/* *******************************************************************
 * 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 v1.0 
 * which accompanies this distribution and is available at 
 * http://www.eclipse.org/legal/epl-v10.html 
 *  
 * Contributors: 
 *     Xerox/PARC     initial implementation 
 * ******************************************************************/

package org.aspectj.util;

import java.io.BufferedOutputStream;
import java.io.BufferedReader;
import java.io.ByteArrayOutputStream;
import java.io.DataInputStream;
import java.io.DataOutputStream;
import java.io.File;
import java.io.FileFilter;
import java.io.FileInputStream;
import java.io.FileNotFoundException;
import java.io.FileOutputStream;
import java.io.FileReader;
import java.io.FileWriter;
import java.io.FilenameFilter;
import java.io.IOException;
import java.io.InputStream;
import java.io.OutputStream;
import java.io.PrintStream;
import java.io.Reader;
import java.io.StringReader;
import java.io.Writer;
import java.net.MalformedURLException;
import java.net.URISyntaxException;
import java.net.URL;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.Collections;
import java.util.Iterator;
import java.util.LinkedList;
import java.util.List;
import java.util.zip.ZipEntry;
import java.util.zip.ZipFile;

/**
 * @author Andy Clement
 * @author Kris De Volder
 */
public class FileUtil {
	/** default parent directory File when a file has a null parent */
	public static final File DEFAULT_PARENT = new File("."); // XXX user.dir?

	/** unmodifiable List of String source file suffixes (including leading ".") */
	public static final List<String> SOURCE_SUFFIXES = Collections.unmodifiableList(Arrays.asList(new String[] { ".java", ".aj" }));

	public static final FileFilter ZIP_FILTER = new FileFilter() {
		public boolean accept(File file) {
			return isZipFile(file);
		}

		public String toString() {
			return "ZIP_FILTER";
		}
	};

	// public static final FileFilter SOURCE_FILTER = new FileFilter() {
	// public boolean accept(File file) {
	// return hasSourceSuffix(file);
	// }
	//
	// public String toString() {
	// return "SOURCE_FILTER";
	// }
	// };

	final static int[] INT_RA = new int[0];

	/** accept all files */
	public static final FileFilter ALL = new FileFilter() {
		public boolean accept(File f) {
			return true;
		}
	};
	public static final FileFilter DIRS_AND_WRITABLE_CLASSES = new FileFilter() {
		public boolean accept(File file) {
			return ((null != file) && (file.isDirectory() || (file.canWrite() && file.getName().toLowerCase().endsWith(".class"))));
		}
	};
	private static final boolean PERMIT_CVS;
	static {
		String name = FileUtil.class.getName() + ".PERMIT_CVS";
		PERMIT_CVS = LangUtil.getBoolean(name, false);
	}

	/** @return true if file exists and is a zip file */
	public static boolean isZipFile(File file) {
		try {
			return (null != file) && new ZipFile(file) != null;
		} catch (IOException e) {
			return false;
		}
	}

	/** @return true if path ends with .zip or .jar */
	// public static boolean hasZipSuffix(String path) {
	// return ((null != path) && (0 != zipSuffixLength(path)));
	// }
	/** @return 0 if file has no zip/jar suffix or 4 otherwise */
	public static int zipSuffixLength(File file) {
		return (null == file ? 0 : zipSuffixLength(file.getPath()));
	}

	/** @return 0 if no zip/jar suffix or 4 otherwise */
	public static int zipSuffixLength(String path) {
		if ((null != path) && (4 < path.length())) {
			String test = path.substring(path.length() - 4).toLowerCase();
			if (".zip".equals(test) || ".jar".equals(test)) {
				return 4;
			}
		}
		return 0;
	}

	/** @return true if file path has a source suffix */
	public static boolean hasSourceSuffix(File file) {
		return ((null != file) && hasSourceSuffix(file.getPath()));
	}

	/** @return true if path ends with .java or .aj */
	public static boolean hasSourceSuffix(String path) {
		return ((null != path) && (0 != sourceSuffixLength(path)));
	}

	/**
	 * @return 0 if file has no source suffix or the length of the suffix otherwise
	 */
	public static int sourceSuffixLength(File file) {
		return (null == file ? 0 : sourceSuffixLength(file.getPath()));
	}

	/** @return 0 if no source suffix or the length of the suffix otherwise */
	public static int sourceSuffixLength(String path) {
		if (LangUtil.isEmpty(path)) {
			return 0;
		}

        for (String suffix : SOURCE_SUFFIXES) {
            if (path.endsWith(suffix) || path.toLowerCase().endsWith(suffix)) {
                return suffix.length();
            }
        }
		return 0;
	}

	/** @return true if this is a readable directory */
	public static boolean canReadDir(File dir) {
		return ((null != dir) && dir.canRead() && dir.isDirectory());
	}

	/** @return true if this is a readable file */
	public static boolean canReadFile(File file) {
		return ((null != file) && file.canRead() && file.isFile());
	}

	/** @return true if dir is a writable directory */
	public static boolean canWriteDir(File dir) {
		return ((null != dir) && dir.canWrite() && dir.isDirectory());
	}

	/** @return true if this is a writable file */
	public static boolean canWriteFile(File file) {
		return ((null != file) && file.canWrite() && file.isFile());
	}

	// /**
	// * @throws IllegalArgumentException unless file is readable and not a
	// * directory
	// */
	// public static void throwIaxUnlessCanReadFile(File file, String label) {
	// if (!canReadFile(file)) {
	// throw new IllegalArgumentException(label + " not readable file: " +
	// file);
	// }
	// }

	/**
	 * @throws IllegalArgumentException unless dir is a readable directory
	 */
	public static void throwIaxUnlessCanReadDir(File dir, String label) {
		if (!canReadDir(dir)) {
			throw new IllegalArgumentException(label + " not readable dir: " + dir);
		}
	}

	/**
	 * @throws IllegalArgumentException unless file is readable and not a directory
	 */
	public static void throwIaxUnlessCanWriteFile(File file, String label) {
		if (!canWriteFile(file)) {
			throw new IllegalArgumentException(label + " not writable file: " + file);
		}
	}

	/** @throws IllegalArgumentException unless dir is a readable directory */
	public static void throwIaxUnlessCanWriteDir(File dir, String label) {
		if (!canWriteDir(dir)) {
			throw new IllegalArgumentException(label + " not writable dir: " + dir);
		}
	}

	/** @return array same length as input, with String paths */
	public static String[] getPaths(File[] files) {
		if ((null == files) || (0 == files.length)) {
			return new String[0];
		}
		String[] result = new String[files.length];
		for (int i = 0; i < result.length; i++) {
			if (null != files[i]) {
				result[i] = files[i].getPath();
			}
		}
		return result;
	}

	/** @return array same length as input, with String paths */
	public static String[] getPaths(List<File> files) {
		final int size = (null == files ? 0 : files.size());
		if (0 == size) {
			return new String[0];
		}
		String[] result = new String[size];
		for (int i = 0; i < size; i++) {
			File file = files.get(i);
			if (null != file) {
				result[i] = file.getPath();
			}
		}
		return result;
	}

	/**
	 * Extract the name of a class from the path to its file. If the basedir is null, then the class is assumed to be in the default
	 * package unless the classFile has one of the top-level suffixes { com, org, java, javax } as a parent directory.
	 *
	 * @param basedir the File of the base directory (prefix of classFile)
	 * @param classFile the File of the class to extract the name for
	 * @throws IllegalArgumentException if classFile is null or does not end with ".class" or a non-null basedir is not a prefix of
	 *         classFile
	 */
	public static String fileToClassName(File basedir, File classFile) {
		LangUtil.throwIaxIfNull(classFile, "classFile");
		String classFilePath = normalizedPath(classFile);
		if (!classFilePath.endsWith(".class")) {
			String m = classFile + " does not end with .class";
			throw new IllegalArgumentException(m);
		}
		classFilePath = classFilePath.substring(0, classFilePath.length() - 6);
		if (null != basedir) {
			String basePath = normalizedPath(basedir);
			if (!classFilePath.startsWith(basePath)) {
				String m = classFile + " does not start with " + basedir;
				throw new IllegalArgumentException(m);
			}
			classFilePath = classFilePath.substring(basePath.length() + 1);
		} else {
			final String[] suffixes = new String[] { "com", "org", "java", "javax" };
			boolean found = false;
			for (int i = 0; !found && (i < suffixes.length); i++) {
				int loc = classFilePath.indexOf(suffixes[i] + "/");
				if ((0 == loc) || ((-1 != loc) && ('/' == classFilePath.charAt(loc - 1)))) {
					classFilePath = classFilePath.substring(loc);
					found = true;
				}
			}
			if (!found) {
				int loc = classFilePath.lastIndexOf("/");
				if (-1 != loc) { // treat as default package
					classFilePath = classFilePath.substring(loc + 1);
				}
			}
		}
		return classFilePath.replace('/', '.');
	}

	/**
	 * Normalize path for comparisons by rendering absolute, clipping basedir prefix, trimming and changing '\\' to '/'
	 *
	 * @param file the File with the path to normalize
	 * @param basedir the File for the prefix of the file to normalize - ignored if null
	 * @return "" if null or normalized path otherwise
	 * @throws IllegalArgumentException if basedir is not a prefix of file
	 */
	public static String normalizedPath(File file, File basedir) {
		String filePath = normalizedPath(file);
		if (null != basedir) {
			String basePath = normalizedPath(basedir);
			if (filePath.startsWith(basePath)) {
				filePath = filePath.substring(basePath.length());
				if (filePath.startsWith("/")) {
					filePath = filePath.substring(1);
				}
			}
		}
		return filePath;
	}

	/**
	 * Render a set of files to String as a path by getting absolute paths of each and delimiting with infix.
	 *
	 * @param files the File[] to flatten - may be null or empty
	 * @param infix the String delimiter internally between entries (if null, then use File.pathSeparator). (alias to
	 *        <code>flatten(getAbsolutePaths(files), infix)</code>
	 * @return String with absolute paths to entries in order, delimited with infix
	 */
	public static String flatten(File[] files, String infix) {
		if (LangUtil.isEmpty(files)) {
			return "";
		}
		return flatten(getPaths(files), infix);
	}

	/**
	 * Flatten File[] to String.
	 *
	 * @param files the File[] of paths to flatten - null ignored
	 * @param infix the String infix to use - null treated as File.pathSeparator
	 */
	public static String flatten(String[] paths, String infix) {
		if (null == infix) {
			infix = File.pathSeparator;
		}
		StringBuffer result = new StringBuffer();
		boolean first = true;
        for (String path : paths) {
            if (null == path) {
                continue;
            }
            if (first) {
                first = false;
            }
            else {
                result.append(infix);
            }
            result.append(path);
        }
		return result.toString();
	}

	/**
	 * Normalize path for comparisons by rendering absolute trimming and changing '\\' to '/'
	 *
	 * @return "" if null or normalized path otherwise
	 */
	public static String normalizedPath(File file) {
		return (null == file ? "" : weakNormalize(file.getAbsolutePath()));
	}

	/**
	 * Weakly normalize path for comparisons by trimming and changing '\\' to '/'
	 */
	public static String weakNormalize(String path) {
		if (null != path) {
			path = path.replace('\\', '/').trim();
		}
		return path;
	}

	/**
	 * Get best File for the first-readable path in input paths, treating entries prefixed "sp:" as system property keys. Safe to
	 * call in static initializers.
	 *
	 * @param paths the String[] of paths to check.
	 * @return null if not found, or valid File otherwise
	 */
	public static File getBestFile(String[] paths) {
		if (null == paths) {
			return null;
		}
		File result = null;
		for (int i = 0; (null == result) && (i < paths.length); i++) {
			String path = paths[i];
			if (null == path) {
				continue;
			}
			if (path.startsWith("sp:")) {
				try {
					path = System.getProperty(path.substring(3));
				} catch (Throwable t) {
					path = null;
				}
				if (null == path) {
					continue;
				}
			}
			try {
				File f = new File(path);
				if (f.exists() && f.canRead()) {
					result = FileUtil.getBestFile(f);
				}
			} catch (Throwable t) {
				// swallow
			}
		}
		return result;
	}

	public static File getBestFile(String[] paths, boolean mustBeJar) {
		if (null == paths) {
			return null;
		}
		File result = null;
		for (int i = 0; (null == result) && (i < paths.length); i++) {
			String path = paths[i];
			if (null == path) {
				continue;
			}
			if (path.startsWith("sp:")) {
				try {
					path = System.getProperty(path.substring(3));
				} catch (Throwable t) {
					path = null;
				}
				if (null == path) {
					continue;
				}
			}
			try {
				File f = new File(path);
				
				if (f.exists() && f.canRead()) {
					if (mustBeJar && !f.isDirectory()) {
						result = FileUtil.getBestFile(f);
					}
				}
			} catch (Throwable t) {
				// swallow
			}
		}
		return result;
	}

	/**
	 * Render as best file, canonical or absolute.
	 *
	 * @param file the File to get the best File for (not null)
	 * @return File of the best-available path
	 * @throws IllegalArgumentException if file is null
	 */
	public static File getBestFile(File file) {
		LangUtil.throwIaxIfNull(file, "file");
		if (file.exists()) {
			try {
				return file.getCanonicalFile();
			} catch (IOException e) {
				return file.getAbsoluteFile();
			}
		} else {
			return file;
		}
	}

	/**
	 * Render as best path, canonical or absolute.
	 *
	 * @param file the File to get the path for (not null)
	 * @return String of the best-available path
	 * @throws IllegalArgumentException if file is null
	 */
	public static String getBestPath(File file) {
		LangUtil.throwIaxIfNull(file, "file");
		if (file.exists()) {
			try {
				return file.getCanonicalPath();
			} catch (IOException e) {
				return file.getAbsolutePath();
			}
		} else {
			return file.getPath();
		}
	}

	/** @return array same length as input, with String absolute paths */
	public static String[] getAbsolutePaths(File[] files) {
		if ((null == files) || (0 == files.length)) {
			return new String[0];
		}
		String[] result = new String[files.length];
		for (int i = 0; i < result.length; i++) {
			if (null != files[i]) {
				result[i] = files[i].getAbsolutePath();
			}
		}
		return result;
	}

	/**
	 * Recursively delete the contents of dir, but not the dir itself
	 *
	 * @return the total number of files deleted
	 */
	public static int deleteContents(File dir) {
		return deleteContents(dir, ALL);
	}

	/**
	 * Recursively delete some contents of dir, but not the dir itself. This deletes any subdirectory which is empty after its files
	 * are deleted.
	 *
	 * @return the total number of files deleted
	 */
	public static int deleteContents(File dir, FileFilter filter) {
		return deleteContents(dir, filter, true);
	}

	/**
	 * Recursively delete some contents of dir, but not the dir itself. If deleteEmptyDirs is true, this deletes any subdirectory
	 * which is empty after its files are deleted.
	 *
	 * @param dir the File directory (if a file, the the file is deleted)
	 * @return the total number of files deleted
	 */
	public static int deleteContents(File dir, FileFilter filter,
			boolean deleteEmptyDirs) {
		if (null == dir) {
			throw new IllegalArgumentException("null dir");
		}
		if ((!dir.exists()) || (!dir.canWrite())) {
			return 0;
		}
		if (!dir.isDirectory()) {
			dir.delete();
			return 1;
		}
		String[] fromFiles = dir.list();
		if (fromFiles == null) {
			return 0;
		}
		int result = 0;
        for (String string : fromFiles) {
            File file = new File(dir, string);
            if ((null == filter) || filter.accept(file)) {
                if (file.isDirectory()) {
                    result += deleteContents(file, filter, deleteEmptyDirs);
                    String[] fileContent = file.list();
                    if (deleteEmptyDirs && fileContent != null
                            && 0 == fileContent.length) {
                        file.delete();
                    }
                }
                else {
                    /* boolean ret = */
                    file.delete();
                    result++;
                }
            }
        }
		return result;
	}

	/**
	 * Copy contents of fromDir into toDir
	 *
	 * @param fromDir must exist and be readable
	 * @param toDir must exist or be creatable and be writable
	 * @return the total number of files copied
	 */
	public static int copyDir(File fromDir, File toDir) throws IOException {
		return copyDir(fromDir, toDir, null, null);
	}

	/**
	 * Recursively copy files in fromDir (with any fromSuffix) to toDir, replacing fromSuffix with toSuffix if any. This silently
	 * ignores dirs and files that are not readable but throw IOException for directories that are not writable. This does not clean
	 * out the original contents of toDir. (subdirectories are not renamed per directory rules)
	 *
	 * @param fromSuffix select files with this suffix - select all if null or empty
	 * @param toSuffix replace fromSuffix with toSuffix in the destination file name - ignored if null or empty, appended to name if
	 *        fromSuffix is null or empty
	 * @return the total number of files copied
	 */
	public static int copyDir(File fromDir, File toDir, final String fromSuffix, String toSuffix) throws IOException {
		return copyDir(fromDir, toDir, fromSuffix, toSuffix, (FileFilter) null);
	}

	// /**
	// * Recursively copy files in fromDir (with any fromSuffix) to toDir,
	// * replacing fromSuffix with toSuffix if any, and adding the destination
	// * file to any collector. This silently ignores dirs and files that are
	// not
	// * readable but throw IOException for directories that are not writable.
	// * This does not clean out the original contents of toDir. (subdirectories
	// * are not renamed per directory rules) This calls any delegate
	// * FilenameFilter to collect any selected file.
	// *
	// * @param fromSuffix select files with this suffix - select all if null or
	// * empty
	// * @param toSuffix replace fromSuffix with toSuffix in the destination
	// file
	// * name - ignored if null or empty, appended to name if
	// * fromSuffix is null or empty
	// * @param collector the List sink for destination files - ignored if null
	// * @return the total number of files copied
	// */
	// public static int copyDir(File fromDir, File toDir, final String
	// fromSuffix, final String toSuffix, final List collector)
	// throws IOException {
	// // int before = collector.size();
	// if (null == collector) {
	// return copyDir(fromDir, toDir, fromSuffix, toSuffix);
	// } else {
	// FileFilter collect = new FileFilter() {
	// public boolean accept(File pathname) {
	// return collector.add(pathname);
	// }
	// };
	// return copyDir(fromDir, toDir, fromSuffix, toSuffix, collect);
	// }
	// }

	/**
	 * Recursively copy files in fromDir (with any fromSuffix) to toDir, replacing fromSuffix with toSuffix if any. This silently
	 * ignores dirs and files that are not readable but throw IOException for directories that are not writable. This does not clean
	 * out the original contents of toDir. (subdirectories are not renamed per directory rules) This calls any delegate
	 * FilenameFilter to collect any selected file.
	 *
	 * @param fromSuffix select files with this suffix - select all if null or empty
	 * @param toSuffix replace fromSuffix with toSuffix in the destination file name - ignored if null or empty, appended to name if
	 *        fromSuffix is null or empty
	 * @return the total number of files copied
	 */
	public static int copyDir(File fromDir, File toDir, final String fromSuffix, final String toSuffix, final FileFilter delegate)
			throws IOException {

		if ((null == fromDir) || (!fromDir.canRead())) {
			return 0;
		}
		final boolean haveSuffix = ((null != fromSuffix) && (0 < fromSuffix.length()));
		final int slen = (!haveSuffix ? 0 : fromSuffix.length());

		if (!toDir.exists()) {
			toDir.mkdirs();
		}
		final String[] fromFiles;
		if (!haveSuffix) {
			fromFiles = fromDir.list();
		} else {
			FilenameFilter filter = new FilenameFilter() {
				public boolean accept(File dir, String name) {
					return (new File(dir, name).isDirectory() || (name.endsWith(fromSuffix)));
				}
			};
			fromFiles = fromDir.list(filter);
		}
		int result = 0;
		final int MAX = (null == fromFiles ? 0 : fromFiles.length);
		for (int i = 0; i < MAX; i++) {
			String filename = fromFiles[i];
			File fromFile = new File(fromDir, filename);
			if (fromFile.canRead()) {
				if (fromFile.isDirectory()) {
					result += copyDir(fromFile, new File(toDir, filename), fromSuffix, toSuffix, delegate);
				} else if (fromFile.isFile()) {
					if (haveSuffix) {
						filename = filename.substring(0, filename.length() - slen);
					}
					if (null != toSuffix) {
						filename = filename + toSuffix;
					}
					File targetFile = new File(toDir, filename);
					if ((null == delegate) || delegate.accept(targetFile)) {
						copyFile(fromFile, targetFile);
					}
					result++;
				}
			}
		}
		return result;
	}

	/**
	 * Recursively list files in srcDir.
	 *
	 * @return ArrayList with String paths of File under srcDir (relative to srcDir)
	 */
	public static String[] listFiles(File srcDir) {
		ArrayList<String> result = new ArrayList<String>();
		if ((null != srcDir) && srcDir.canRead()) {
			listFiles(srcDir, null, result);
		}
		return result.toArray(new String[0]);
	}

	public static final FileFilter aspectjSourceFileFilter = new FileFilter() {
		public boolean accept(File pathname) {
			String name = pathname.getName().toLowerCase();
			return name.endsWith(".java") || name.endsWith(".aj");
		}
	};

	/**
	 * Recursively list files in srcDir.
	 *
	 * @return ArrayList with String paths of File under srcDir (relative to srcDir)
	 */
	public static File[] listFiles(File srcDir, FileFilter fileFilter) {
		ArrayList<File> result = new ArrayList<File>();
		if ((null != srcDir) && srcDir.canRead()) {
			listFiles(srcDir, result, fileFilter);
		}
		return result.toArray(new File[result.size()]);
	}

	/**
	 * Recursively list .class files in specified directory
	 *
	 * @return List of File objects
	 */
	public static List<File> listClassFiles(File dir) {
		ArrayList<File> result = new ArrayList<File>();
		if ((null != dir) && dir.canRead()) {
			listClassFiles(dir, result);
		}
		return result;
	}

	/**
	 * Convert String[] paths to File[] as offset of base directory
	 *
	 * @param basedir the non-null File base directory for File to create with paths
	 * @param paths the String[] of paths to create
	 * @return File[] with same length as paths
	 */
	public static File[] getBaseDirFiles(File basedir, String[] paths) {
		return getBaseDirFiles(basedir, paths, (String[]) null);
	}

	/**
	 * Convert String[] paths to File[] as offset of base directory
	 *
	 * @param basedir the non-null File base directory for File to create with paths
	 * @param paths the String[] of paths to create
	 * @param suffixes the String[] of suffixes to limit sources to - ignored if null
	 * @return File[] with same length as paths
	 */
	public static File[] getBaseDirFiles(File basedir, String[] paths, String[] suffixes) {
		LangUtil.throwIaxIfNull(basedir, "basedir");
		LangUtil.throwIaxIfNull(paths, "paths");
		File[] result = null;
		if (!LangUtil.isEmpty(suffixes)) {
			ArrayList<File> list = new ArrayList<File>();
            for (String path : paths) {
                for (String suffix : suffixes) {
                    if (path.endsWith(suffix)) {
                        list.add(new File(basedir, path));
                        break;
                    }
                }
            }
			result = list.toArray(new File[0]);
		} else {
			result = new File[paths.length];
			for (int i = 0; i < result.length; i++) {
				result[i] = newFile(basedir, paths[i]);
			}
		}
		return result;
	}

	/**
	 * Create a new File, resolving paths ".." and "." specially.
	 *
	 * @param dir the File for the parent directory of the file
	 * @param path the path in the parent directory (filename only?)
	 * @return File for the new file.
	 */
	private static File newFile(File dir, String path) {
		if (".".equals(path)) {
			return dir;
		} else if ("..".equals(path)) {
			File parentDir = dir.getParentFile();
			if (null != parentDir) {
				return parentDir;
			} else {
				return new File(dir, "..");
			}
		} else {
			return new File(dir, path);
		}
	}

	/**
	 * Copy files from source dir into destination directory, creating any needed directories. This differs from copyDir in not
	 * being recursive; each input with the source dir creates a full path. However, if the source is a directory, it is copied as
	 * such.
	 *
	 * @param srcDir an existing, readable directory containing relativePaths files
	 * @param relativePaths a set of paths relative to srcDir to readable File to copy
	 * @param destDir an existing, writable directory to copy files to
	 * @throws IllegalArgumentException if input invalid, IOException if operations fail
	 */
	public static File[] copyFiles(File srcDir, String[] relativePaths, File destDir) throws IllegalArgumentException, IOException {
		final String[] paths = relativePaths;
		throwIaxUnlessCanReadDir(srcDir, "srcDir");
		throwIaxUnlessCanWriteDir(destDir, "destDir");
		LangUtil.throwIaxIfNull(paths, "relativePaths");
		File[] result = new File[paths.length];
		for (int i = 0; i < paths.length; i++) {
			String path = paths[i];
			LangUtil.throwIaxIfNull(path, "relativePaths-entry");
			File src = newFile(srcDir, paths[i]);
			File dest = newFile(destDir, path);
			File destParent = dest.getParentFile();
			if (!destParent.exists()) {
				destParent.mkdirs();
			}
			LangUtil.throwIaxIfFalse(canWriteDir(destParent), "dest-entry-parent");
			copyFile(src, dest); // both file-dir and dir-dir copies
			result[i] = dest;
		}
		return result;
	}

	/**
	 * Copy fromFile to toFile, handling file-file, dir-dir, and file-dir copies.
	 *
	 * @param fromFile the File path of the file or directory to copy - must be readable
	 * @param toFile the File path of the target file or directory - must be writable (will be created if it does not exist)
	 */
	public static void copyFile(File fromFile, File toFile) throws IOException {
		LangUtil.throwIaxIfNull(fromFile, "fromFile");
		LangUtil.throwIaxIfNull(toFile, "toFile");
		LangUtil.throwIaxIfFalse(!toFile.equals(fromFile), "same file");
		if (toFile.isDirectory()) { // existing directory
			throwIaxUnlessCanWriteDir(toFile, "toFile");
			if (fromFile.isFile()) { // file-dir
				File targFile = new File(toFile, fromFile.getName());
				copyValidFiles(fromFile, targFile);
			} else if (fromFile.isDirectory()) { // dir-dir
				copyDir(fromFile, toFile);
			} else {
				LangUtil.throwIaxIfFalse(false, "not dir or file: " + fromFile);
			}
		} else if (toFile.isFile()) { // target file exists
			if (fromFile.isDirectory()) {
				LangUtil.throwIaxIfFalse(false, "can't copy to file dir: " + fromFile);
			}
			copyValidFiles(fromFile, toFile); // file-file
		} else { // target file is a non-existent path -- could be file or dir
			/* File toFileParent = */ensureParentWritable(toFile);
			if (fromFile.isFile()) {
				copyValidFiles(fromFile, toFile);
			} else if (fromFile.isDirectory()) {
				toFile.mkdirs();
				throwIaxUnlessCanWriteDir(toFile, "toFile");
				copyDir(fromFile, toFile);
			} else {
				LangUtil.throwIaxIfFalse(false, "not dir or file: " + fromFile);
			}
		}
	}

	/**
	 * Ensure that the parent directory to path can be written. If the path has a null parent, DEFAULT_PARENT is tested. If the path
	 * parent does not exist, this tries to create it.
	 *
	 * @param path the File path whose parent should be writable
	 * @return the File path of the writable parent directory
	 * @throws IllegalArgumentException if parent cannot be written or path is null.
	 */
	public static File ensureParentWritable(File path) {
		LangUtil.throwIaxIfNull(path, "path");
		File pathParent = path.getParentFile();
		if (null == pathParent) {
			pathParent = DEFAULT_PARENT;
		}
		if (!pathParent.canWrite()) {
			pathParent.mkdirs();
		}
		throwIaxUnlessCanWriteDir(pathParent, "pathParent");
		return pathParent;
	}

	/**
	 * Copy file to file.
	 *
	 * @param fromFile the File to copy (readable, non-null file)
	 * @param toFile the File to copy to (non-null, parent dir exists)
	 * @throws IOException
	 */
	public static void copyValidFiles(File fromFile, File toFile) throws IOException {
		FileInputStream in = null;
		FileOutputStream out = null;
		try {
			in = new FileInputStream(fromFile);
			out = new FileOutputStream(toFile);
			copyStream(in, out);
		} finally {
			if (out != null) {
				out.close();
			}
			if (in != null) {
				in.close();
			}
		}
	}

	/** do line-based copying */
	@SuppressWarnings("deprecation")
	public static void copyStream(DataInputStream in, PrintStream out) throws IOException {
		LangUtil.throwIaxIfNull(in, "in");
		LangUtil.throwIaxIfNull(in, "out");
		String s;
		while (null != (s = in.readLine())) {
			out.println(s);
		}
	}

	public static void copyStream(InputStream in, OutputStream out) throws IOException {
		final int MAX = 4096;
		byte[] buf = new byte[MAX];
		for (int bytesRead = in.read(buf, 0, MAX); bytesRead != -1; bytesRead = in.read(buf, 0, MAX)) {
			out.write(buf, 0, bytesRead);
		}
	}

	public static void copyStream(Reader in, Writer out) throws IOException {
		final int MAX = 4096;
		char[] buf = new char[MAX];
		for (int bytesRead = in.read(buf, 0, MAX); bytesRead != -1; bytesRead = in.read(buf, 0, MAX)) {
			out.write(buf, 0, bytesRead);
		}
	}

	/**
	 * Make a new child directory of parent
	 *
	 * @param parent a File for the parent (writable)
	 * @param child a prefix for the child directory
	 * @return a File dir that exists with parentDir as the parent file or null
	 */
	public static File makeNewChildDir(File parent, String child) {
		if (null == parent || !parent.canWrite() || !parent.isDirectory()) {
			throw new IllegalArgumentException("bad parent: " + parent);
		} else if (null == child) {
			child = "makeNewChildDir";
		} else if (!isValidFileName(child)) {
			throw new IllegalArgumentException("bad child: " + child);
		}
		File result = new File(parent, child);
		int safety = 1000;
		for (String suffix = FileUtil.randomFileString(); ((0 < --safety) && result.exists()); suffix = FileUtil.randomFileString()) {
			result = new File(parent, child + suffix);
		}
		if (result.exists()) {
			System.err.println("exhausted files for child dir in " + parent);
			return null;
		}
		return ((result.mkdirs() && result.exists()) ? result : null);
	}

	/**
	 * Make a new temporary directory in the same directory that the system uses for temporary files, or if that files, in the
	 * current directory.
	 *
	 * @param name the preferred (simple) name of the directory - may be null.
	 * @return File of an existing new temp dir, or null if unable to create
	 */
	public static File getTempDir(String name) {
		if (null == name) {
			name = "FileUtil_getTempDir";
		} else if (!isValidFileName(name)) {
			throw new IllegalArgumentException(" invalid: " + name);
		}
		File result = null;
		File tempFile = null;
		try {
			tempFile = File.createTempFile("ignoreMe", ".txt");
			File tempParent = tempFile.getParentFile();
			result = makeNewChildDir(tempParent, name);
		} catch (IOException t) {
			result = makeNewChildDir(new File("."), name);
		} finally {
			if (null != tempFile) {
				tempFile.delete();
			}
		}
		return result;
	}

	public static URL[] getFileURLs(File[] files) {
		if ((null == files) || (0 == files.length)) {
			return new URL[0];
		}
		URL[] result = new URL[files.length]; // XXX dangerous non-copy...
		for (int i = 0; i < result.length; i++) {
			result[i] = getFileURL(files[i]);
		}
		return result;
	}

	/**
	 * Get URL for a File. This appends "/" for directories. prints errors to System.err
	 *
	 * @param file the File to convert to URL (not null)
	 */
	@SuppressWarnings("deprecation")
	public static URL getFileURL(File file) {
		LangUtil.throwIaxIfNull(file, "file");
		URL result = null;
		try {
			result = file.toURL();// TODO AV - was toURI.toURL that does not
			// works on Java 1.3
			if (null != result) {
				return result;
			}
			String url = "file:" + file.getAbsolutePath().replace('\\', '/');
			result = new URL(url + (file.isDirectory() ? "/" : ""));
		} catch (MalformedURLException e) {
			String m = "Util.makeURL(\"" + file.getPath() + "\" MUE " + e.getMessage();
			System.err.println(m);
		}
		return result;
	}

	/**
	 * Write contents to file, returning null on success or error message otherwise. This tries to make any necessary parent
	 * directories first.
	 *
	 * @param file the File to write (not null)
	 * @param contents the String to write (use "" if null)
	 * @return String null on no error, error otherwise
	 */
	public static String writeAsString(File file, String contents) {
		LangUtil.throwIaxIfNull(file, "file");
		if (null == contents) {
			contents = "";
		}
		Writer out = null;
		try {
			File parentDir = file.getParentFile();
			if (!parentDir.exists() && !parentDir.mkdirs()) {
				return "unable to make parent dir for " + file;
			}
			Reader in = new StringReader(contents);
			out = new FileWriter(file);
			FileUtil.copyStream(in, out);
			return null;
		} catch (IOException e) {
			return LangUtil.unqualifiedClassName(e) + " writing " + file + ": " + e.getMessage();
		} finally {
			if (null != out) {
				try {
					out.close();
				} catch (IOException e) {
				} // ignored
			}
		}
	}

	/**
	 * Reads a boolean array with our encoding
	 */
	public static boolean[] readBooleanArray(DataInputStream s) throws IOException {
		int len = s.readInt();
		boolean[] ret = new boolean[len];
		for (int i = 0; i < len; i++) {
			ret[i] = s.readBoolean();
		}
		return ret;
	}

	/**
	 * Writes a boolean array with our encoding
	 */
	public static void writeBooleanArray(boolean[] a, DataOutputStream s) throws IOException {
		int len = a.length;
		s.writeInt(len);
        for (boolean b : a) {
            s.writeBoolean(b);
        }
	}

	/**
	 * Reads an int array with our encoding
	 */
	public static int[] readIntArray(DataInputStream s) throws IOException {
		int len = s.readInt();
		int[] ret = new int[len];
		for (int i = 0; i < len; i++) {
			ret[i] = s.readInt();
		}
		return ret;
	}

	/**
	 * Writes an int array with our encoding
	 */
	public static void writeIntArray(int[] a, DataOutputStream s) throws IOException {
		int len = a.length;
		s.writeInt(len);
        for (int j : a) {
            s.writeInt(j);
        }
	}

	/**
	 * Reads an int array with our encoding
	 */
	public static String[] readStringArray(DataInputStream s) throws IOException {
		int len = s.readInt();
		String[] ret = new String[len];
		for (int i = 0; i < len; i++) {
			ret[i] = s.readUTF();
		}
		return ret;
	}

	/**
	 * Writes an int array with our encoding
	 */
	public static void writeStringArray(String[] a, DataOutputStream s) throws IOException {
		if (a == null) {
			s.writeInt(0);
			return;
		}
		int len = a.length;
		s.writeInt(len);
        for (String value : a) {
            s.writeUTF(value);
        }
	}

	/**
	 * Returns the contents of this file as a String
	 */
	public static String readAsString(File file) throws IOException {
		BufferedReader r = new BufferedReader(new FileReader(file));
		StringBuffer b = new StringBuffer();
		while (true) {
			int ch = r.read();
			if (ch == -1) {
				break;
			}
			b.append((char) ch);
		}
		r.close();
		return b.toString();
	}

	// /**
	// * Returns the contents of this stream as a String
	// */
	// public static String readAsString(InputStream in) throws IOException {
	// BufferedReader r = new BufferedReader(new InputStreamReader(in));
	// StringBuffer b = new StringBuffer();
	// while (true) {
	// int ch = r.read();
	// if (ch == -1)
	// break;
	// b.append((char) ch);
	// }
	// in.close();
	// r.close();
	// return b.toString();
	// }

	/**
	 * Returns the contents of this file as a byte[]
	 */
	public static byte[] readAsByteArray(File file) throws IOException {
		FileInputStream in = new FileInputStream(file);
		byte[] ret = FileUtil.readAsByteArray(in);
		in.close();
		return ret;
	}

	/**
	 * Reads this input stream and returns contents as a byte[]
	 */
	public static byte[] readAsByteArray(InputStream inStream) throws IOException {
		int size = 1024;
		byte[] ba = new byte[size];
		int readSoFar = 0;

		while (true) {
			int nRead = inStream.read(ba, readSoFar, size - readSoFar);
			if (nRead == -1) {
				break;
			}
			readSoFar += nRead;
			if (readSoFar == size) {
				int newSize = size * 2;
				byte[] newBa = new byte[newSize];
				System.arraycopy(ba, 0, newBa, 0, size);
				ba = newBa;
				size = newSize;
			}
		}

		byte[] newBa = new byte[readSoFar];
		System.arraycopy(ba, 0, newBa, 0, readSoFar);
		return newBa;
	}

	final static String FILECHARS = "abcdefghijklmnopqrstuvxyzABCDEFGHIJKLMNOPQRSTUVWXYZ0123456789";

	/** @return semi-random String of length 6 usable as filename suffix */
	static String randomFileString() {
		final double FILECHARS_length = FILECHARS.length();
		final int LEN = 6;
		final char[] result = new char[LEN];
		int index = (int) (Math.random() * 6d);
		for (int i = 0; i < LEN; i++) {
			if (index >= LEN) {
				index = 0;
			}
			result[index++] = FILECHARS.charAt((int) (Math.random() * FILECHARS_length));
		}
		return new String(result);
	}

	public static InputStream getStreamFromZip(String zipFile, String name) {
		try {
			ZipFile zf = new ZipFile(zipFile);
			try {
				ZipEntry entry = zf.getEntry(name);
				return zf.getInputStream(entry);
			} finally {
				// ??? is it safe not to close this zf.close();
			}
		} catch (IOException ioe) {
			return null;
		}
	}

	//
	// public static void extractJar(String zipFile, String outDir) throws
	// IOException {
	// ZipInputStream zs = new ZipInputStream(new FileInputStream(zipFile));
	// ZipEntry entry;
	// while ((entry = zs.getNextEntry()) != null) {
	// if (entry.isDirectory())
	// continue;
	// byte[] in = readAsByteArray(zs);
	//
	// File outFile = new File(outDir + "/" + entry.getName());
	// // if (!outFile.getParentFile().exists())
	// // System.err.println("parent: " + outFile.getParentFile());
	// // System.err.println("parent: " + outFile.getParentFile());
	// outFile.getParentFile().mkdirs();
	// FileOutputStream os = new FileOutputStream(outFile);
	// os.write(in);
	// os.close();
	// zs.closeEntry();
	// }
	// zs.close();
	// }

	/**
	 * Do line-based search for literal text in source files, returning file:line where found.
	 *
	 * @param sought the String text to seek in the file
	 * @param sources the List of String paths to the source files
	 * @param listAll if false, only list first match in file
	 * @param errorSink the PrintStream to print any errors to (one per line) (use null to silently ignore errors)
	 * @return List of String of the form file:line for each found entry (never null, might be empty)
	 */
	// OPTIMIZE only used by tests? move it out
	public static List<String> lineSeek(String sought, List<String> sources, boolean listAll, PrintStream errorSink) {
		if (LangUtil.isEmpty(sought) || LangUtil.isEmpty(sources)) {
			return Collections.emptyList();
		}
		ArrayList<String> result = new ArrayList<String>();
        for (String path : sources) {
            String error = lineSeek(sought, path, listAll, result);
            if ((null != error) && (null != errorSink)) {
                errorSink.println(error);
            }
        }
		return result;
	}

	/**
	 * Do line-based search for literal text in source file, returning line where found as a String in the form
	 * {sourcePath}:line:column submitted to the collecting parameter sink. Any error is rendered to String and returned as the
	 * result.
	 *
	 * @param sought the String text to seek in the file
	 * @param sources the List of String paths to the source files
	 * @param listAll if false, only list first match in file
	 * @param List sink the List for String entries of the form {sourcePath}:line:column
	 * @return String error if any, or add String entries to sink
	 */
	public static String lineSeek(String sought, String sourcePath, boolean listAll, ArrayList<String> sink) {
		if (LangUtil.isEmpty(sought) || LangUtil.isEmpty(sourcePath)) {
			return "nothing sought";
		}
		if (LangUtil.isEmpty(sourcePath)) {
			return "no sourcePath";
		}
		final File file = new File(sourcePath);
		if (!file.canRead() || !file.isFile()) {
			return "sourcePath not a readable file";
		}
		int lineNum = 0;
		FileReader fin = null;
		try {
			fin = new FileReader(file);
			BufferedReader reader = new BufferedReader(fin);
			String line;
			while (null != (line = reader.readLine())) {
				lineNum++;
				int loc = line.indexOf(sought);
				if (-1 != loc) {
					sink.add(sourcePath + ":" + lineNum + ":" + loc);
					if (!listAll) {
						break;
					}
				}
			}
		} catch (IOException e) {
			return LangUtil.unqualifiedClassName(e) + " reading " + sourcePath + ":" + lineNum;
		} finally {
			try {
				if (null != fin) {
					fin.close();
				}
			} catch (IOException e) {
			} // ignore
		}
		return null;
	}

	public static BufferedOutputStream makeOutputStream(File file) throws FileNotFoundException {
		File parent = file.getParentFile();
		if (parent != null) {
			parent.mkdirs();
		}
		return new BufferedOutputStream(new FileOutputStream(file));
	}

	/**
	 * Sleep until after the last last-modified stamp from the files.
	 *
	 * @param files the File[] of files to inspect for last modified times (this ignores null or empty files array and null or
	 *        non-existing components of files array)
	 * @return true if succeeded without 100 interrupts
	 */
	public static boolean sleepPastFinalModifiedTime(File[] files) {
		if ((null == files) || (0 == files.length)) {
			return true;
		}
		long delayUntil = System.currentTimeMillis();
        for (File file : files) {
            if ((null == file) || !file.exists()) {
                continue;
            }
            long nextModTime = file.lastModified();
            if (nextModTime > delayUntil) {
                delayUntil = nextModTime;
            }
        }
		return LangUtil.sleepUntil(++delayUntil);
	}

	private static void listClassFiles(final File baseDir, ArrayList<File> result) {
		File[] files = baseDir.listFiles();
        for (File f : files) {
            if (f.isDirectory()) {
                listClassFiles(f, result);
            }
            else {
                if (f.getName().endsWith(".class")) {
                    result.add(f);
                }
            }
        }
	}

	private static void listFiles(final File baseDir, ArrayList<File> result, FileFilter filter) {
		File[] files = baseDir.listFiles();
		// hack https://bugs.eclipse.org/bugs/show_bug.cgi?id=48650
		final boolean skipCVS = (!PERMIT_CVS && (filter == aspectjSourceFileFilter));
        for (File f : files) {
            if (f.isDirectory()) {
                if (skipCVS) {
                    String name = f.getName().toLowerCase();
                    if ("cvs".equals(name) || "sccs".equals(name)) {
                        continue;
                    }
                }
                listFiles(f, result, filter);
            }
            else {
                if (filter.accept(f)) {
                    result.add(f);
                }
            }
        }
	}

	/** @return true if input is not null and contains no path separator */
	private static boolean isValidFileName(String input) {
		return ((null != input) && (!input.contains(File.pathSeparator)));
	}

	private static void listFiles(final File baseDir, String dir, ArrayList<String> result) {
		final String dirPrefix = (null == dir ? "" : dir + "/");
		final File dirFile = (null == dir ? baseDir : new File(baseDir.getPath() + "/" + dir));
		final String[] files = dirFile.list();
        for (String file : files) {
            File f = new File(dirFile, file);
            String path = dirPrefix + file;
            if (f.isDirectory()) {
                listFiles(baseDir, path, result);
            }
            else {
                result.add(path);
            }
        }
	}

	private FileUtil() {
	}

	public static List<String> makeClasspath(URL[] urls) {
		List<String> ret = new LinkedList<String>();
		if (urls != null) {
            for (URL url : urls) {
                ret.add(toPathString(url));
            }
		}
		return ret;
	}

	private static String toPathString(URL url) {
		try {
			return url.toURI().getPath();
		} catch (URISyntaxException e) {
			System.err.println("Warning!! Malformed URL may cause problems: "+url); // TODO: Better way to report this?
			// In this case it was likely not using properly escaped
			// characters so we just use the 'bad' method that doesn't decode
			// special chars
			return url.getPath();
		}
	}

	/**
	 * A pipe when run reads from an input stream to an output stream, optionally sleeping between reads.
	 *
	 * @see #copyStream(InputStream, OutputStream)
	 */
	public static class Pipe implements Runnable {
		private final InputStream in;
		private final OutputStream out;
		private final long sleep;
		private ByteArrayOutputStream snoop;
		private long totalWritten;
		private Throwable thrown;
		private boolean halt;
		/**
		 * Seem to be unable to detect erroroneous closing of System.out...
		 */
		private final boolean closeInput;
		private final boolean closeOutput;

		/**
		 * If true, then continue processing stream until no characters are returned when halting.
		 */
		private boolean finishStream;

		private boolean done; // true after completing() completes

		/**
		 * alias for <code>Pipe(in, out, 100l, false, false)</code>
		 *
		 * @param in the InputStream source to read
		 * @param out the OutputStream sink to write
		 */
		Pipe(InputStream in, OutputStream out) {
			this(in, out, 100l, false, false);
		}

		/**
		 * @param in the InputStream source to read
		 * @param out the OutputStream sink to write
		 * @param tryClosingStreams if true, then try closing both streams when done
		 * @param sleep milliseconds to delay between reads (pinned to 0..1 minute)
		 */
		Pipe(InputStream in, OutputStream out, long sleep, boolean closeInput, boolean closeOutput) {
			LangUtil.throwIaxIfNull(in, "in");
			LangUtil.throwIaxIfNull(out, "out");
			this.in = in;
			this.out = out;
			this.closeInput = closeInput;
			this.closeOutput = closeOutput;
			this.sleep = Math.min(0l, Math.max(60l * 1000l, sleep));
		}

		public void setSnoop(ByteArrayOutputStream snoop) {
			this.snoop = snoop;
		}

		/**
		 * Run the pipe. This halts on the first Throwable thrown or when a read returns -1 (for end-of-file) or on demand.
		 */
		public void run() {
			totalWritten = 0;
			if (halt) {
				return;
			}
			try {
				final int MAX = 4096;
				byte[] buf = new byte[MAX];
				// TODO this blocks, hanging the harness
				int count = in.read(buf, 0, MAX);
				ByteArrayOutputStream mySnoop;
				while ((halt && finishStream && (0 < count)) || (!halt && (-1 != count))) {
					out.write(buf, 0, count);
					mySnoop = snoop;
					if (null != mySnoop) {
						mySnoop.write(buf, 0, count);
					}
					totalWritten += count;
					if (halt && !finishStream) {
						break;
					}
					if (!halt && (0 < sleep)) {
						Thread.sleep(sleep);
					}
					if (halt && !finishStream) {
						break;
					}
					count = in.read(buf, 0, MAX);
				}
			} catch (Throwable e) {
				thrown = e;
			} finally {
				halt = true;
				if (closeInput) {
					try {
						in.close();
					} catch (IOException e) {
						// ignore
					}
				}
				if (closeOutput) {
					try {
						out.close();
					} catch (IOException e) {
						// ignore
					}
				}
				done = true;
				completing(totalWritten, thrown);
			}

		}

		/**
		 * Tell the pipe to halt the next time it gains control.
		 *
		 * @param wait if true, this waits synchronously until pipe is done
		 * @param finishStream if true, then continue until a read from the input stream returns no bytes, then halt.
		 * @return true if <code>run()</code> will return the next time it gains control
		 */
		public boolean halt(boolean wait, boolean finishStream) {
			if (!halt) {
				halt = true;
			}
			if (wait) {
				while (!done) {
					synchronized (this) {
						notifyAll();
					}
					if (!done) {
						try {
							Thread.sleep(5l);
						} catch (InterruptedException e) {
							break;
						}
					}
				}
			}
			return halt;
		}

		/** @return the total number of bytes written */
		public long totalWritten() {
			return totalWritten;
		}

		/** @return any exception thrown when reading/writing */
		public Throwable getThrown() {
			return thrown;
		}

		/**
		 * This is called when the pipe is completing. This implementation does nothing. Subclasses implement this to get notice.
		 * Note that halt(true, true) might or might not have completed before this method is called.
		 */
		protected void completing(long totalWritten, Throwable thrown) {
		}
	}

}