Example usage for java.nio.charset StandardCharsets UTF_8

List of usage examples for java.nio.charset StandardCharsets UTF_8

Introduction

In this page you can find the example usage for java.nio.charset StandardCharsets UTF_8.

Prototype

Charset UTF_8

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Document

Eight-bit UCS Transformation Format.

Usage

From source file:com.joliciel.jochre.search.JochreSearch.java

/**
 * @param args/*from   ww  w . ja  v a  2  s.  c om*/
 */
public static void main(String[] args) {
    try {
        Map<String, String> argMap = new HashMap<String, String>();

        for (String arg : args) {
            int equalsPos = arg.indexOf('=');
            String argName = arg.substring(0, equalsPos);
            String argValue = arg.substring(equalsPos + 1);
            argMap.put(argName, argValue);
        }

        String command = argMap.get("command");
        argMap.remove("command");

        String logConfigPath = argMap.get("logConfigFile");
        if (logConfigPath != null) {
            argMap.remove("logConfigFile");
            Properties props = new Properties();
            props.load(new FileInputStream(logConfigPath));
            PropertyConfigurator.configure(props);
        }

        LOG.debug("##### Arguments:");
        for (Entry<String, String> arg : argMap.entrySet()) {
            LOG.debug(arg.getKey() + ": " + arg.getValue());
        }

        SearchServiceLocator locator = SearchServiceLocator.getInstance();
        SearchService searchService = locator.getSearchService();

        if (command.equals("buildIndex")) {
            String indexDirPath = argMap.get("indexDir");
            String documentDirPath = argMap.get("documentDir");
            File indexDir = new File(indexDirPath);
            indexDir.mkdirs();
            File documentDir = new File(documentDirPath);

            JochreIndexBuilder builder = searchService.getJochreIndexBuilder(indexDir);
            builder.updateDocument(documentDir);
        } else if (command.equals("updateIndex")) {
            String indexDirPath = argMap.get("indexDir");
            String documentDirPath = argMap.get("documentDir");
            boolean forceUpdate = false;
            if (argMap.containsKey("forceUpdate")) {
                forceUpdate = argMap.get("forceUpdate").equals("true");
            }
            File indexDir = new File(indexDirPath);
            indexDir.mkdirs();
            File documentDir = new File(documentDirPath);

            JochreIndexBuilder builder = searchService.getJochreIndexBuilder(indexDir);
            builder.updateIndex(documentDir, forceUpdate);
        } else if (command.equals("search")) {
            HighlightServiceLocator highlightServiceLocator = HighlightServiceLocator.getInstance(locator);
            HighlightService highlightService = highlightServiceLocator.getHighlightService();

            String indexDirPath = argMap.get("indexDir");
            File indexDir = new File(indexDirPath);
            JochreQuery query = searchService.getJochreQuery(argMap);

            JochreIndexSearcher searcher = searchService.getJochreIndexSearcher(indexDir);
            TopDocs topDocs = searcher.search(query);

            Set<Integer> docIds = new LinkedHashSet<Integer>();
            for (ScoreDoc scoreDoc : topDocs.scoreDocs) {
                docIds.add(scoreDoc.doc);
            }
            Set<String> fields = new HashSet<String>();
            fields.add("text");

            Highlighter highlighter = highlightService.getHighlighter(query, searcher.getIndexSearcher());
            HighlightManager highlightManager = highlightService
                    .getHighlightManager(searcher.getIndexSearcher());
            highlightManager.setDecimalPlaces(query.getDecimalPlaces());
            highlightManager.setMinWeight(0.0);
            highlightManager.setIncludeText(true);
            highlightManager.setIncludeGraphics(true);

            Writer out = new PrintWriter(new OutputStreamWriter(System.out, StandardCharsets.UTF_8));
            if (command.equals("highlight")) {
                highlightManager.highlight(highlighter, docIds, fields, out);
            } else {
                highlightManager.findSnippets(highlighter, docIds, fields, out);
            }
        } else {
            throw new RuntimeException("Unknown command: " + command);
        }
    } catch (RuntimeException e) {
        LogUtils.logError(LOG, e);
        throw e;
    } catch (IOException e) {
        LogUtils.logError(LOG, e);
        throw new RuntimeException(e);
    }
}

From source file:com.ignorelist.kassandra.steam.scraper.TaggerCli.java

/**
 * @param args the command line arguments
 * @throws java.io.IOException/*w w  w .  j a va 2s  . co m*/
 * @throws org.antlr.runtime.RecognitionException
 * @throws org.apache.commons.cli.ParseException
 */
public static void main(String[] args) throws IOException, RecognitionException, ParseException {
    Options options = buildOptions();
    CommandLineParser parser = new DefaultParser();
    CommandLine commandLine;
    try {
        commandLine = parser.parse(options, args);
    } catch (ParseException pe) {
        System.out.println(pe.getMessage());
        System.out.println();
        printHelp(options);
        System.exit(0);
        return;
    }
    if (commandLine.hasOption("h")) {
        printHelp(options);
        System.exit(0);
    }
    final PathResolver pathResolver = new PathResolver();

    Configuration configuration;
    Path configurationFile = pathResolver.findConfiguration();
    if (Files.isRegularFile(configurationFile)) {
        configuration = Configuration.fromPropertiesFile(configurationFile);
    } else {
        configuration = new Configuration();
    }
    configuration = toConfiguration(configuration, commandLine);
    //configuration.toProperties().store(System.err, null);

    if (!Files.isRegularFile(configurationFile)) {
        configuration.writeProperties(configurationFile);
        System.err.println(
                "no configuration file present, write based on CLI options: " + configurationFile.toString());
        configuration.toProperties().store(System.err, null);
    }

    Set<Path> sharedConfigPaths = configuration.getSharedConfigPaths();
    if (sharedConfigPaths.size() > 1 && !commandLine.hasOption("w")) {
        System.err.println("multiple sharedconfig.vdf available:\n" + Joiner.on("\n").join(sharedConfigPaths)
                + "\n, can not write to stdout. Need to specify -w or -f with a single sharedconfig.vdf");
        System.exit(1);
    }

    Tagger.Options taggerOptions = Tagger.Options.fromConfiguration(configuration);

    final String[] removeTagsValues = commandLine.getOptionValues("remove");
    if (null != removeTagsValues) {
        taggerOptions.setRemoveTags(Sets.newHashSet(removeTagsValues));
    }

    Set<TagType> tagTypes = configuration.getTagTypes();
    if (null == tagTypes) {
        System.err.println("no tag types!");
        System.exit(1);
    }

    final boolean printTags = commandLine.hasOption("p");

    final HtmlTagLoader htmlTagLoader = new HtmlTagLoader(pathResolver.findCachePath("html"),
            null == configuration.getCacheExpiryDays() ? 7 : configuration.getCacheExpiryDays());
    final BatchTagLoader tagLoader = new BatchTagLoader(htmlTagLoader, configuration.getDownloadThreads());
    if (true || commandLine.hasOption("v")) {
        tagLoader.registerEventListener(new CliEventLoggerLoaded());
    }
    Tagger tagger = new Tagger(tagLoader);

    if (printTags) {
        Set<String> availableTags = tagger.getAvailableTags(sharedConfigPaths, taggerOptions);
        Joiner.on("\n").appendTo(System.out, availableTags);
    } else {
        for (Path path : sharedConfigPaths) {
            VdfNode tagged = tagger.tag(path, taggerOptions);
            if (commandLine.hasOption("w")) {
                Path backup = path.getParent()
                        .resolve(path.getFileName().toString() + ".bak" + new Date().getTime());
                Files.copy(path, backup, StandardCopyOption.REPLACE_EXISTING);
                System.err.println("backup up " + path + " to " + backup);
                Files.copy(new ByteArrayInputStream(tagged.toPrettyString().getBytes(StandardCharsets.UTF_8)),
                        path, StandardCopyOption.REPLACE_EXISTING);
                try {
                    Files.setPosixFilePermissions(path, SHARED_CONFIG_POSIX_PERMS);
                } catch (Exception e) {
                    System.err.println(e);
                }
                System.err.println("wrote " + path);
            } else {
                System.out.println(tagged.toPrettyString());
                System.err.println("pipe to file and copy to: " + path.toString());
            }
        }
    }
}

From source file:com.akana.demo.freemarker.templatetester.App.java

public static void main(String[] args) {

    final Options options = new Options();

    @SuppressWarnings("static-access")
    Option optionContentType = OptionBuilder.withArgName("content-type").hasArg()
            .withDescription("content type of model").create("content");
    @SuppressWarnings("static-access")
    Option optionUrlPath = OptionBuilder.withArgName("httpRequestLine").hasArg()
            .withDescription("url path and parameters in HTTP Request Line format").create("url");
    @SuppressWarnings("static-access")
    Option optionRootMessageName = OptionBuilder.withArgName("messageName").hasArg()
            .withDescription("root data object name, defaults to 'message'").create("root");
    @SuppressWarnings("static-access")
    Option optionAdditionalMessages = OptionBuilder.withArgName("dataModelPaths")
            .hasArgs(Option.UNLIMITED_VALUES).withDescription("additional message object data sources")
            .create("messages");
    @SuppressWarnings("static-access")
    Option optionDebugMessages = OptionBuilder.hasArg(false)
            .withDescription("Shows debug information about template processing").create("debug");

    Option optionHelp = new Option("help", "print this message");

    options.addOption(optionHelp);//ww w .  j ava2  s.  co m
    options.addOption(optionContentType);
    options.addOption(optionUrlPath);
    options.addOption(optionRootMessageName);
    options.addOption(optionAdditionalMessages);
    options.addOption(optionDebugMessages);

    CommandLineParser parser = new DefaultParser();

    CommandLine cmd;
    try {
        cmd = parser.parse(options, args);

        // Check for help flag
        if (cmd.hasOption("help")) {
            showHelp(options);
            return;
        }

        String[] remainingArguments = cmd.getArgs();
        if (remainingArguments.length < 2) {
            showHelp(options);
            return;
        }
        String ftlPath, dataPath = "none";

        ftlPath = remainingArguments[0];
        dataPath = remainingArguments[1];

        String contentType = "text/xml";
        // Discover content type from file extension
        String ext = FilenameUtils.getExtension(dataPath);
        if (ext.equals("json")) {
            contentType = "json";
        } else if (ext.equals("txt")) {
            contentType = "txt";
        }
        // Override discovered content type
        if (cmd.hasOption("content")) {
            contentType = cmd.getOptionValue("content");
        }
        // Root data model name
        String rootMessageName = "message";
        if (cmd.hasOption("root")) {
            rootMessageName = cmd.getOptionValue("root");
        }
        // Additional data models
        String[] additionalModels = new String[0];
        if (cmd.hasOption("messages")) {
            additionalModels = cmd.getOptionValues("messages");
        }
        // Debug Info
        if (cmd.hasOption("debug")) {
            System.out.println(" Processing ftl   : " + ftlPath);
            System.out.println("   with data model: " + dataPath);
            System.out.println(" with content-type: " + contentType);
            System.out.println(" data model object: " + rootMessageName);
            if (cmd.hasOption("messages")) {
                System.out.println("additional models: " + additionalModels.length);
            }
        }

        Configuration cfg = new Configuration(Configuration.VERSION_2_3_23);
        cfg.setDirectoryForTemplateLoading(new File("."));
        cfg.setDefaultEncoding("UTF-8");
        cfg.setTemplateExceptionHandler(TemplateExceptionHandler.RETHROW_HANDLER);

        /* Create the primary data-model */
        Map<String, Object> message = new HashMap<String, Object>();
        if (contentType.contains("json") || contentType.contains("txt")) {
            message.put("contentAsString",
                    FileUtils.readFileToString(new File(dataPath), StandardCharsets.UTF_8));
        } else {
            message.put("contentAsXml", freemarker.ext.dom.NodeModel.parse(new File(dataPath)));
        }

        if (cmd.hasOption("url")) {
            message.put("getProperty", new AkanaGetProperty(cmd.getOptionValue("url")));
        }

        Map<String, Object> root = new HashMap<String, Object>();
        root.put(rootMessageName, message);
        if (additionalModels.length > 0) {
            for (int i = 0; i < additionalModels.length; i++) {
                Map<String, Object> m = createMessageFromFile(additionalModels[i], contentType);
                root.put("message" + i, m);
            }
        }

        /* Get the template (uses cache internally) */
        Template temp = cfg.getTemplate(ftlPath);

        /* Merge data-model with template */
        Writer out = new OutputStreamWriter(System.out);
        temp.process(root, out);

    } catch (ParseException e) {
        showHelp(options);
        System.exit(1);
    } catch (IOException e) {
        System.out.println("Unable to parse ftl.");
        e.printStackTrace();
    } catch (SAXException e) {
        System.out.println("XML parsing issue.");
        e.printStackTrace();
    } catch (ParserConfigurationException e) {
        System.out.println("Unable to configure parser.");
        e.printStackTrace();
    } catch (TemplateException e) {
        System.out.println("Unable to parse template.");
        e.printStackTrace();
    }

}

From source file:hdfs.MiniHDFS.java

public static void main(String[] args) throws Exception {
    if (args.length != 1 && args.length != 3) {
        throw new IllegalArgumentException(
                "Expected: MiniHDFS <baseDirectory> [<kerberosPrincipal> <kerberosKeytab>], " + "got: "
                        + Arrays.toString(args));
    }//from  ww w.j  a  v  a2 s  .c  o m
    boolean secure = args.length == 3;

    // configure Paths
    Path baseDir = Paths.get(args[0]);
    // hadoop-home/, so logs will not complain
    if (System.getenv("HADOOP_HOME") == null) {
        Path hadoopHome = baseDir.resolve("hadoop-home");
        Files.createDirectories(hadoopHome);
        System.setProperty("hadoop.home.dir", hadoopHome.toAbsolutePath().toString());
    }
    // hdfs-data/, where any data is going
    Path hdfsHome = baseDir.resolve("hdfs-data");

    // configure cluster
    Configuration cfg = new Configuration();
    cfg.set(MiniDFSCluster.HDFS_MINIDFS_BASEDIR, hdfsHome.toAbsolutePath().toString());
    // lower default permission: TODO: needed?
    cfg.set(DFSConfigKeys.DFS_DATANODE_DATA_DIR_PERMISSION_KEY, "766");

    // optionally configure security
    if (secure) {
        String kerberosPrincipal = args[1];
        String keytabFile = args[2];

        cfg.set(CommonConfigurationKeysPublic.HADOOP_SECURITY_AUTHENTICATION, "kerberos");
        cfg.set(CommonConfigurationKeysPublic.HADOOP_SECURITY_AUTHORIZATION, "true");
        cfg.set(DFSConfigKeys.DFS_NAMENODE_KERBEROS_PRINCIPAL_KEY, kerberosPrincipal);
        cfg.set(DFSConfigKeys.DFS_DATANODE_KERBEROS_PRINCIPAL_KEY, kerberosPrincipal);
        cfg.set(DFSConfigKeys.DFS_WEB_AUTHENTICATION_KERBEROS_PRINCIPAL_KEY, kerberosPrincipal);
        cfg.set(DFSConfigKeys.DFS_NAMENODE_KEYTAB_FILE_KEY, keytabFile);
        cfg.set(DFSConfigKeys.DFS_DATANODE_KEYTAB_FILE_KEY, keytabFile);
        cfg.set(DFSConfigKeys.DFS_NAMENODE_ACLS_ENABLED_KEY, "true");
        cfg.set(DFSConfigKeys.DFS_BLOCK_ACCESS_TOKEN_ENABLE_KEY, "true");
        cfg.set(DFSConfigKeys.IGNORE_SECURE_PORTS_FOR_TESTING_KEY, "true");
    }

    UserGroupInformation.setConfiguration(cfg);

    // TODO: remove hardcoded port!
    MiniDFSCluster.Builder builder = new MiniDFSCluster.Builder(cfg);
    if (secure) {
        builder.nameNodePort(9998);
    } else {
        builder.nameNodePort(9999);
    }
    MiniDFSCluster dfs = builder.build();

    // Configure contents of the filesystem
    org.apache.hadoop.fs.Path esUserPath = new org.apache.hadoop.fs.Path("/user/elasticsearch");
    try (FileSystem fs = dfs.getFileSystem()) {

        // Set the elasticsearch user directory up
        fs.mkdirs(esUserPath);
        if (UserGroupInformation.isSecurityEnabled()) {
            List<AclEntry> acls = new ArrayList<>();
            acls.add(new AclEntry.Builder().setType(AclEntryType.USER).setName("elasticsearch")
                    .setPermission(FsAction.ALL).build());
            fs.modifyAclEntries(esUserPath, acls);
        }

        // Install a pre-existing repository into HDFS
        String directoryName = "readonly-repository";
        String archiveName = directoryName + ".tar.gz";
        URL readOnlyRepositoryArchiveURL = MiniHDFS.class.getClassLoader().getResource(archiveName);
        if (readOnlyRepositoryArchiveURL != null) {
            Path tempDirectory = Files.createTempDirectory(MiniHDFS.class.getName());
            File readOnlyRepositoryArchive = tempDirectory.resolve(archiveName).toFile();
            FileUtils.copyURLToFile(readOnlyRepositoryArchiveURL, readOnlyRepositoryArchive);
            FileUtil.unTar(readOnlyRepositoryArchive, tempDirectory.toFile());

            fs.copyFromLocalFile(true, true,
                    new org.apache.hadoop.fs.Path(
                            tempDirectory.resolve(directoryName).toAbsolutePath().toUri()),
                    esUserPath.suffix("/existing/" + directoryName));

            FileUtils.deleteDirectory(tempDirectory.toFile());
        }
    }

    // write our PID file
    Path tmp = Files.createTempFile(baseDir, null, null);
    String pid = ManagementFactory.getRuntimeMXBean().getName().split("@")[0];
    Files.write(tmp, pid.getBytes(StandardCharsets.UTF_8));
    Files.move(tmp, baseDir.resolve(PID_FILE_NAME), StandardCopyOption.ATOMIC_MOVE);

    // write our port file
    tmp = Files.createTempFile(baseDir, null, null);
    Files.write(tmp, Integer.toString(dfs.getNameNodePort()).getBytes(StandardCharsets.UTF_8));
    Files.move(tmp, baseDir.resolve(PORT_FILE_NAME), StandardCopyOption.ATOMIC_MOVE);
}

From source file:net.cyllene.hackerrank.downloader.HackerrankDownloader.java

public static void main(String[] args) {
    // Parse arguments and set up the defaults
    DownloaderSettings.cmd = parseArguments(args);

    if (DownloaderSettings.cmd.hasOption("help")) {
        printHelp();/*w w  w. j a  v  a2 s  .co  m*/
        System.exit(0);
    }

    if (DownloaderSettings.cmd.hasOption("verbose")) {
        DownloaderSettings.beVerbose = true;
    }

    /**
     * Output directory logic:
     * 1) if directory exists, ask for -f option to overwrite, quit with message
     * 2) if -f flag is set, check if user has access to a parent directory
     * 3) if no access, quit with error
     * 4) if everything is OK, remember the path
     */
    String sDesiredPath = DownloaderSettings.outputDir;
    if (DownloaderSettings.cmd.hasOption("directory")) {
        sDesiredPath = DownloaderSettings.cmd.getOptionValue("d", DownloaderSettings.outputDir);
    }
    if (DownloaderSettings.beVerbose) {
        System.out.println("Checking output dir: " + sDesiredPath);
    }
    Path desiredPath = Paths.get(sDesiredPath);
    if (Files.exists(desiredPath) && Files.isDirectory(desiredPath)) {
        if (!DownloaderSettings.cmd.hasOption("f")) {
            System.out.println("I wouldn't like to overwrite existing directory: " + sDesiredPath
                    + ", set the --force flag if you are sure. May lead to data loss, be careful.");
            System.exit(0);
        } else {
            System.out.println(
                    "WARNING!" + System.lineSeparator() + "--force flag is set. Overwriting directory: "
                            + sDesiredPath + System.lineSeparator() + "WARNING!");
        }
    }
    if ((Files.exists(desiredPath) && !Files.isWritable(desiredPath))
            || !Files.isWritable(desiredPath.getParent())) {
        System.err
                .println("Fatal error: " + sDesiredPath + " cannot be created or modified. Check permissions.");
        // TODO: use Exceptions instead of system.exit
        System.exit(1);
    }
    DownloaderSettings.outputDir = sDesiredPath;

    Integer limit = DownloaderSettings.ITEMS_TO_DOWNLOAD;
    if (DownloaderSettings.cmd.hasOption("limit")) {
        try {
            limit = ((Number) DownloaderSettings.cmd.getParsedOptionValue("l")).intValue();
        } catch (ParseException e) {
            System.out.println("Incorrect limit: " + e.getMessage() + System.lineSeparator()
                    + "Using default value: " + limit);
        }
    }

    Integer offset = DownloaderSettings.ITEMS_TO_SKIP;
    if (DownloaderSettings.cmd.hasOption("offset")) {
        try {
            offset = ((Number) DownloaderSettings.cmd.getParsedOptionValue("o")).intValue();
        } catch (ParseException e) {
            System.out.println("Incorrect offset: " + e.getMessage() + " Using default value: " + offset);
        }
    }

    DownloaderCore dc = DownloaderCore.INSTANCE;

    List<HRChallenge> challenges = new LinkedList<>();

    // Download everything first
    Map<String, List<Integer>> structure = null;
    try {
        structure = dc.getStructure(offset, limit);
    } catch (IOException e) {
        System.err.println("Fatal Error: could not get data structure.");
        e.printStackTrace();
        System.exit(1);
    }

    challengesLoop: for (Map.Entry<String, List<Integer>> entry : structure.entrySet()) {
        String challengeSlug = entry.getKey();
        HRChallenge currentChallenge = null;
        try {
            currentChallenge = dc.getChallengeDetails(challengeSlug);
        } catch (IOException e) {
            System.err.println("Error: could not get challenge info for: " + challengeSlug);
            if (DownloaderSettings.beVerbose) {
                e.printStackTrace();
            }
            continue challengesLoop;
        }

        submissionsLoop: for (Integer submissionId : entry.getValue()) {
            HRSubmission submission = null;
            try {
                submission = dc.getSubmissionDetails(submissionId);
            } catch (IOException e) {
                System.err.println("Error: could not get submission info for: " + submissionId);
                if (DownloaderSettings.beVerbose) {
                    e.printStackTrace();
                }
                continue submissionsLoop;
            }

            // TODO: probably should move filtering logic elsewhere(getStructure, maybe)
            if (submission.getStatus().equalsIgnoreCase("Accepted")) {
                currentChallenge.getSubmissions().add(submission);
            }
        }

        challenges.add(currentChallenge);
    }

    // Now dump all data to disk
    try {
        for (HRChallenge currentChallenge : challenges) {
            if (currentChallenge.getSubmissions().isEmpty())
                continue;

            final String sChallengePath = DownloaderSettings.outputDir + "/" + currentChallenge.getSlug();
            final String sSolutionPath = sChallengePath + "/accepted_solutions";
            final String sDescriptionPath = sChallengePath + "/problem_description";

            Files.createDirectories(Paths.get(sDescriptionPath));
            Files.createDirectories(Paths.get(sSolutionPath));

            // FIXME: this should be done the other way
            String plainBody = currentChallenge.getDescriptions().get(0).getBody();
            String sFname;
            if (!plainBody.equals("null")) {
                sFname = sDescriptionPath + "/english.txt";
                if (DownloaderSettings.beVerbose) {
                    System.out.println("Writing to: " + sFname);
                }

                Files.write(Paths.get(sFname), plainBody.getBytes(StandardCharsets.UTF_8.name()));
            }

            String htmlBody = currentChallenge.getDescriptions().get(0).getBodyHTML();
            String temporaryHtmlTemplate = "<html></body>" + htmlBody + "</body></html>";

            sFname = sDescriptionPath + "/english.html";
            if (DownloaderSettings.beVerbose) {
                System.out.println("Writing to: " + sFname);
            }
            Files.write(Paths.get(sFname), temporaryHtmlTemplate.getBytes(StandardCharsets.UTF_8.name()));

            for (HRSubmission submission : currentChallenge.getSubmissions()) {
                sFname = String.format("%s/%d.%s", sSolutionPath, submission.getId(), submission.getLanguage());
                if (DownloaderSettings.beVerbose) {
                    System.out.println("Writing to: " + sFname);
                }

                Files.write(Paths.get(sFname),
                        submission.getSourceCode().getBytes(StandardCharsets.UTF_8.name()));
            }

        }
    } catch (IOException e) {
        System.err.println("Fatal Error: couldn't dump data to disk.");
        System.exit(1);
    }
}

From source file:de.upb.timok.run.GenericSmacPipeline.java

/**
 * @param args/*  w  w  w .  j  a  v  a2  s.c  om*/
 * @throws IOException
 * @throws InterruptedException
 */
public static void main(String[] args) throws IOException, InterruptedException {
    final GenericSmacPipeline sp = new GenericSmacPipeline();
    final JCommander jc = new JCommander(sp);
    System.out.println(Arrays.toString(args));
    if (args.length < 4) {
        logger.error(
                "Please provide the following inputs: [inputFile] 1 1 [Random Seed] [Parameter Arguments..]");
        jc.usage();
        System.exit(1);
    }
    jc.parse(args);
    sp.dataString = args[0];
    logger.info("Running Generic Pipeline with args" + Arrays.toString(args));
    MasterSeed.setSeed(Long.parseLong(args[3]));

    // try {
    final PdttaExperimentResult result = sp.run();
    final Path resultPath = Paths.get("result.csv");
    if (!Files.exists(resultPath)) {
        Files.createFile(resultPath);
    }
    try (BufferedWriter bw = Files.newBufferedWriter(resultPath, StandardCharsets.UTF_8,
            StandardOpenOption.APPEND)) {
        bw.append(Arrays.toString(args) + "; " + result.toCsvString());
        bw.append('\n');
    }

    System.exit(0);
    // } catch (Exception e) {
    // logger.error("Unexpected exception with parameters" + Arrays.toString(args), e);
    // throw e;
    // }
}

From source file:com.github.ansell.shp.SHPDump.java

public static void main(String... args) throws Exception {
    final OptionParser parser = new OptionParser();

    final OptionSpec<Void> help = parser.accepts("help").forHelp();
    final OptionSpec<File> input = parser.accepts("input").withRequiredArg().ofType(File.class).required()
            .describedAs("The input SHP file");
    final OptionSpec<File> output = parser.accepts("output").withRequiredArg().ofType(File.class).required()
            .describedAs("The output directory to use for debugging files");
    final OptionSpec<String> outputPrefix = parser.accepts("prefix").withRequiredArg().ofType(String.class)
            .defaultsTo("shp-debug").describedAs("The output prefix to use for debugging files");
    final OptionSpec<File> outputMappingTemplate = parser.accepts("output-mapping").withRequiredArg()
            .ofType(File.class).describedAs("The output mapping template file if it needs to be generated.");
    final OptionSpec<Integer> resolution = parser.accepts("resolution").withRequiredArg().ofType(Integer.class)
            .defaultsTo(2048).describedAs("The output image file resolution");
    final OptionSpec<String> format = parser.accepts("format").withRequiredArg().ofType(String.class)
            .defaultsTo("png").describedAs("The output image format");
    final OptionSpec<String> removeIfEmpty = parser.accepts("remove-if-empty").withRequiredArg()
            .ofType(String.class).describedAs(
                    "The name of an attribute to remove if its value is empty before outputting the resulting shapefile. Use multiple times to specify multiple fields to check");

    OptionSet options = null;//from  w  ww.ja  v  a 2s .c o m

    try {
        options = parser.parse(args);
    } catch (final OptionException e) {
        System.out.println(e.getMessage());
        parser.printHelpOn(System.out);
        throw e;
    }

    if (options.has(help)) {
        parser.printHelpOn(System.out);
        return;
    }

    final Path inputPath = input.value(options).toPath();
    if (!Files.exists(inputPath)) {
        throw new FileNotFoundException("Could not find input SHP file: " + inputPath.toString());
    }

    final Path outputPath = output.value(options).toPath();
    if (!Files.exists(outputPath)) {
        throw new FileNotFoundException("Output directory does not exist: " + outputPath.toString());
    }

    final Path outputMappingPath = options.has(outputMappingTemplate)
            ? outputMappingTemplate.value(options).toPath()
            : null;
    if (options.has(outputMappingTemplate) && Files.exists(outputMappingPath)) {
        throw new FileNotFoundException(
                "Output mapping template file already exists: " + outputMappingPath.toString());
    }

    final Set<String> filterFields = ConcurrentHashMap.newKeySet();
    if (options.has(removeIfEmpty)) {
        for (String nextFilterField : removeIfEmpty.values(options)) {
            System.out.println("Will filter field if empty value found: " + nextFilterField);
            filterFields.add(nextFilterField);
        }
    }

    if (!filterFields.isEmpty()) {
        System.out.println("Full set of filter fields: " + filterFields);
    }

    final String prefix = outputPrefix.value(options);

    FileDataStore store = FileDataStoreFinder.getDataStore(inputPath.toFile());

    if (store == null) {
        throw new RuntimeException("Could not read the given input as an ESRI Shapefile: "
                + inputPath.toAbsolutePath().toString());
    }

    for (String typeName : new LinkedHashSet<>(Arrays.asList(store.getTypeNames()))) {
        System.out.println("");
        System.out.println("Type: " + typeName);
        SimpleFeatureSource featureSource = store.getFeatureSource(typeName);
        SimpleFeatureType schema = featureSource.getSchema();

        Name outputSchemaName = new NameImpl(schema.getName().getNamespaceURI(),
                schema.getName().getLocalPart().replace(" ", "").replace("%20", ""));
        System.out.println("Replacing name on schema: " + schema.getName() + " with " + outputSchemaName);
        SimpleFeatureType outputSchema = SHPUtils.changeSchemaName(schema, outputSchemaName);

        List<String> attributeList = new ArrayList<>();
        for (AttributeDescriptor attribute : schema.getAttributeDescriptors()) {
            System.out.println("Attribute: " + attribute.getName().toString());
            attributeList.add(attribute.getName().toString());
        }
        CsvSchema csvSchema = CSVUtil.buildSchema(attributeList);

        SimpleFeatureCollection collection = featureSource.getFeatures();
        int featureCount = 0;
        Path nextCSVFile = outputPath.resolve(prefix + ".csv");
        Path nextSummaryCSVFile = outputPath
                .resolve(prefix + "-" + outputSchema.getTypeName() + "-Summary.csv");
        List<SimpleFeature> outputFeatureList = new CopyOnWriteArrayList<>();

        try (SimpleFeatureIterator iterator = collection.features();
                Writer bufferedWriter = Files.newBufferedWriter(nextCSVFile, StandardCharsets.UTF_8,
                        StandardOpenOption.CREATE_NEW);
                SequenceWriter csv = CSVUtil.newCSVWriter(bufferedWriter, csvSchema);) {
            List<String> nextLine = new ArrayList<>();
            while (iterator.hasNext()) {
                SimpleFeature feature = iterator.next();
                featureCount++;
                if (featureCount <= 2) {
                    System.out.println("");
                    System.out.println(feature.getIdentifier());
                } else if (featureCount % 100 == 0) {
                    System.out.print(".");
                }
                boolean filterThisFeature = false;
                for (AttributeDescriptor attribute : schema.getAttributeDescriptors()) {
                    String featureString = Optional.ofNullable(feature.getAttribute(attribute.getName()))
                            .orElse("").toString();
                    nextLine.add(featureString);
                    if (filterFields.contains(attribute.getName().toString())
                            && featureString.trim().isEmpty()) {
                        filterThisFeature = true;
                    }
                    if (featureString.length() > 100) {
                        featureString = featureString.substring(0, 100) + "...";
                    }
                    if (featureCount <= 2) {
                        System.out.print(attribute.getName() + "=");
                        System.out.println(featureString);
                    }
                }
                if (!filterThisFeature) {
                    outputFeatureList.add(SHPUtils.changeSchemaName(feature, outputSchema));
                    csv.write(nextLine);
                }
                nextLine.clear();
            }
        }
        try (Reader csvReader = Files.newBufferedReader(nextCSVFile, StandardCharsets.UTF_8);
                Writer summaryOutput = Files.newBufferedWriter(nextSummaryCSVFile, StandardCharsets.UTF_8,
                        StandardOpenOption.CREATE_NEW);
                final Writer mappingWriter = options.has(outputMappingTemplate)
                        ? Files.newBufferedWriter(outputMappingPath)
                        : NullWriter.NULL_WRITER) {
            CSVSummariser.runSummarise(csvReader, summaryOutput, mappingWriter,
                    CSVSummariser.DEFAULT_SAMPLE_COUNT, false);
        }
        if (featureCount > 100) {
            System.out.println("");
        }
        System.out.println("");
        System.out.println("Feature count: " + featureCount);

        SimpleFeatureCollection outputCollection = new ListFeatureCollection(outputSchema, outputFeatureList);
        Path outputShapefilePath = outputPath.resolve(prefix + "-" + outputSchema.getTypeName() + "-dump");
        if (!Files.exists(outputShapefilePath)) {
            Files.createDirectory(outputShapefilePath);
        }
        SHPUtils.writeShapefile(outputCollection, outputShapefilePath);

        // Create ZIP file from the contents to keep the subfiles together
        Path outputShapefileZipPath = outputPath
                .resolve(prefix + "-" + outputSchema.getTypeName() + "-dump.zip");
        try (final OutputStream out = Files.newOutputStream(outputShapefileZipPath,
                StandardOpenOption.CREATE_NEW);
                final ZipOutputStream zip = new ZipOutputStream(out, StandardCharsets.UTF_8);) {
            Files.list(outputShapefilePath).forEachOrdered(Unchecked.consumer(e -> {
                zip.putNextEntry(new ZipEntry(e.getFileName().toString()));
                Files.copy(e, zip);
                zip.closeEntry();
            }));
        }

        try (final OutputStream outputStream = Files.newOutputStream(
                outputPath.resolve(prefix + "." + format.value(options)), StandardOpenOption.CREATE_NEW);) {
            MapContent map = new MapContent();
            map.setTitle(prefix + "-" + outputSchema.getTypeName());
            Style style = SLD.createSimpleStyle(featureSource.getSchema());
            Layer layer = new FeatureLayer(new CollectionFeatureSource(outputCollection), style);
            map.addLayer(layer);
            SHPUtils.renderImage(map, outputStream, resolution.value(options), format.value(options));
        }
    }
}

From source file:massbank.admin.Validator2.java

public static void main(String[] arguments) throws Exception {
    boolean haserror = false;
    if (arguments.length == 0) {
        Record record = validate(recordstringExample, "");
        if (record == null)
            System.err.println("Error.");
        else/*w w w.j av a 2  s. c  om*/
            System.out.println(record.toString());
    } else {
        for (String filename : arguments) {
            recordstringExample = FileUtils.readFileToString(new File(filename), StandardCharsets.UTF_8);
            Record record = validate(recordstringExample, "");
            if (record == null) {
                System.err.println("Error in " + filename);
                haserror = true;
            } else {
                //System.out.println("ok");
                //System.out.println(record.toString());
            }
        }
    }
    if (haserror)
        System.exit(1);
}

From source file:AndroidUninstallStock.java

@SuppressWarnings("static-access")
public static void main(String[] args) {
    try {/*  w ww.j  av  a  2  s.  c o m*/
        String lang = Locale.getDefault().getLanguage();
        GnuParser cmdparser = new GnuParser();
        Options cmdopts = new Options();
        for (String fld : Arrays.asList("shortOpts", "longOpts", "optionGroups")) {
            // hack for printOptions
            java.lang.reflect.Field fieldopt = cmdopts.getClass().getDeclaredField(fld);
            fieldopt.setAccessible(true);
            fieldopt.set(cmdopts, new LinkedHashMap<>());
        }
        cmdopts.addOption("h", "help", false, "Help");
        cmdopts.addOption("t", "test", false, "Show only report");
        cmdopts.addOption(OptionBuilder.withLongOpt("adb").withArgName("file").hasArg()
                .withDescription("Path to ADB from Android SDK").create("a"));
        cmdopts.addOption(OptionBuilder.withLongOpt("dev").withArgName("device").hasArg()
                .withDescription("Select device (\"adb devices\")").create("d"));
        cmdopts.addOption(null, "restore", false,
                "If packages have not yet removed and are disabled, " + "you can activate them again");
        cmdopts.addOption(null, "google", false, "Delete packages are in the Google section");
        cmdopts.addOption(null, "unapk", false, "Delete /system/app/ *.apk *.odex *.dex"
                + System.lineSeparator() + "(It is required to repeat command execution)");
        cmdopts.addOption(null, "unlib", false, "Delete /system/lib/[libs in apk]");
        //cmdopts.addOption(null, "unfrw", false, "Delete /system/framework/ (special list)");
        cmdopts.addOption(null, "scanlibs", false,
                "(Dangerous!) Include all the libraries of selected packages." + " Use with --unlib");

        cmdopts.addOptionGroup(new OptionGroup() {
            {
                addOption(OptionBuilder.withLongOpt("genfile").withArgName("file").hasArg().isRequired()
                        .withDescription("Create file with list packages").create());
                addOption(OptionBuilder.withLongOpt("lang").withArgName("ISO 639").hasArg().create());
            }
        });
        cmdopts.getOption("lang").setDescription(
                "See hl= in Google URL (default: " + lang + ") " + "for description from Google Play Market");
        CommandLine cmd = cmdparser.parse(cmdopts, args);

        if (args.length == 0 || cmd.hasOption("help")) {
            PrintWriter console = new PrintWriter(System.out);
            HelpFormatter cmdhelp = new HelpFormatter();
            cmdhelp.setOptionComparator(new Comparator<Option>() {
                @Override
                public int compare(Option o1, Option o2) {
                    return 0;
                }
            });
            console.println("WARNING: Before use make a backup with ClockworkMod Recovery!");
            console.println();
            console.println("AndroidUninstallStock [options] [AndroidListSoft.xml]");
            cmdhelp.printOptions(console, 80, cmdopts, 3, 2);
            console.flush();
            return;
        }

        String adb = cmd.getOptionValue("adb", "adb");
        try {
            run(adb, "start-server");
        } catch (IOException e) {
            System.out.println("Error: Not found ADB! Use -a or --adb");
            return;
        }

        final boolean NotTest = !cmd.hasOption("test");

        String deverror = getDeviceStatus(adb, cmd.getOptionValue("dev"));
        if (!deverror.isEmpty()) {
            System.out.println(deverror);
            return;
        }

        System.out.println("Getting list packages:");
        LinkedHashMap<String, String> apklist = new LinkedHashMap<String, String>();
        for (String ln : run(adb, "-s", lastdevice, "shell", "pm list packages -s -f")) {
            // "pm list packages" give list sorted by packages ;)
            String pckg = ln.substring("package:".length());
            String pckgname = ln.substring(ln.lastIndexOf('=') + 1);
            pckg = pckg.substring(0, pckg.length() - pckgname.length() - 1);
            if (!pckgname.equals("android") && !pckgname.equals("com.android.vending")/*Google Play Market*/) {
                apklist.put(pckg, pckgname);
            }
        }
        for (String ln : run(adb, "-s", lastdevice, "shell", "ls /system/app/")) {
            String path = "/system/app/" + ln.replace(".odex", ".apk").replace(".dex", ".apk");
            if (!apklist.containsKey(path)) {
                apklist.put(path, "");
            }
        }
        apklist.remove("/system/app/mcRegistry");
        for (Map.Entry<String, String> info : sortByValues(apklist).entrySet()) {
            System.out.println(info.getValue() + " = " + info.getKey());
        }

        String genfile = cmd.getOptionValue("genfile");
        if (genfile != null) {
            Path genpath = Paths.get(genfile);
            try (BufferedWriter gen = Files.newBufferedWriter(genpath, StandardCharsets.UTF_8,
                    new StandardOpenOption[] { StandardOpenOption.CREATE, StandardOpenOption.TRUNCATE_EXISTING,
                            StandardOpenOption.WRITE })) {
                if (cmd.getOptionValue("lang") != null) {
                    lang = cmd.getOptionValue("lang");
                }

                LinkedHashSet<String> listsystem = new LinkedHashSet<String>() {
                    {
                        add("com.android");
                        add("com.google.android");
                        //add("com.sec.android.app");
                        add("com.monotype.android");
                        add("eu.chainfire.supersu");
                    }
                };

                // \r\n for Windows Notepad
                gen.write("<?xml version=\"1.0\" encoding=\"UTF-8\"?>\r\n");
                gen.write("<!-- & raplace with &amp; or use <![CDATA[ ]]> -->\r\n");
                gen.write("<AndroidUninstallStock>\r\n\r\n");
                gen.write("<Normal>\r\n");
                System.out.println();
                System.out.println("\tNormal:");
                writeInfo(gen, apklist, lang, listsystem, true);
                gen.write("\t<apk name=\"Exclude Google and etc\">\r\n");
                for (String exc : listsystem) {
                    gen.write("\t\t<exclude global=\"true\" in=\"package\" pattern=\"" + exc + "\" />\r\n");
                }
                gen.write("\t</apk>\r\n");
                gen.write("</Normal>\r\n\r\n");
                gen.write("<Google>\r\n");
                System.out.println();
                System.out.println("\tGoogle:");
                writeInfo(gen, apklist, lang, listsystem, false);
                gen.write("</Google>\r\n\r\n");
                gen.write("</AndroidUninstallStock>\r\n");
                System.out.println("File " + genpath.toAbsolutePath() + " created.");
            }
            return;
        }

        String[] FileName = cmd.getArgs();
        if (!(FileName.length > 0 && Files.isReadable(Paths.get(FileName[0])))) {
            System.out.println("Error: File " + FileName[0] + " not found!");
            return;
        }

        DocumentBuilderFactory xmlfactory = getXmlDocFactory();

        // DocumentBuilder.setErrorHandler() for print errors
        Document xml = xmlfactory.newDocumentBuilder().parse(new File(FileName[0]));

        LinkedList<AusInfo> Normal = new LinkedList<AusInfo>();
        LinkedList<AusInfo> Google = new LinkedList<AusInfo>();

        NodeList ndaus = xml.getElementsByTagName("AndroidUninstallStock").item(0).getChildNodes();
        for (int ndausx = 0, ndausc = ndaus.getLength(); ndausx < ndausc; ndausx++) {
            Node ndnow = ndaus.item(ndausx);
            NodeList nd = ndnow.getChildNodes();
            String ndname = ndnow.getNodeName();
            for (int ndx = 0, ndc = nd.getLength(); ndx < ndc; ndx++) {
                if (!nd.item(ndx).getNodeName().equalsIgnoreCase("apk")) {
                    continue;
                }
                if (ndname.equalsIgnoreCase("Normal")) {
                    Normal.add(getApkInfo(nd.item(ndx)));
                } else if (ndname.equalsIgnoreCase("Google")) {
                    Google.add(getApkInfo(nd.item(ndx)));
                }
            }
        }

        // FIXME This part must be repeated until the "pm uninstall" will not issue "Failure" on all packages.
        //       Now requires a restart.
        System.out.println();
        System.out.println("Include and Exclude packages (Normal):");
        LinkedHashMap<String, String> apkNormal = getApkFromPattern(apklist, Normal, false);
        System.out.println();
        System.out.println("Global Exclude packages (Normal):");
        apkNormal = getApkFromPattern(apkNormal, Normal, true);
        System.out.println();
        System.out.println("Final list packages (Normal):");
        for (Map.Entry<String, String> info : sortByValues(apkNormal).entrySet()) {
            System.out.println(info.getValue() + " = " + info.getKey());
        }

        LinkedHashMap<String, String> apkGoogle = new LinkedHashMap<String, String>();
        if (cmd.hasOption("google")) {
            System.out.println();
            System.out.println("Include and Exclude packages (Google):");
            apkGoogle = getApkFromPattern(apklist, Google, false);
            System.out.println();
            System.out.println("Global Exclude packages (Google):");
            apkGoogle = getApkFromPattern(apkGoogle, Google, true);
            System.out.println();
            System.out.println("Final list packages (Google):");
            for (Map.Entry<String, String> info : sortByValues(apkGoogle).entrySet()) {
                System.out.println(info.getValue() + " = " + info.getKey());
            }
        }

        if (NotTest) {
            if (!hasRoot(adb)) {
                System.out.println("No Root");
                System.out.println();
                System.out.println("FINISH :)");
                return;
            }
        }

        if (cmd.hasOption("restore")) {
            System.out.println();
            System.out.println("Enable (Restore) packages (Normal):");
            damage(adb, "pm enable ", NotTest, apkNormal, 2);
            if (cmd.hasOption("google")) {
                System.out.println();
                System.out.println("Enable (Restore) packages (Google):");
                damage(adb, "pm enable ", NotTest, apkGoogle, 2);
            }
            System.out.println();
            System.out.println("FINISH :)");
            return;
        } else {
            System.out.println();
            System.out.println("Disable packages (Normal):");
            damage(adb, "pm disable ", NotTest, apkNormal, 2);
            if (cmd.hasOption("google")) {
                System.out.println();
                System.out.println("Disable packages (Google):");
                damage(adb, "pm disable ", NotTest, apkGoogle, 2);
            }
        }

        if (!cmd.hasOption("unapk") && !cmd.hasOption("unlib")) {
            System.out.println();
            System.out.println("FINISH :)");
            return;
        }

        // Reboot now not needed
        /*if (NotTest) {
        reboot(adb, "-s", lastdevice, "reboot");
        if (!hasRoot(adb)) {
            System.out.println("No Root");
            System.out.println();
            System.out.println("FINISH :)");
            return;
        }
        }*/

        if (cmd.hasOption("unlib")) {
            // "find" not found
            System.out.println();
            System.out.println("Getting list libraries:");
            LinkedList<String> liblist = new LinkedList<String>();
            liblist.addAll(run(adb, "-s", lastdevice, "shell", "ls -l /system/lib/"));
            String dircur = "/system/lib/";
            for (int x = 0; x < liblist.size(); x++) {
                if (liblist.get(x).startsWith("scan:")) {
                    dircur = liblist.get(x).substring("scan:".length());
                    liblist.remove(x);
                    x--;
                } else if (liblist.get(x).startsWith("d")) {
                    String dir = liblist.get(x).substring(liblist.get(x).lastIndexOf(':') + 4) + "/";
                    liblist.remove(x);
                    x--;
                    liblist.add("scan:/system/lib/" + dir);
                    liblist.addAll(run(adb, "-s", lastdevice, "shell", "ls -l /system/lib/" + dir));
                    continue;
                }
                liblist.set(x, dircur + liblist.get(x).substring(liblist.get(x).lastIndexOf(':') + 4));
                System.out.println(liblist.get(x));
            }

            final boolean scanlibs = cmd.hasOption("scanlibs");
            LinkedHashMap<String, String> libNormal = getLibFromPatternInclude(adb, liblist, apkNormal, Normal,
                    "Normal", scanlibs);
            libNormal = getLibFromPatternGlobalExclude(libNormal, Normal, "Normal");
            System.out.println();
            System.out.println("Final list libraries (Normal):");
            for (Map.Entry<String, String> info : sortByValues(libNormal).entrySet()) {
                System.out.println(info.getKey() + " = " + info.getValue());
            }

            LinkedHashMap<String, String> libGoogle = new LinkedHashMap<String, String>();
            if (cmd.hasOption("google")) {
                libGoogle = getLibFromPatternInclude(adb, liblist, apkGoogle, Google, "Google", scanlibs);
                libGoogle = getLibFromPatternGlobalExclude(libGoogle, Google, "Google");
                System.out.println();
                System.out.println("Final list libraries (Google):");
                for (Map.Entry<String, String> info : sortByValues(libGoogle).entrySet()) {
                    System.out.println(info.getKey() + " = " + info.getValue());
                }
            }

            LinkedHashMap<String, String> apkExclude = new LinkedHashMap<String, String>(apklist);
            for (String key : apkNormal.keySet()) {
                apkExclude.remove(key);
            }
            for (String key : apkGoogle.keySet()) {
                apkExclude.remove(key);
            }

            System.out.println();
            System.out.println("Include libraries from Exclude packages:");
            LinkedHashMap<String, String> libExclude = getLibFromPackage(adb, liblist, apkExclude);
            System.out.println();
            System.out.println("Enclude libraries from Exclude packages (Normal):");
            for (Map.Entry<String, String> info : sortByValues(libNormal).entrySet()) {
                if (libExclude.containsKey(info.getKey())) {
                    System.out.println("exclude: " + info.getKey() + " = " + libExclude.get(info.getKey()));
                    libNormal.remove(info.getKey());
                }
            }
            System.out.println();
            System.out.println("Enclude libraries from Exclude packages (Google):");
            for (Map.Entry<String, String> info : sortByValues(libGoogle).entrySet()) {
                if (libExclude.containsKey(info.getKey())) {
                    System.out.println("exclude: " + info.getKey() + " = " + libExclude.get(info.getKey()));
                    libGoogle.remove(info.getKey());
                }
            }

            System.out.println();
            System.out.println("Delete libraries (Normal):");
            damage(adb, "rm ", NotTest, libNormal, 1);
            if (cmd.hasOption("google")) {
                System.out.println();
                System.out.println("Delete libraries (Google):");
                damage(adb, "rm ", NotTest, libGoogle, 1);
            }
        }

        if (cmd.hasOption("unapk")) {
            System.out.println();
            System.out.println("Cleaning data packages (Normal):");
            damage(adb, "pm clear ", NotTest, apkNormal, 2);
            if (cmd.hasOption("google")) {
                System.out.println();
                System.out.println("Cleaning data packages (Google):");
                damage(adb, "pm clear ", NotTest, apkGoogle, 2);
            }

            System.out.println();
            System.out.println("Uninstall packages (Normal):");
            damage(adb, "pm uninstall ", NotTest, apkNormal, 2);
            if (cmd.hasOption("google")) {
                System.out.println();
                System.out.println("Uninstall packages (Google):");
                damage(adb, "pm uninstall ", NotTest, apkGoogle, 2);
            }
        }

        if (cmd.hasOption("unapk")) {
            System.out.println();
            System.out.println("Delete packages (Normal):");
            LinkedHashMap<String, String> dexNormal = new LinkedHashMap<String, String>();
            for (Map.Entry<String, String> apk : apkNormal.entrySet()) {
                dexNormal.put(apk.getKey(), apk.getValue());
                dexNormal.put(apk.getKey().replace(".apk", ".dex"), apk.getValue());
                dexNormal.put(apk.getKey().replace(".apk", ".odex"), apk.getValue());
            }
            damage(adb, "rm ", NotTest, dexNormal, 1);
            if (cmd.hasOption("google")) {
                System.out.println();
                System.out.println("Delete packages (Google):");
                LinkedHashMap<String, String> dexGoogle = new LinkedHashMap<String, String>();
                for (Map.Entry<String, String> apk : apkGoogle.entrySet()) {
                    dexGoogle.put(apk.getKey(), apk.getValue());
                    dexGoogle.put(apk.getKey().replace(".apk", ".dex"), apk.getValue());
                    dexGoogle.put(apk.getKey().replace(".apk", ".odex"), apk.getValue());
                }
                damage(adb, "rm ", NotTest, dexGoogle, 1);
            }
        }

        if (NotTest) {
            run(adb, "-s", lastdevice, "reboot");
        }
        System.out.println();
        System.out.println("FINISH :)");
    } catch (SAXException e) {
        System.out.println("Error parsing list: " + e);
    } catch (Throwable e) {
        e.printStackTrace();
    }
}

From source file:com.curecomp.primefaces.migrator.PrimefacesMigration.java

public static void main(String[] args) throws Exception {
    // Let's use some colors :)
    //        AnsiConsole.systemInstall();
    CommandLineParser cliParser = new BasicParser();
    CommandLine cli = null;/*from   w  w w .j av a2 s .  c o m*/
    try {
        cli = cliParser.parse(OPTIONS, args);
    } catch (ParseException e) {
        printHelp();
    }
    if (!cli.hasOption("s")) {
        printHelp();
    }

    String sourcePattern;
    if (cli.hasOption("p")) {
        sourcePattern = cli.getOptionValue("p");
    } else {
        sourcePattern = DEFAULT_SOURCE_PATTERN;
    }

    String defaultAnswer;
    if (cli.hasOption("default-answer")) {
        defaultAnswer = cli.getOptionValue("default-answer");
    } else {
        defaultAnswer = DEFAULT_DEFAULT_PROMPT_ANSWER;
    }

    boolean defaultAnswerYes = defaultAnswer.equalsIgnoreCase("y");
    boolean quiet = cli.hasOption("q");
    boolean testWrite = cli.hasOption("t");
    Path sourceDirectory = Paths.get(cli.getOptionValue("s")).toAbsolutePath();
    // Since we use IO we will have some blocking threads hanging around
    int threadCount = Runtime.getRuntime().availableProcessors() * 2;
    ThreadPoolExecutor threadPool = new ThreadPoolExecutor(threadCount, threadCount, 0L, TimeUnit.MILLISECONDS,
            new LinkedBlockingQueue<>());
    BlockingQueue<WidgetVarLocation> foundUsages = new LinkedBlockingQueue<>();
    BlockingQueue<WidgetVarLocation> unusedOrAmbiguous = new LinkedBlockingQueue<>();
    BlockingQueue<WidgetVarLocation> skippedUsages = new LinkedBlockingQueue<>();
    List<Future<?>> futures = new ArrayList<>();

    findWidgetVars(sourceDirectory, sourcePattern, threadPool).forEach(widgetVarLocation -> {
        // We can't really find usages of widget vars that use EL expressions :(
        if (widgetVarLocation.widgetVar.contains("#")) {
            unusedOrAmbiguous.add(widgetVarLocation);
            return;
        }

        try {
            FileActionVisitor visitor = new FileActionVisitor(sourceDirectory, sourcePattern,
                    sourceFile -> futures.add(threadPool.submit((Callable<?>) () -> {
                        findWidgetVarUsages(sourceFile, widgetVarLocation, foundUsages, skippedUsages,
                                unusedOrAmbiguous);
                        return null;
                    })));

            Files.walkFileTree(sourceDirectory, visitor);
        } catch (IOException ex) {
            throw new RuntimeException(ex);
        }
    });

    awaitAll(futures);

    new TreeSet<>(skippedUsages).forEach(widgetUsage -> {
        int startIndex = widgetUsage.columnNr;
        int endIndex = startIndex + widgetUsage.widgetVar.length();
        String relativePath = widgetUsage.location.toAbsolutePath().toString()
                .substring(sourceDirectory.toString().length());
        String previous = replace(widgetUsage.line, startIndex, endIndex,
                Ansi.ansi().bold().fg(Ansi.Color.RED).a(widgetUsage.widgetVar).reset().toString());
        System.out.println("Skipped " + relativePath + " at line " + widgetUsage.lineNr + " and col "
                + widgetUsage.columnNr + " for widgetVar '" + widgetUsage.widgetVar + "'");
        System.out.println("\t" + previous);
    });

    Map<WidgetVarLocation, List<WidgetVarLocation>> written = new HashMap<>();

    new TreeSet<>(foundUsages).forEach(widgetUsage -> {
        WidgetVarLocation key = new WidgetVarLocation(null, widgetUsage.location, widgetUsage.lineNr, -1, null);
        List<WidgetVarLocation> writtenList = written.get(key);
        int existing = writtenList == null ? 0 : writtenList.size();
        int startIndex = widgetUsage.columnNr;
        int endIndex = startIndex + widgetUsage.widgetVar.length();
        String relativePath = widgetUsage.location.toAbsolutePath().toString()
                .substring(sourceDirectory.toString().length());
        String next = replace(widgetUsage.line, startIndex, endIndex, Ansi.ansi().bold().fg(Ansi.Color.RED)
                .a("PF('" + widgetUsage.widgetVar + "')").reset().toString());
        System.out
                .println(relativePath + " at line " + widgetUsage.lineNr + " and col " + widgetUsage.columnNr);
        System.out.println("\t" + next);
        System.out.print("Replace (Y/N)? [" + (defaultAnswerYes ? "Y" : "N") + "]: ");

        String input;

        if (quiet) {
            input = "";
            System.out.println();
        } else {
            try {
                do {
                    input = in.readLine();
                } while (input != null && !input.isEmpty() && !"y".equalsIgnoreCase(input)
                        && !"n".equalsIgnoreCase(input));
            } catch (IOException ex) {
                throw new RuntimeException(ex);
            }
        }

        if (input == null) {
            System.out.println("Aborted!");
        } else if (input.isEmpty() && defaultAnswerYes || !input.isEmpty() && !"n".equalsIgnoreCase(input)) {
            System.out.println("Replaced!");
            System.out.print("\t");
            if (writtenList == null) {
                writtenList = new ArrayList<>();
                written.put(key, writtenList);
            }

            writtenList.add(widgetUsage);
            List<String> lines;
            try {
                lines = Files.readAllLines(widgetUsage.location);
            } catch (IOException ex) {
                throw new RuntimeException(ex);
            }

            try (OutputStream os = testWrite ? new ByteArrayOutputStream()
                    : Files.newOutputStream(widgetUsage.location);
                    PrintWriter pw = new PrintWriter(new OutputStreamWriter(os, StandardCharsets.UTF_8))) {
                String line;

                for (int i = 0; i < lines.size(); i++) {
                    int lineNr = i + 1;
                    line = lines.get(i);

                    if (lineNr == widgetUsage.lineNr) {
                        int begin = widgetUsage.columnNr + (testWrite ? 0 : existing * 6);
                        int end = begin + widgetUsage.widgetVar.length();
                        String newLine = replace(line, begin, end, "PF('" + widgetUsage.widgetVar + "')",
                                false);

                        if (testWrite) {
                            System.out.println(newLine);
                        } else {
                            pw.println(newLine);
                        }
                    } else {
                        if (!testWrite) {
                            pw.println(line);
                        }
                    }
                }
            } catch (IOException ex) {
                throw new RuntimeException(ex);
            }
        } else {
            System.out.println("Skipped!");
        }
    });

    new TreeSet<>(unusedOrAmbiguous).forEach(widgetUsage -> {
        int startIndex = widgetUsage.columnNr;
        int endIndex = startIndex + widgetUsage.widgetVar.length();
        String relativePath = widgetUsage.location.toAbsolutePath().toString()
                .substring(sourceDirectory.toString().length());
        String previous = replace(widgetUsage.line, startIndex, endIndex,
                Ansi.ansi().bold().fg(Ansi.Color.RED).a(widgetUsage.widgetVar).reset().toString());
        System.out.println("Skipped unused or ambiguous " + relativePath + " at line " + widgetUsage.lineNr
                + " and col " + widgetUsage.columnNr);
        System.out.println("\t" + previous);
    });

    threadPool.shutdown();
}