I need to chain two MapReduce jobs. I used JobControl to set job2 as dependent of job1. It works, output files are created!! But it doesn't stop! In the shell it remains in this state:
12/09/11 19:06:24 WARN mapred.JobClient: Use GenericOptionsParser for parsing the arguments. Applications should implement Tool for the same.
12/09/11 19:06:25 INFO input.FileInputFormat: Total input paths to process : 1
12/09/11 19:06:25 INFO util.NativeCodeLoader: Loaded the native-hadoop library
12/09/11 19:06:25 WARN snappy.LoadSnappy: Snappy native library not loaded
12/09/11 19:07:00 WARN mapred.JobClient: Use GenericOptionsParser for parsing the arguments. Applications should implement Tool for the same.
12/09/11 19:07:00 INFO input.FileInputFormat: Total input paths to process : 1
How can I stop it? This is my main.
public static void main(String[] args) throws Exception {
    Configuration conf = new Configuration();
    Configuration conf2 = new Configuration();
    Job job1 = new Job(conf, "canzoni");
    job1.setJarByClass(CanzoniOrdinate.class);
    job1.setMapperClass(CanzoniMapper.class);
    job1.setReducerClass(CanzoniReducer.class);
    job1.setOutputKeyClass(Text.class);
    job1.setOutputValueClass(IntWritable.class);
    ControlledJob cJob1 = new ControlledJob(conf);
    cJob1.setJob(job1);
    FileInputFormat.addInputPath(job1, new Path(args[0]));
    FileOutputFormat.setOutputPath(job1, new Path("/user/hduser/tmp"));
    Job job2 = new Job(conf2, "songsort");
    job2.setJarByClass(CanzoniOrdinate.class);
    job2.setMapperClass(CanzoniSorterMapper.class);
    job2.setSortComparatorClass(ReverseOrder.class);
    job2.setInputFormatClass(KeyValueTextInputFormat.class);
    job2.setReducerClass(CanzoniSorterReducer.class);
    job2.setMapOutputKeyClass(IntWritable.class);
    job2.setMapOutputValueClass(Text.class);
    job2.setOutputKeyClass(Text.class);
    job2.setOutputValueClass(IntWritable.class);
    ControlledJob cJob2 = new ControlledJob(conf2);
    cJob2.setJob(job2);
    FileInputFormat.addInputPath(job2, new Path("/user/hduser/tmp/part*"));
    FileOutputFormat.setOutputPath(job2, new Path(args[1]));
    JobControl jobctrl = new JobControl("jobctrl");
    jobctrl.addJob(cJob1);
    jobctrl.addJob(cJob2);
    cJob2.addDependingJob(cJob1);
    jobctrl.run();
    ////////////////
    // NEW CODE ///   
    //////////////
    // delete jobctrl.run();
    Thread t = new Thread(jobctrl);
    t.start();
    String oldStatusJ1 = null;
    String oldStatusJ2 = null;
    while (!jobctrl.allFinished()) {
      String status =cJob1.toString();
      String status2 =cJob2.toString();
      if (!status.equals(oldStatusJ1)) {
        System.out.println(status);
        oldStatusJ1 = status;
      }
      if (!status2.equals(oldStatusJ2)) {
        System.out.println(status2);
        oldStatusJ2 = status2;
      }     
     }
    System.exit(0);
} }
I essentially did what Pietro alluded to above.
public class JobRunner implements Runnable {
  private JobControl control;
  public JobRunner(JobControl _control) {
    this.control = _control;
  }
  public void run() {
    this.control.run();
  }
}
and in my map/reduce class I have:
public void handleRun(JobControl control) throws InterruptedException {
    JobRunner runner = new JobRunner(control);
    Thread t = new Thread(runner);
    t.start();
    while (!control.allFinished()) {
        System.out.println("Still running...");
        Thread.sleep(5000);
    }
}
in which I just pass the jobControl object.
The JobControl object itself is Runnable, so you can just use it like this:
new Thread(myJobControlInstance).start()
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