEP_CHAR + packageName + Config.DIR_SEP_CHAR + inputFile.getName();
		} else {
			filename = outputWorkingDir + Config.DIR_SEP_CHAR + inputFile.getName();
		}
		File signatureFile = new File(filename);
		if (deleteTempFilesOnExit)
			signatureFile.deleteOnExit();
		return signatureFile;
	}

	// static void verifyPackageDirExists( String packageName, String offset ) {
	// System.err.println(">>> name: " + packageName + ", offset: " + offset);
	// if ( packageName.indexOf( "." ) != -1 ) {
	// File tempFile = new File("c:/aspectj-test/d1/d2/d3");
	// tempFile.mkdirs();
	// String currPkgDir = packageName.substring( 0, packageName.indexOf( "." ) );
	// String remainingPkg = packageName.substring( packageName.indexOf( "." )+1 );
	// String filePath = null;
	// if ( offset != null ) {
	// filePath = Config.WORKING_DIR + Config.DIR_SEP_CHAR +
	// offset + Config.DIR_SEP_CHAR + currPkgDir ;
	// }
	// else {
	// filePath = Config.WORKING_DIR + Config.DIR_SEP_CHAR + currPkgDir;
	// }
	// File packageDir = new File( filePath );
	// if ( !packageDir.exists() ) {
	// packageDir.mkdir();
	// if (deleteTempFilesOnExit) packageDir.deleteOnExit();
	// }
	// if ( remainingPkg != "" ) {
	// verifyPackageDirExists( remainingPkg, currPkgDir );
	// }
	// }
	// else {
	// String filePath = null;
	// if ( offset != null ) {
	// filePath = Config.WORKING_DIR + Config.DIR_SEP_CHAR + offset + Config.DIR_SEP_CHAR + packageName;
	// }
	// else {
	// filePath = Config.WORKING_DIR + Config.DIR_SEP_CHAR + packageName;
	// }
	// File packageDir = new File( filePath );
	// if ( !packageDir.exists() ) {
	// packageDir.mkdir();
	// if (deleteTempFilesOnExit) packageDir.deleteOnExit();
	// }
	// }
	// }

	/**
	 * Can read Eclipse-generated single-line arg
	 */
	static void parseCommandLine(String[] args) {
		if (args.length == 0) {
			displayHelpAndExit(null);
		} else if (args.length == 1 && args[0].startsWith("@")) {
			String argFile = args[0].substring(1);
			System.out.println("> Using arg file: " + argFile);
			BufferedReader br;
			try {
				br = new BufferedReader(new FileReader(argFile));
				String line = "";
				line = br.readLine();
				StringTokenizer st = new StringTokenizer(line, " ");
				List argList = new ArrayList<>();
				while (st.hasMoreElements()) {
					argList.add(st.nextToken());
				}
				// System.err.println(argList);
				args = new String[argList.size()];
				int counter = 0;
				for (String s : argList) {
					args[counter] = s;
					counter++;
				}
			} catch (FileNotFoundException e) {
				System.err.println("> could not read arg file: " + argFile);
				e.printStackTrace();
			} catch (IOException ioe) {
				System.err.println("> could not read arg file: " + argFile);
				ioe.printStackTrace();
			}
		}
		List vargs = new LinkedList<>(Arrays.asList(args));
		vargs.add("-Xset:minimalModel=false");
		parseArgs(vargs, new File(".")); // !!!

		if (filenames.size() == 0) {
			displayHelpAndExit("ajdoc: No packages or classes specified");
		}
	}

	static void setSourcepath(String arg) {
		sourcepath.clear();
		arg = arg + File.pathSeparator; // makes things easier for ourselves
		StringTokenizer tokenizer = new StringTokenizer(arg, File.pathSeparator);
		while (tokenizer.hasMoreElements()) {
			sourcepath.addElement(tokenizer.nextToken());
		}
	}

	static String getSourcepathAsString() {
		String cPath = "";
		for (int i = 0; i < sourcepath.size(); i++) {
			cPath += sourcepath.elementAt(i) + Config.DIR_SEP_CHAR + outputWorkingDir;
			if (i != sourcepath.size() - 1) {
				cPath += File.pathSeparator;
			}
		}
		return cPath;
	}

	static void parseArgs(List vargs, File currentWorkingDir) {
		boolean addNextAsOption = false;
		boolean addNextAsArgFile = false;
		boolean addNextToAJCOptions = false;
		boolean addNextAsDocDir = false;
		boolean addNextAsClasspath = false;
		boolean ignoreArg = false; // used for discrepancy betwen class/sourcepath in ajc/javadoc
		boolean addNextAsSourcePath = false;
		if (vargs.size() == 0) {
			displayHelpAndExit(null);
		}
		for (Object varg : vargs) {
			String arg = (String) varg;
			ignoreArg = false;
			if (addNextAsDocDir) {
				docDir = arg;
				addNextAsDocDir = false;
			}
			if (addNextAsClasspath) {
				addNextAsClasspath = false;
			}
			if (addNextAsSourcePath) {
				setSourcepath(arg);
				addNextAsSourcePath = false;
				ignoreArg = true;
			}

			if (arg.startsWith("@")) {
				expandAtSignFile(arg.substring(1), currentWorkingDir);
			} else if (arg.equals("-argfile")) {
				addNextAsArgFile = true;
			} else if (addNextAsArgFile) {
				expandAtSignFile(arg, currentWorkingDir);
				addNextAsArgFile = false;
			} else if (arg.equals("-d")) {
				addNextAsOption = true;
				options.addElement(arg);
				addNextAsDocDir = true;
			} else if (arg.equals("-bootclasspath")) {
				addNextAsOption = true;
				addNextToAJCOptions = true;
				options.addElement(arg);
				ajcOptions.addElement(arg);
			} else if (arg.equals("-source")) {
				addNextAsOption = true;
				addNextToAJCOptions = true;
				addNextAsClasspath = true;
				options.addElement(arg);
				ajcOptions.addElement(arg);
			} else if (arg.equals("-classpath")) {
				addNextAsOption = true;
				addNextToAJCOptions = true;
				addNextAsClasspath = true;
				options.addElement(arg);
				ajcOptions.addElement(arg);
			} else if (arg.equals("-encoding")) {
				addNextAsOption = true;
				addNextToAJCOptions = false;
				options.addElement(arg);
			} else if (arg.equals("-docencoding")) {
				addNextAsOption = true;
				addNextToAJCOptions = false;
				options.addElement(arg);
			} else if (arg.equals("-charset")) {
				addNextAsOption = true;
				addNextToAJCOptions = false;
				options.addElement(arg);
			} else if (arg.equals("-sourcepath")) {
				addNextAsSourcePath = true;
				// options.addElement( arg );
				// ajcOptions.addElement( arg );
			} else if (arg.equals("-link")) {
				addNextAsOption = true;
				options.addElement(arg);
			} else if (arg.equals("-bottom")) {
				addNextAsOption = true;
				options.addElement(arg);
			} else if (arg.equals("-windowtitle")) {
				addNextAsOption = true;
				options.addElement(arg);
			} else if (arg.equals("-XajdocDebug")) {
				deleteTempFilesOnExit = false;
			} else if (arg.equals("-use")) {
				System.out.println("> Ignoring unsupported option: -use");
			} else if (arg.equals("-splitindex")) {
				// passed to javadoc
			} else if (arg.startsWith("-") || addNextAsOption || addNextToAJCOptions) {
				if (arg.equals("-private")) {
					docModifier = "private";
				} else if (arg.equals("-package")) {
					docModifier = "package";
				} else if (arg.equals("-protected")) {
					docModifier = "protected";
				} else if (arg.equals("-public")) {
					docModifier = "public";
				} else if (arg.equals("-verbose")) {
					verboseMode = true;
				} else if (arg.equals("-author")) {
					authorStandardDocletSwitch = true;
				} else if (arg.equals("-version")) {
					versionStandardDocletSwitch = true;
				} else if (arg.equals("-v")) {
					System.out.println(getVersion());
					exit(0);
				} else if (arg.equals("-help")) {
					displayHelpAndExit(null);
				} else if (arg.equals("-doclet") || arg.equals("-docletpath")) {
					System.out.println("The doclet and docletpath options are not currently supported    \n"
							+ "since ajdoc makes assumptions about the behavior of the standard \n"
							+ "doclet. If you would find this option useful please email us at: \n"
							+ "                                                                 \n"
							+ "       [email protected]                            \n"
							+ "                                                                 \n");
					exit(0);
				} else if (arg.equals("-nonavbar") || arg.equals("-noindex")) {
					// pass through
					// System.err.println("> ignoring unsupported option: " + arg);
				} else if (addNextToAJCOptions || addNextAsOption) {
					// deal with these two options together even though effectively
					// just falling through if addNextAsOption is true. Otherwise
					// will have to ensure check "addNextToAJCOptions" before
					// "addNextAsOption" so as the options are added to the
					// correct lists.
					if (addNextToAJCOptions) {
						ajcOptions.addElement(arg);
						if (!arg.startsWith("-")) {
							addNextToAJCOptions = false;
						}
						if (!addNextAsOption) {
							continue;
						}
					}
				} else if (arg.startsWith("-")) {
					ajcOptions.addElement(arg);
					addNextToAJCOptions = true;
					continue;
				} else {
					System.err.println("> unrecognized argument: " + arg);
					displayHelpAndExit(null);
				}
				options.addElement(arg);
				addNextAsOption = false;
			} else {
				// check if this is a file or a package
				// System.err.println(">>>>>>>> " + );
				// String entryName = arg.substring(arg.lastIndexOf(File.separator)+1);
				if (FileUtil.hasSourceSuffix(arg) || arg.endsWith(".lst") && arg != null) {
					File f = new File(arg);
					if (f.isAbsolute()) {
						filenames.addElement(arg);
					} else {
						filenames.addElement(currentWorkingDir + Config.DIR_SEP_CHAR + arg);
					}
					fileList.addElement(arg);
				}

				// PACKAGE MODE STUFF
				else if (!ignoreArg) {

					packageMode = true;
					packageList.addElement(arg);
					arg = arg.replace('.', '/'); // !!!

					// do this for every item in the classpath
					for (int c = 0; c < sourcepath.size(); c++) {
						String path = sourcepath.elementAt(c) + Config.DIR_SEP_CHAR + arg;
						File pkg = new File(path);
						if (pkg.isDirectory()) {
							String[] files = pkg.list(new FilenameFilter() {
								@Override
								public boolean accept(File dir, String name) {
									int index1 = name.lastIndexOf(".");
									int index2 = name.length();
									if ((index1 >= 0 && index2 >= 0)
											&& (name.substring(index1, index2).equals(".java") || name.substring(index1, index2)
											.equals(".aj"))) {
										return true;
									} else {
										return false;
									}
								}
							});
							for (String file : files) {
								filenames.addElement(sourcepath.elementAt(c) + Config.DIR_SEP_CHAR + arg
										+ Config.DIR_SEP_CHAR + file);
							}
						} else if (c == sourcepath.size()) { // last element on classpath
							System.out.println("ajdoc: No package, class, or source file " + "found named " + arg + ".");
						} else {
							// didn't find it on that element of the classpath but that's ok
						}
					}
				}
			}
		}
		// set the default visibility as an option to javadoc option
		if (!options.contains("-private") && !options.contains("-package") && !options.contains("-protected")
				&& !options.contains("-public")) {
			options.addElement("-package");
		}
	}

	static void expandAtSignFile(String filename, File currentWorkingDir) {
		List result = new LinkedList<>();

		File atFile = qualifiedFile(filename, currentWorkingDir);
		String atFileParent = atFile.getParent();
		File myWorkingDir = null;
		if (atFileParent != null)
			myWorkingDir = new File(atFileParent);

		try {
			BufferedReader stream = new BufferedReader(new FileReader(atFile));
			String line = null;
			while ((line = stream.readLine()) != null) {
				// strip out any comments of the form # to end of line
				int commentStart = line.indexOf("//");
				if (commentStart != -1) {
					line = line.substring(0, commentStart);
				}

				// remove extra whitespace that might have crept in
				line = line.trim();
				// ignore blank lines
				if (line.length() == 0)
					continue;
				result.add(line);
			}
			stream.close();
		} catch (IOException e) {
			System.err.println("Error while reading the @ file " + atFile.getPath() + ".\n" + e);
			System.exit(-1);
		}

		parseArgs(result, myWorkingDir);
	}

	static File qualifiedFile(String name, File currentWorkingDir) {
		name = name.replace('/', File.separatorChar);
		File file = new File(name);
		if (!file.isAbsolute() && currentWorkingDir != null) {
			file = new File(currentWorkingDir, name);
		}
		return file;
	}

	static void displayHelpAndExit(String message) {
		shownAjdocUsageMessage = true;
		if (message != null) {
			System.err.println(message);
			System.err.println();
			System.err.println(Config.USAGE);
		} else {
			System.out.println(Config.USAGE);
			exit(0);
		}
	}

	static protected void exit(int value) {
		System.out.flush();
		System.err.flush();
		System.exit(value);
	}

	/* This section of code handles errors that occur during compilation */
	static final String internalErrorMessage = "                                                                  \n"
			+ "If this has not already been logged as a bug raised please raise  \n"
			+ "a new AspectJ bug at https://github.com/eclipse/org.aspectj/issues \n"
			+ "including the text below. To make the bug a priority, please also \n"
			+ "include a test program that can reproduce this problem.\n ";

	static public void handleInternalError(Throwable uncaughtThrowable) {
		System.err.println("An internal error occured in ajdoc");
		System.err.println(internalErrorMessage);
		System.err.println(uncaughtThrowable.toString());
		uncaughtThrowable.printStackTrace();
		System.err.println();
	}

	static String getVersion() {
		return "ajdoc version " + Version.getText();
	}

	public static boolean hasAborted() {
		return aborted;
	}

	public static IMessage[] getErrors() {
		return errors;
	}

	public static boolean hasShownAjdocUsageMessage() {
		return shownAjdocUsageMessage;
	}

	/**
	 * Sets the output working dir to be <fullyQualifiedOutputDir>\ajdocworkingdir. Useful in testing to redirect the ajdocworkingdir
	 * to the sandbox
	 */
	public static void setOutputWorkingDir(String fullyQulifiedOutputDir) {
		if (fullyQulifiedOutputDir == null) {
			resetOutputWorkingDir();
		} else {
			outputWorkingDir = fullyQulifiedOutputDir + File.separatorChar + Config.WORKING_DIR;
		}
	}

	/**
	 * Resets the output working dir to be the default which is <the current directory>\ajdocworkingdir
	 */
	public static void resetOutputWorkingDir() {
		outputWorkingDir = Config.WORKING_DIR;
	}
}




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