Program: 5149
Project: 5149
Buggy source:
@Override public void initialize(TwillContext context){
  System.setSecurityManager(new RunnableSecurityManager(System.getSecurityManager()));
  runLatch=new CountDownLatch(1);
  coreServices=new ArrayList<>();
  name=context.getSpecification().getName();
  LOG.info("String_Node_Str" + name);
  try {
    CommandLine cmdLine=parseArgs(context.getApplicationArguments());
    hConf=new Configuration();
    hConf.clear();
    hConf.addResource(new File(cmdLine.getOptionValue(RunnableOptions.HADOOP_CONF_FILE)).toURI().toURL());
    UserGroupInformation.setConfiguration(hConf);
    cConf=CConfiguration.create(new File(cmdLine.getOptionValue(RunnableOptions.CDAP_CONF_FILE)));
    programOpts=createProgramOptions(cmdLine,context,context.getSpecification().getConfigs());
    String principal=programOpts.getArguments().getOption(ProgramOptionConstants.PRINCIPAL);
    ProgramId programId=GSON.fromJson(cmdLine.getOptionValue(RunnableOptions.PROGRAM_ID),ProgramId.class);
    Injector injector=Guice.createInjector(createModule(context,programId,principal));
    coreServices.add(injector.getInstance(ZKClientService.class));
    coreServices.add(injector.getInstance(KafkaClientService.class));
    coreServices.add(injector.getInstance(BrokerService.class));
    coreServices.add(injector.getInstance(MetricsCollectionService.class));
    coreServices.add(injector.getInstance(StreamCoordinatorClient.class));
    coreServices.add(injector.getInstance(AuthorizationEnforcementService.class));
    logAppenderInitializer=injector.getInstance(LogAppenderInitializer.class);
    logAppenderInitializer.initialize();
    programRunner=createProgramRunner(injector);
    try {
      Location programJarLocation=Locations.toLocation(new File(cmdLine.getOptionValue(RunnableOptions.JAR)));
      ApplicationSpecification appSpec=readAppSpec(new File(cmdLine.getOptionValue(RunnableOptions.APP_SPEC_FILE)));
      program=Programs.create(cConf,programRunner,new ProgramDescriptor(programId,appSpec),programJarLocation,BundleJarUtil.unJar(programJarLocation,Files.createTempDir()));
    }
 catch (    IOException e) {
      throw Throwables.propagate(e);
    }
    coreServices.add(new ProgramRunnableResourceReporter(program.getId(),injector.getInstance(MetricsCollectionService.class),context));
    LOG.info("String_Node_Str",name);
  }
 catch (  Throwable t) {
    LOG.error(t.getMessage(),t);
    throw Throwables.propagate(t);
  }
}

Fixed version (ground truth):
@Override public void initialize(TwillContext context){
  Thread.setDefaultUncaughtExceptionHandler(new UncaughtExceptionHandler());
  System.setSecurityManager(new RunnableSecurityManager(System.getSecurityManager()));
  runLatch=new CountDownLatch(1);
  coreServices=new ArrayList<>();
  name=context.getSpecification().getName();
  LOG.info("String_Node_Str" + name);
  try {
    CommandLine cmdLine=parseArgs(context.getApplicationArguments());
    hConf=new Configuration();
    hConf.clear();
    hConf.addResource(new File(cmdLine.getOptionValue(RunnableOptions.HADOOP_CONF_FILE)).toURI().toURL());
    UserGroupInformation.setConfiguration(hConf);
    cConf=CConfiguration.create(new File(cmdLine.getOptionValue(RunnableOptions.CDAP_CONF_FILE)));
    programOpts=createProgramOptions(cmdLine,context,context.getSpecification().getConfigs());
    String principal=programOpts.getArguments().getOption(ProgramOptionConstants.PRINCIPAL);
    ProgramId programId=GSON.fromJson(cmdLine.getOptionValue(RunnableOptions.PROGRAM_ID),ProgramId.class);
    Injector injector=Guice.createInjector(createModule(context,programId,principal));
    coreServices.add(injector.getInstance(ZKClientService.class));
    coreServices.add(injector.getInstance(KafkaClientService.class));
    coreServices.add(injector.getInstance(BrokerService.class));
    coreServices.add(injector.getInstance(MetricsCollectionService.class));
    coreServices.add(injector.getInstance(StreamCoordinatorClient.class));
    coreServices.add(injector.getInstance(AuthorizationEnforcementService.class));
    logAppenderInitializer=injector.getInstance(LogAppenderInitializer.class);
    logAppenderInitializer.initialize();
    programRunner=createProgramRunner(injector);
    try {
      Location programJarLocation=Locations.toLocation(new File(cmdLine.getOptionValue(RunnableOptions.JAR)));
      ApplicationSpecification appSpec=readAppSpec(new File(cmdLine.getOptionValue(RunnableOptions.APP_SPEC_FILE)));
      program=Programs.create(cConf,programRunner,new ProgramDescriptor(programId,appSpec),programJarLocation,BundleJarUtil.unJar(programJarLocation,Files.createTempDir()));
    }
 catch (    IOException e) {
      throw Throwables.propagate(e);
    }
    coreServices.add(new ProgramRunnableResourceReporter(program.getId(),injector.getInstance(MetricsCollectionService.class),context));
    LOG.info("String_Node_Str",name);
  }
 catch (  Throwable t) {
    LOG.error(t.getMessage(),t);
    throw Throwables.propagate(t);
  }
}