示例#1
0
 public static void createCentersSequenceFile(
     Configuration conf, FileSystem fs, String centroidsPath, String sequenceFilePath)
     throws Exception {
   Path seqFile = new Path(sequenceFilePath);
   if (fs.exists(seqFile)) {
     fs.delete(seqFile, true);
   }
   FSDataInputStream inputStream = fs.open(new Path(centroidsPath));
   SequenceFile.Writer writer =
       SequenceFile.createWriter(fs, conf, seqFile, Centroid.class, IntWritable.class);
   IntWritable value = new IntWritable(0);
   while (inputStream.available() > 0) {
     String line = inputStream.readLine();
     StringTokenizer tokenizer = new StringTokenizer(line, " ");
     int dim = tokenizer.countTokens() - 1;
     int clusterId = Integer.valueOf(tokenizer.nextToken());
     double[] coords = new double[dim];
     for (int i = 0; i < dim; i++) {
       coords[i] = Double.valueOf(tokenizer.nextToken());
     }
     Centroid cluster = new Centroid(clusterId, new Point(coords));
     writer.append(cluster, value);
   }
   IOUtils.closeStream(writer);
   inputStream.close();
 }
示例#2
0
 @Override
 protected void cleanup(Context context) throws IOException, InterruptedException {
   super.cleanup(context);
   Configuration conf = context.getConfiguration();
   Path outPath = new Path(conf.get(CENTERS_CONF_KEY));
   FileSystem fs = FileSystem.get(conf);
   // fs.delete(outPath, true);
   SequenceFile.Writer writer =
       SequenceFile.createWriter(
           fs, context.getConfiguration(), outPath, Centroid.class, IntWritable.class);
   final IntWritable mockValue = new IntWritable(0);
   for (Centroid center : centers) {
     writer.append(center, mockValue);
   }
   writer.close();
 }
  public void testFormat() throws Exception {
    JobConf job = new JobConf(conf);
    FileSystem fs = FileSystem.getLocal(conf);
    Path dir = new Path(System.getProperty("test.build.data", ".") + "/mapred");
    Path file = new Path(dir, "test.seq");

    Reporter reporter = Reporter.NULL;

    int seed = new Random().nextInt();
    // LOG.info("seed = "+seed);
    Random random = new Random(seed);

    fs.delete(dir, true);

    FileInputFormat.setInputPaths(job, dir);

    // for a variety of lengths
    for (int length = 0; length < MAX_LENGTH; length += random.nextInt(MAX_LENGTH / 10) + 1) {

      // LOG.info("creating; entries = " + length);

      // create a file with length entries
      SequenceFile.Writer writer =
          SequenceFile.createWriter(fs, conf, file, IntWritable.class, BytesWritable.class);
      try {
        for (int i = 0; i < length; i++) {
          IntWritable key = new IntWritable(i);
          byte[] data = new byte[random.nextInt(10)];
          random.nextBytes(data);
          BytesWritable value = new BytesWritable(data);
          writer.append(key, value);
        }
      } finally {
        writer.close();
      }

      // try splitting the file in a variety of sizes
      InputFormat<IntWritable, BytesWritable> format =
          new SequenceFileInputFormat<IntWritable, BytesWritable>();
      IntWritable key = new IntWritable();
      BytesWritable value = new BytesWritable();
      for (int i = 0; i < 3; i++) {
        int numSplits = random.nextInt(MAX_LENGTH / (SequenceFile.SYNC_INTERVAL / 20)) + 1;
        // LOG.info("splitting: requesting = " + numSplits);
        InputSplit[] splits = format.getSplits(job, numSplits);
        // LOG.info("splitting: got =        " + splits.length);

        // check each split
        BitSet bits = new BitSet(length);
        for (int j = 0; j < splits.length; j++) {
          RecordReader<IntWritable, BytesWritable> reader =
              format.getRecordReader(splits[j], job, reporter);
          try {
            int count = 0;
            while (reader.next(key, value)) {
              // if (bits.get(key.get())) {
              // LOG.info("splits["+j+"]="+splits[j]+" : " +
              // key.get());
              // LOG.info("@"+reader.getPos());
              // }
              assertFalse("Key in multiple partitions.", bits.get(key.get()));
              bits.set(key.get());
              count++;
            }
            // LOG.info("splits["+j+"]="+splits[j]+" count=" +
            // count);
          } finally {
            reader.close();
          }
        }
        assertEquals("Some keys in no partition.", length, bits.cardinality());
      }
    }
  }
示例#4
0
  /**
   * Initialize DFSCopyFileMapper specific job-configuration.
   *
   * @param conf : The dfs/mapred configuration.
   * @param jobConf : The handle to the jobConf object to be initialized.
   * @param args Arguments
   */
  private static void setup(Configuration conf, JobConf jobConf, final Arguments args)
      throws IOException {
    jobConf.set(DST_DIR_LABEL, args.dst.toUri().toString());

    // set boolean values
    final boolean update = args.flags.contains(Options.UPDATE);
    final boolean overwrite = !update && args.flags.contains(Options.OVERWRITE);
    jobConf.setBoolean(Options.UPDATE.propertyname, update);
    jobConf.setBoolean(Options.OVERWRITE.propertyname, overwrite);
    jobConf.setBoolean(
        Options.IGNORE_READ_FAILURES.propertyname,
        args.flags.contains(Options.IGNORE_READ_FAILURES));
    jobConf.setBoolean(
        Options.PRESERVE_STATUS.propertyname, args.flags.contains(Options.PRESERVE_STATUS));

    final String randomId = getRandomId();
    JobClient jClient = new JobClient(jobConf);
    Path jobDirectory = new Path(jClient.getSystemDir(), NAME + "_" + randomId);
    jobConf.set(JOB_DIR_LABEL, jobDirectory.toString());

    FileSystem dstfs = args.dst.getFileSystem(conf);
    boolean dstExists = dstfs.exists(args.dst);
    boolean dstIsDir = false;
    if (dstExists) {
      dstIsDir = dstfs.getFileStatus(args.dst).isDir();
    }

    // default logPath
    Path logPath = args.log;
    if (logPath == null) {
      String filename = "_distcp_logs_" + randomId;
      if (!dstExists || !dstIsDir) {
        Path parent = args.dst.getParent();
        if (!dstfs.exists(parent)) {
          dstfs.mkdirs(parent);
        }
        logPath = new Path(parent, filename);
      } else {
        logPath = new Path(args.dst, filename);
      }
    }
    FileOutputFormat.setOutputPath(jobConf, logPath);

    // create src list, dst list
    FileSystem jobfs = jobDirectory.getFileSystem(jobConf);

    Path srcfilelist = new Path(jobDirectory, "_distcp_src_files");
    jobConf.set(SRC_LIST_LABEL, srcfilelist.toString());
    SequenceFile.Writer src_writer =
        SequenceFile.createWriter(
            jobfs,
            jobConf,
            srcfilelist,
            LongWritable.class,
            FilePair.class,
            SequenceFile.CompressionType.NONE);

    Path dstfilelist = new Path(jobDirectory, "_distcp_dst_files");
    SequenceFile.Writer dst_writer =
        SequenceFile.createWriter(
            jobfs, jobConf, dstfilelist, Text.class, Text.class, SequenceFile.CompressionType.NONE);

    Path dstdirlist = new Path(jobDirectory, "_distcp_dst_dirs");
    jobConf.set(DST_DIR_LIST_LABEL, dstdirlist.toString());
    SequenceFile.Writer dir_writer =
        SequenceFile.createWriter(
            jobfs,
            jobConf,
            dstdirlist,
            Text.class,
            FilePair.class,
            SequenceFile.CompressionType.NONE);

    // handle the case where the destination directory doesn't exist
    // and we've only a single src directory OR we're updating/overwriting
    // the contents of the destination directory.
    final boolean special = (args.srcs.size() == 1 && !dstExists) || update || overwrite;
    int srcCount = 0, cnsyncf = 0, dirsyn = 0;
    long fileCount = 0L, byteCount = 0L, cbsyncs = 0L;
    try {
      for (Iterator<Path> srcItr = args.srcs.iterator(); srcItr.hasNext(); ) {
        final Path src = srcItr.next();
        FileSystem srcfs = src.getFileSystem(conf);
        FileStatus srcfilestat = srcfs.getFileStatus(src);
        Path root = special && srcfilestat.isDir() ? src : src.getParent();
        if (srcfilestat.isDir()) {
          ++srcCount;
        }

        Stack<FileStatus> pathstack = new Stack<FileStatus>();
        for (pathstack.push(srcfilestat); !pathstack.empty(); ) {
          FileStatus cur = pathstack.pop();
          FileStatus[] children = srcfs.listStatus(cur.getPath());
          for (int i = 0; i < children.length; i++) {
            boolean skipfile = false;
            final FileStatus child = children[i];
            final String dst = makeRelative(root, child.getPath());
            ++srcCount;

            if (child.isDir()) {
              pathstack.push(child);
            } else {
              // skip file if the src and the dst files are the same.
              skipfile = update && sameFile(srcfs, child, dstfs, new Path(args.dst, dst));
              // skip file if it exceed file limit or size limit
              skipfile |=
                  fileCount == args.filelimit || byteCount + child.getLen() > args.sizelimit;

              if (!skipfile) {
                ++fileCount;
                byteCount += child.getLen();

                if (LOG.isTraceEnabled()) {
                  LOG.trace("adding file " + child.getPath());
                }

                ++cnsyncf;
                cbsyncs += child.getLen();
                if (cnsyncf > SYNC_FILE_MAX || cbsyncs > BYTES_PER_MAP) {
                  src_writer.sync();
                  dst_writer.sync();
                  cnsyncf = 0;
                  cbsyncs = 0L;
                }
              }
            }

            if (!skipfile) {
              src_writer.append(
                  new LongWritable(child.isDir() ? 0 : child.getLen()), new FilePair(child, dst));
            }

            dst_writer.append(new Text(dst), new Text(child.getPath().toString()));
          }

          if (cur.isDir()) {
            String dst = makeRelative(root, cur.getPath());
            dir_writer.append(new Text(dst), new FilePair(cur, dst));
            if (++dirsyn > SYNC_FILE_MAX) {
              dirsyn = 0;
              dir_writer.sync();
            }
          }
        }
      }
    } finally {
      checkAndClose(src_writer);
      checkAndClose(dst_writer);
      checkAndClose(dir_writer);
    }

    FileStatus dststatus = null;
    try {
      dststatus = dstfs.getFileStatus(args.dst);
    } catch (FileNotFoundException fnfe) {
      LOG.info(args.dst + " does not exist.");
    }

    // create dest path dir if copying > 1 file
    if (dststatus == null) {
      if (srcCount > 1 && !dstfs.mkdirs(args.dst)) {
        throw new IOException("Failed to create" + args.dst);
      }
    }

    final Path sorted = new Path(jobDirectory, "_distcp_sorted");
    checkDuplication(jobfs, dstfilelist, sorted, conf);

    if (dststatus != null && args.flags.contains(Options.DELETE)) {
      deleteNonexisting(dstfs, dststatus, sorted, jobfs, jobDirectory, jobConf, conf);
    }

    Path tmpDir =
        new Path(
            (dstExists && !dstIsDir) || (!dstExists && srcCount == 1)
                ? args.dst.getParent()
                : args.dst,
            "_distcp_tmp_" + randomId);
    jobConf.set(TMP_DIR_LABEL, tmpDir.toUri().toString());
    LOG.info("srcCount=" + srcCount);
    jobConf.setInt(SRC_COUNT_LABEL, srcCount);
    jobConf.setLong(TOTAL_SIZE_LABEL, byteCount);
    setMapCount(byteCount, jobConf);
  }
示例#5
0
  /** Delete the dst files/dirs which do not exist in src */
  private static void deleteNonexisting(
      FileSystem dstfs,
      FileStatus dstroot,
      Path dstsorted,
      FileSystem jobfs,
      Path jobdir,
      JobConf jobconf,
      Configuration conf)
      throws IOException {
    if (!dstroot.isDir()) {
      throw new IOException(
          "dst must be a directory when option "
              + Options.DELETE.cmd
              + " is set, but dst (= "
              + dstroot.getPath()
              + ") is not a directory.");
    }

    // write dst lsr results
    final Path dstlsr = new Path(jobdir, "_distcp_dst_lsr");
    final SequenceFile.Writer writer =
        SequenceFile.createWriter(
            jobfs,
            jobconf,
            dstlsr,
            Text.class,
            FileStatus.class,
            SequenceFile.CompressionType.NONE);
    try {
      // do lsr to get all file statuses in dstroot
      final Stack<FileStatus> lsrstack = new Stack<FileStatus>();
      for (lsrstack.push(dstroot); !lsrstack.isEmpty(); ) {
        final FileStatus status = lsrstack.pop();
        if (status.isDir()) {
          for (FileStatus child : dstfs.listStatus(status.getPath())) {
            String relative = makeRelative(dstroot.getPath(), child.getPath());
            writer.append(new Text(relative), child);
            lsrstack.push(child);
          }
        }
      }
    } finally {
      checkAndClose(writer);
    }

    // sort lsr results
    final Path sortedlsr = new Path(jobdir, "_distcp_dst_lsr_sorted");
    SequenceFile.Sorter sorter =
        new SequenceFile.Sorter(
            jobfs, new Text.Comparator(), Text.class, FileStatus.class, jobconf);
    sorter.sort(dstlsr, sortedlsr);

    // compare lsr list and dst list
    SequenceFile.Reader lsrin = null;
    SequenceFile.Reader dstin = null;
    try {
      lsrin = new SequenceFile.Reader(jobfs, sortedlsr, jobconf);
      dstin = new SequenceFile.Reader(jobfs, dstsorted, jobconf);

      // compare sorted lsr list and sorted dst list
      final Text lsrpath = new Text();
      final FileStatus lsrstatus = new FileStatus();
      final Text dstpath = new Text();
      final Text dstfrom = new Text();
      final FsShell shell = new FsShell(conf);
      final String[] shellargs = {"-rmr", null};

      boolean hasnext = dstin.next(dstpath, dstfrom);
      for (; lsrin.next(lsrpath, lsrstatus); ) {
        int dst_cmp_lsr = dstpath.compareTo(lsrpath);
        for (; hasnext && dst_cmp_lsr < 0; ) {
          hasnext = dstin.next(dstpath, dstfrom);
          dst_cmp_lsr = dstpath.compareTo(lsrpath);
        }

        if (dst_cmp_lsr == 0) {
          // lsrpath exists in dst, skip it
          hasnext = dstin.next(dstpath, dstfrom);
        } else {
          // lsrpath does not exist, delete it
          String s = new Path(dstroot.getPath(), lsrpath.toString()).toString();
          if (shellargs[1] == null || !isAncestorPath(shellargs[1], s)) {
            shellargs[1] = s;
            int r = 0;
            try {
              r = shell.run(shellargs);
            } catch (Exception e) {
              throw new IOException("Exception from shell.", e);
            }
            if (r != 0) {
              throw new IOException(
                  "\"" + shellargs[0] + " " + shellargs[1] + "\" returns non-zero value " + r);
            }
          }
        }
      }
    } finally {
      checkAndClose(lsrin);
      checkAndClose(dstin);
    }
  }