Интерфейс FileVisitor<T>

    Path start = ...
    Files.walkFileTree(start, new SimpleFileVisitor<Path>() {
        @Override
        public FileVisitResult visitFile(Path file, BasicFileAttributes attrs)
            throws IOException
        {
            Files.delete(file);
            return FileVisitResult.CONTINUE;
        }
        @Override
        public FileVisitResult postVisitDirectory(Path dir, IOException e)
            throws IOException
        {
            if (e == null) {
                Files.delete(dir);
                return FileVisitResult.CONTINUE;
            } else {
                // directory iteration failed
                throw e;
            }
        }
    });

    final Path source = ...
    final Path target = ...

    Files.walkFileTree(source, EnumSet.of(FileVisitOption.FOLLOW_LINKS), Integer.MAX_VALUE,
        new SimpleFileVisitor<Path>() {
            @Override
            public FileVisitResult preVisitDirectory(Path dir, BasicFileAttributes attrs)
                throws IOException
            {
                Path targetdir = target.resolve(source.relativize(dir));
                try {
                    Files.copy(dir, targetdir);
                } catch (FileAlreadyExistsException e) {
                     if (!Files.isDirectory(targetdir))
                         throw e;
                }
                return CONTINUE;
            }
            @Override
            public FileVisitResult visitFile(Path file, BasicFileAttributes attrs)
                throws IOException
            {
                Files.copy(file, target.resolve(source.relativize(file)));
                return CONTINUE;
            }
        });