public void setClassPath(final Path classpath) {
   this.pathComponents.removeAllElements();
   if (classpath != null) {
     final Path actualClasspath = classpath.concatSystemClasspath("ignore");
     final String[] pathElements = actualClasspath.list();
     for (int i = 0; i < pathElements.length; ++i) {
       try {
         this.addPathElement(pathElements[i]);
       } catch (BuildException ex) {
       }
     }
   }
 }
Exemplo n.º 2
0
 private static boolean writeChecksum(Path localPath, String checksum) {
   try {
     java.io.BufferedWriter writer =
         Files.newBufferedWriter(
             java.nio.file.Paths.get(localPath.toString() + ".crc"), Charset.forName("UTF-8"));
     writer.write(checksum);
     writer.flush();
     writer.close();
     return true;
   } catch (Exception e) {
     logger.warn("Unable to write CRC file!");
     return false;
   }
 }
Exemplo n.º 3
0
 private static boolean checksumLocalTest(Path localPath, String checksum) {
   String crcPath = localPath.toString() + ".crc";
   if (Files.isReadable(java.nio.file.Paths.get(crcPath))) {
     try {
       List<String> lines =
           Files.readAllLines(java.nio.file.Paths.get(crcPath), Charset.forName("UTF-8"));
       for (String line : lines) {
         if (line.equals(checksum)) {
           return true;
         }
       }
     } catch (Exception e) {
       return false;
     }
   }
   return false;
 }
Exemplo n.º 4
0
  public int run(String[] args) throws Exception {
    // printUsage();
    /*
     * SETUP
     */
    Configuration argConf = getConf();
    Hashtable<String, String> confArg = new Hashtable<String, String>();
    setup(confArg, argConf);
    Date currentTime = new Date();
    Date endDate = new Date(new Long(confArg.get("timestamp_stop")));
    Boolean full_run = confArg.get("intermediate").matches("(?i).*true.*");
    Boolean quick_add = confArg.get("quick_add").matches("(?i).*true.*");
    logger.info("Running GeStore");

    // ZooKeeper setup
    Configuration config = HBaseConfiguration.create();
    zkWatcher = new ZooKeeperWatcher(config, "Testing", new HBaseAdmin(config));
    zkInstance =
        new ZooKeeper(
            ZKConfig.getZKQuorumServersString(config),
            config.getInt("zookeeper.session.timeout", -1),
            zkWatcher);

    if (!confArg.get("task_id").isEmpty()) {
      confArg.put("temp_path", confArg.get("temp_path") + confArg.get("task_id"));
    }

    String lockRequest = confArg.get("file_id");
    if (!confArg.get("run_id").isEmpty())
      lockRequest = lockRequest + "_" + confArg.get("run_id") + "_";
    if (!confArg.get("task_id").isEmpty())
      lockRequest = lockRequest + "_" + confArg.get("task_id") + "_";

    // Get type of movement
    toFrom type_move = checkArgs(confArg);
    if (type_move == toFrom.LOCAL2REMOTE && !confArg.get("format").equals("unknown")) {
      List<String> arguments = new ArrayList<String>();
      arguments.add("-Dinput=" + confArg.get("local_path"));
      arguments.add("-Dtable=" + confArg.get("file_id"));
      arguments.add("-Dtimestamp=" + confArg.get("timestamp_stop"));
      arguments.add("-Dtype=" + confArg.get("format"));
      arguments.add("-Dtarget_dir=" + confArg.get("base_path") + "_" + confArg.get("file_id"));
      arguments.add("-Dtemp_hdfs_path=" + confArg.get("temp_path"));
      arguments.add("-Drun_id=" + confArg.get("run_id"));
      if (!confArg.get("run_id").isEmpty()) arguments.add("-Drun_id=" + confArg.get("run_id"));
      if (!confArg.get("task_id").isEmpty()) arguments.add("-Dtask_id=" + confArg.get("task_id"));
      if (quick_add) arguments.add("-Dquick_add=" + confArg.get("quick_add"));
      String lockName = lock(lockRequest);
      String[] argumentString = arguments.toArray(new String[arguments.size()]);
      adddb.main(argumentString);
      unlock(lockName);
      System.exit(0);
    }

    // Database registration

    dbutil db_util = new dbutil(config);
    db_util.register_database(confArg.get("db_name_files"), true);
    db_util.register_database(confArg.get("db_name_runs"), true);
    db_util.register_database(confArg.get("db_name_updates"), true);
    FileSystem hdfs = FileSystem.get(config);
    FileSystem localFS = FileSystem.getLocal(config);

    // Get source type
    confArg.put("source", getSource(db_util, confArg.get("db_name_files"), confArg.get("file_id")));
    confArg.put(
        "database", isDatabase(db_util, confArg.get("db_name_files"), confArg.get("file_id")));
    if (!confArg.get("source").equals("local")
        && type_move == toFrom.REMOTE2LOCAL
        && !confArg.get("timestamp_stop").equals(Integer.toString(Integer.MAX_VALUE))) {
      confArg.put("timestamp_stop", Long.toString(latestVersion(confArg, db_util)));
    }

    /*
     * Get previous timestamp
     */
    Get run_id_get = new Get(confArg.get("run_id").getBytes());
    Result run_get = db_util.doGet(confArg.get("db_name_runs"), run_id_get);
    KeyValue run_file_prev =
        run_get.getColumnLatest(
            "d".getBytes(), (confArg.get("file_id") + "_db_timestamp").getBytes());
    String last_timestamp = new String("0");
    if (null != run_file_prev && !confArg.get("source").equals("local")) {
      long last_timestamp_real = run_file_prev.getTimestamp();
      Long current_timestamp = new Long(confArg.get("timestamp_real"));
      if ((current_timestamp - last_timestamp_real) > 36000) {
        last_timestamp = new String(run_file_prev.getValue());
        Integer lastTimestamp = new Integer(last_timestamp);
        lastTimestamp += 1;
        last_timestamp = lastTimestamp.toString();
        logger.info("Last timestamp: " + last_timestamp + " End data: " + endDate);
        Date last_run = new Date(run_file_prev.getTimestamp());
        if (last_run.before(endDate) && !full_run) {
          confArg.put("timestamp_start", last_timestamp);
        }
      }
    }

    Integer tse = new Integer(confArg.get("timestamp_stop"));
    Integer tss = new Integer(confArg.get("timestamp_start"));
    if (tss > tse) {
      logger.info("No new version of requested file.");
      return 0;
    }

    /*
     * Generate file
     */

    String lockName = lock(lockRequest);

    Get file_id_get = new Get(confArg.get("file_id").getBytes());
    Result file_get = db_util.doGet(confArg.get("db_name_files"), file_id_get);
    if (!file_get.isEmpty()) {
      boolean found =
          hasFile(
              db_util,
              hdfs,
              confArg.get("db_name_files"),
              confArg.get("file_id"),
              getFullPath(confArg));
      if (confArg.get("source").equals("fullfile")) {
        found = false;
      }
      String filenames_put =
          getFileNames(
              db_util, confArg.get("db_name_files"), confArg.get("file_id"), getFullPath(confArg));
      // Filename not found in file database
      if (!found && type_move == toFrom.REMOTE2LOCAL) {
        if (!confArg.get("source").equals("local")) {
          // Generate intermediate file
          if (getFile(hdfs, confArg, db_util) == null) {
            unlock(lockName);
            return 1;
          }
          // Put generated file into file database
          if (!confArg.get("format").equals("fullfile")) {
            putFileEntry(
                db_util,
                hdfs,
                confArg.get("db_name_files"),
                confArg.get("file_id"),
                confArg.get("full_file_name"),
                confArg.get("source"));
          }
        } else {
          logger.warn("Remote file not found, and cannot be generated! File: " + confArg);
          unlock(lockName);
          return 1;
        }
      }
    } else {
      if (type_move == toFrom.REMOTE2LOCAL) {
        logger.warn("Remote file not found, and cannot be generated.");
        unlock(lockName);
        return 1;
      }
    }

    /*
     * Copy file
     * Update tables
     */

    if (type_move == toFrom.LOCAL2REMOTE) {
      if (!confArg.get("format").equals("fullfile")) {
        putFileEntry(
            db_util,
            hdfs,
            confArg.get("db_name_files"),
            confArg.get("file_id"),
            getFullPath(confArg),
            confArg.get("source"));
      }
      putRunEntry(
          db_util,
          confArg.get("db_name_runs"),
          confArg.get("run_id"),
          confArg.get("file_id"),
          confArg.get("type"),
          confArg.get("timestamp_real"),
          confArg.get("timestamp_stop"),
          getFullPath(confArg),
          confArg.get("delimiter"));
      hdfs.copyFromLocalFile(new Path(confArg.get("local_path")), new Path(getFullPath(confArg)));
    } else if (type_move == toFrom.REMOTE2LOCAL) {
      FileStatus[] files = hdfs.globStatus(new Path(getFullPath(confArg) + "*"));
      putRunEntry(
          db_util,
          confArg.get("db_name_runs"),
          confArg.get("run_id"),
          confArg.get("file_id"),
          confArg.get("type"),
          confArg.get("timestamp_real"),
          confArg.get("timestamp_stop"),
          getFullPath(confArg),
          confArg.get("delimiter"));
      unlock(lockName);
      for (FileStatus file : files) {
        Path cur_file = file.getPath();
        Path cur_local_path =
            new Path(new String(confArg.get("local_path") + confArg.get("file_id")));
        String suffix = getSuffix(getFileName(confArg), cur_file.getName());
        if (suffix.length() > 0) {
          cur_local_path = cur_local_path.suffix(new String("." + suffix));
        }
        if (confArg.get("copy").equals("true")) {
          String crc = hdfs.getFileChecksum(cur_file).toString();
          if (checksumLocalTest(cur_local_path, crc)) {
            continue;
          } else {
            hdfs.copyToLocalFile(cur_file, cur_local_path);
            writeChecksum(cur_local_path, crc);
          }
        } else {
          System.out.println(cur_local_path + "\t" + cur_file);
        }
      }
    }
    unlock(lockName);
    return 0;
  }
Exemplo n.º 5
0
  // Information needed to get a single file:
  // BASE_PATH, FILE_ID, TIMESTAMP_START, TIMESTAMP_STOP, SOURCE, FILESYSTEM
  private static Vector<Path> getFile(
      FileSystem fs, Hashtable<String, String> config, dbutil db_util) throws Exception {
    Long latestVersion = latestVersion(config, db_util);

    try {
      config.put("timestamp_start", config.get("timestamp_start"));
      config.put("timestamp_real", latestVersion.toString());
      config.put("timestamp_stop", latestVersion.toString());
    } catch (Exception E) {
      logger.error("Tryign to get file that is impossible to generate: " + getFullPath(config));
      return null;
    }
    if (Integer.parseInt(config.get("timestamp_start"))
        > Integer.parseInt(config.get("timestamp_stop"))) {
      return null;
    }
    logger.debug(
        "Getting DB for timestamp "
            + config.get("timestamp_start")
            + " to "
            + config.get("timestamp_stop"));

    String final_result = getFullPath(config);

    String temp_path_base =
        config.get("local_temp_path")
            + "_"
            + config.get("task_id")
            + "_"
            + config.get("run_id")
            + "/";
    Path newPath = new Path(final_result + "*");
    Vector<Path> ret_path = new Vector<Path>();
    String lockName = lock(final_result.replaceAll("/", "_"));
    if (fs.globStatus(newPath).length != 0) {
      ret_path.add(newPath);
      unlock(lockName);
      config.put("full_file_name", final_result);
      return ret_path;
    } else {
      if (!config.get("source").equals("local")) {
        config.put("temp_path_base", temp_path_base);

        config.put("timestamp_start", config.get("timestamp_start"));
        config.put("timestamp_real", latestVersion.toString());
        config.put("timestamp_stop", latestVersion.toString());

        Class<?> sourceClass =
            Class.forName("org.gestore.plugin.source." + config.get("source") + "Source");
        Method process_data = sourceClass.getMethod("process", Hashtable.class, FileSystem.class);
        Object processor = sourceClass.newInstance();
        Object retVal;
        try {
          retVal = process_data.invoke(processor, config, fs);
        } catch (InvocationTargetException E) {
          Throwable exception = E.getTargetException();
          logger.error("Unable to call method in child class: " + exception.toString());
          exception.printStackTrace(System.out);
          unlock(lockName);
          return null;
        }
        FileStatus[] files = (FileStatus[]) retVal;
        if (files == null) {
          logger.error("Error getting files, no files returned");
          return null;
        }

        for (FileStatus file : files) {
          Path cur_file = file.getPath();
          Path cur_local_path = new Path(temp_path_base + config.get("file_id"));
          String suffix = getSuffix(config.get("file_id"), cur_file.getName());
          cur_local_path = cur_local_path.suffix(suffix);
          Path res_path = new Path(new String(final_result + suffix));
          logger.debug("Moving file" + cur_file.toString() + " to " + res_path.toString());
          if (config.get("copy").equals("true")) {
            fs.moveFromLocalFile(cur_file, res_path);
          } else {
            fs.rename(cur_file, res_path);
          }
        }

        config.put("full_file_name", final_result);
      }
    }
    unlock(lockName);
    return ret_path;
  }