Examples with VCMessagingException cbit.vcell.message.VCMessagingException used on opensource projects

Example 6 with VCMessagingException

use of cbit.vcell.message.VCMessagingException in project vcell by virtualcell.

the class HtcSimulationWorker method initQueueConsumer.

private void initQueueConsumer() {
    this.sharedMessageProducer = vcMessagingService.createProducerSession();
    QueueListener queueListener = new QueueListener() {

        @Override
        public void onQueueMessage(VCMessage vcMessage, VCMessageSession session) throws RollbackException {
            SimulationTask simTask = null;
            try {
                SimulationTaskMessage simTaskMessage = new SimulationTaskMessage(vcMessage);
                simTask = simTaskMessage.getSimulationTask();
                if (lg.isInfoEnabled()) {
                    lg.info("onQueueMessage() run simulation key=" + simTask.getSimKey() + ", job=" + simTask.getSimulationJobID() + ", task=" + simTask.getTaskID() + " for user " + simTask.getUserName());
                }
                PostProcessingChores rd = choresFor(simTask);
                HtcProxy clonedHtcProxy = htcProxy.cloneThreadsafe();
                if (lg.isInfoEnabled()) {
                    lg.info("onQueueMessage() submit job: simulation key=" + simTask.getSimKey() + ", job=" + simTask.getSimulationJobID() + ", task=" + simTask.getTaskID() + " for user " + simTask.getUserName());
                }
                HtcJobID pbsId = submit2PBS(simTask, clonedHtcProxy, rd);
                if (lg.isInfoEnabled()) {
                    lg.info("onQueueMessage() sending 'accepted' message for job: simulation key=" + simTask.getSimKey() + ", job=" + simTask.getSimulationJobID() + ", task=" + simTask.getTaskID() + " for user " + simTask.getUserName());
                }
                synchronized (sharedMessageProducer) {
                    WorkerEventMessage.sendAccepted(sharedMessageProducer, HtcSimulationWorker.class.getName(), simTask, ManageUtils.getHostName(), pbsId);
                }
                if (lg.isInfoEnabled()) {
                    lg.info("onQueueMessage() sent 'accepted' message for job: simulation key=" + simTask.getSimKey() + ", job=" + simTask.getSimulationJobID() + ", task=" + simTask.getTaskID() + " for user " + simTask.getUserName());
                }
            } catch (Exception e) {
                lg.error(e.getMessage(), e);
                if (simTask != null) {
                    try {
                        lg.error("failed to process simTask request: " + e.getMessage() + " for simulation key=" + simTask.getSimKey() + ", job=" + simTask.getSimulationJobID() + ", task=" + simTask.getTaskID() + " for user " + simTask.getUserName(), e);
                        synchronized (sharedMessageProducer) {
                            WorkerEventMessage.sendFailed(sharedMessageProducer, HtcSimulationWorker.class.getName(), simTask, ManageUtils.getHostName(), SimulationMessage.jobFailed(e.getMessage()));
                        }
                        lg.error("sent 'failed' message for simulation key=" + simTask.getSimKey() + ", job=" + simTask.getSimulationJobID() + ", task=" + simTask.getTaskID() + " for user " + simTask.getUserName(), e);
                    } catch (VCMessagingException e1) {
                        lg.error(e1.getMessage(), e);
                    }
                } else {
                    lg.error("failed to process simTask request: " + e.getMessage(), e);
                }
            }
        }
    };
    int numHtcworkerThreads = Integer.parseInt(PropertyLoader.getProperty(PropertyLoader.htcworkerThreadsProperty, "5"));
    this.pooledQueueConsumer = new VCPooledQueueConsumer(queueListener, numHtcworkerThreads, sharedMessageProducer);
    this.pooledQueueConsumer.initThreadPool();
    VCellQueue queue = VCellQueue.SimJobQueue;
    VCMessageSelector selector = vcMessagingService.createSelector(getJobSelector());
    String threadName = "SimJob Queue Consumer";
    queueConsumer = new VCQueueConsumer(queue, pooledQueueConsumer, selector, threadName, MessageConstants.PREFETCH_LIMIT_SIM_JOB_HTC);
    vcMessagingService.addMessageConsumer(queueConsumer);
}

Example 7 with VCMessagingException

use of cbit.vcell.message.VCMessagingException in project vcell by virtualcell.

the class SolverPostprocessor method main.

public static void main(java.lang.String[] args) {
    if (args.length < NUM_STD_ARGS) {
        System.out.println("Usage: " + SolverPostprocessor.class.getName() + " simKey username userKey jobindex taskid solverExitCode [postProcessorCommandFile]");
        System.exit(1);
    }
    Logging.init();
    Log4jSessionLog log = new Log4jSessionLog(LOG_NAME);
    Logger lg = log.getLogger();
    VCMessagingService vcMessagingService = null;
    try {
        PropertyLoader.loadProperties(POST_PROCESSOR_PROPERTIES);
        ResourceUtil.setNativeLibraryDirectory();
        NativeLoader.setOsType(OsType.LINUX);
        KeyValue simKey = new KeyValue(args[0]);
        String userName = args[1];
        KeyValue userKey = new KeyValue(args[2]);
        int jobIndex = Integer.parseInt(args[3]);
        int taskID = Integer.parseInt(args[4]);
        int solverExitCode = Integer.parseInt(args[5]);
        User owner = new User(userName, userKey);
        VCSimulationIdentifier vcSimID = new VCSimulationIdentifier(simKey, owner);
        String hostName = ManageUtils.getHostName();
        VCMongoMessage.serviceStartup(ServiceName.solverPostprocessor, Integer.valueOf(simKey.toString()), args);
        // 
        // JMX registration
        // 
        MBeanServer mbs = ManagementFactory.getPlatformMBeanServer();
        mbs.registerMBean(new VCellServiceMXBeanImpl(), new ObjectName(VCellServiceMXBean.jmxObjectName));
        vcMessagingService = VCellServiceHelper.getInstance().loadService(VCMessagingService.class);
        vcMessagingService.setDelegate(new ServerMessagingDelegate());
        VCMessageSession session = vcMessagingService.createProducerSession();
        WorkerEventMessage workerEventMessage;
        if (solverExitCode == 0) {
            Exception postProcessingException = null;
            if (args.length > NUM_STD_ARGS) {
                String fname = args[NUM_STD_ARGS];
                if (lg.isDebugEnabled()) {
                    lg.debug("processing " + fname);
                }
                postProcessingException = runPostprocessingCommands(fname, lg);
            }
            if (lg.isDebugEnabled()) {
                lg.debug("postProcessingException is " + postProcessingException);
            }
            if (postProcessingException == null) {
                lg.debug("sendWorkerExitNormal");
                workerEventMessage = WorkerEventMessage.sendWorkerExitNormal(session, SolverPostprocessor.class.getName(), hostName, vcSimID, jobIndex, taskID, solverExitCode);
            } else {
                lg.debug("sendWorkerExitError postprocessing");
                workerEventMessage = WorkerEventMessage.sendWorkerExitError(session, postProcessingException, hostName, vcSimID, jobIndex, taskID, SimulationMessage.WorkerExited(postProcessingException));
            }
        } else {
            // solverExitCode != 0
            lg.debug("sendWorkerExitError solverExitCode");
            workerEventMessage = WorkerEventMessage.sendWorkerExitError(session, SolverPostprocessor.class.getName(), hostName, vcSimID, jobIndex, taskID, solverExitCode);
        }
        lg.debug(workerEventMessage);
        VCMongoMessage.sendWorkerEvent(workerEventMessage);
    } catch (Throwable e) {
        log.exception(e);
    } finally {
        if (vcMessagingService != null) {
            try {
                vcMessagingService.close();
            } catch (VCMessagingException e) {
                e.printStackTrace();
            }
        }
        ApplicationTerminator.beginCountdown(TimeUnit.SECONDS, 10, 0);
        VCMongoMessage.shutdown();
        System.exit(0);
    }
}

Example 8 with VCMessagingException

use of cbit.vcell.message.VCMessagingException in project vcell by virtualcell.

the class SolverPreprocessor method main.

public static void main(java.lang.String[] args) {
    if (args.length < 2) {
        System.out.print(SolverPreprocessor.class.getName() + " ");
        System.out.println(Arrays.toString(args));
        System.out.println("Missing arguments: " + SolverPreprocessor.class.getName() + " [simulationTaskFile] [userdir] <parallel dir> ");
        System.exit(1);
    }
    File parallelDirectory = null;
    if (args.length >= 3) {
        parallelDirectory = new File(args[2]);
        if (!parallelDirectory.exists()) {
            parallelDirectory.mkdirs();
        }
        if (!parallelDirectory.isDirectory() || !parallelDirectory.canWrite()) {
            throw new IllegalArgumentException(parallelDirectory.getAbsolutePath() + " is not a writeable directory");
        }
    }
    Logging.init();
    try {
        PropertyLoader.loadProperties();
        // 
        File simulationFile = new File(args[0]);
        final SimulationTask simTask = XmlHelper.XMLToSimTask(FileUtils.readFileToString(simulationFile));
        if (parallelDirectory != null) {
            // simulation task needs to be written to the "parallel directory" (a temporary directory) here (it is local to the cluster).
            FileUtils.copyFile(simulationFile, new File(parallelDirectory, simulationFile.getName()));
        }
        File userDirectory = new File(args[1]);
        final String hostName = null;
        VCMongoMessage.serviceStartup(ServiceName.solverPreprocessor, Integer.valueOf(simTask.getSimKey().toString()), args);
        // 
        // JMX registration
        // 
        MBeanServer mbs = ManagementFactory.getPlatformMBeanServer();
        mbs.registerMBean(new VCellServiceMXBeanImpl(), new ObjectName(VCellServiceMXBean.jmxObjectName));
        final HTCSolver htcSolver = new HTCSolver(simTask, userDirectory, parallelDirectory) {

            public void startSolver() {
                try {
                    super.initialize();
                } catch (Exception e) {
                    e.printStackTrace();
                    SimulationMessage simMessage = SimulationMessage.jobFailed(e.getMessage());
                    try {
                        sendFailureAndExit(this, simTask, hostName, simMessage);
                    } catch (Exception e1) {
                        e1.printStackTrace();
                    }
                }
            }

            public void stopSolver() {
            }

            public double getCurrentTime() {
                return 0;
            }

            public double getProgress() {
                return 0;
            }
        };
        SolverListener solverListener = new SolverListener() {

            public void solverStopped(SolverEvent event) {
                VCMongoMessage.sendSolverEvent(event);
                try {
                    sendFailureAndExit(htcSolver, simTask, hostName, event.getSimulationMessage());
                } catch (Exception e) {
                    e.printStackTrace();
                }
            }

            public void solverStarting(SolverEvent event) {
                VCMongoMessage.sendSolverEvent(event);
            }

            public void solverProgress(SolverEvent event) {
                VCMongoMessage.sendSolverEvent(event);
            }

            public void solverPrinted(SolverEvent event) {
                VCMongoMessage.sendSolverEvent(event);
            }

            public void solverFinished(SolverEvent event) {
                VCMongoMessage.sendSolverEvent(event);
            }

            public void solverAborted(SolverEvent event) {
                VCMongoMessage.sendSolverEvent(event);
                try {
                    sendFailureAndExit(htcSolver, simTask, hostName, event.getSimulationMessage());
                } catch (VCMessagingException e) {
                    e.printStackTrace();
                }
            }
        };
        htcSolver.addSolverListener(solverListener);
        htcSolver.startSolver();
        VCMongoMessage.sendInfo("preprocessor done");
        exitWithCode(0);
    } catch (Throwable e) {
        lg.error(e.getMessage(), e);
        exitWithCode(-1);
    }
}

Example 9 with VCMessagingException

use of cbit.vcell.message.VCMessagingException in project vcell by virtualcell.

the class VCMessagingServiceEmbedded method init.

private void init() throws VCMessagingException {
    this.broker = new BrokerService();
    this.broker.setPersistent(false);
    this.broker.setUseJmx(false);
    try {
        // TransportConnector connector = new TransportConnector();
        // String jmsUrl = PropertyLoader.getRequiredProperty(PropertyLoader.jmsURL);
        // connector.setUri(new URI(jmsUrl));
        // broker.addConnector(connector);
        broker.start();
    } catch (Exception e) {
        e.printStackTrace();
        throw new VCMessagingException(e.getMessage(), e);
    }
}

Example 10 with VCMessagingException

use of cbit.vcell.message.VCMessagingException in project vcell by virtualcell.

the class SimDataServer method exportMessage.

/**
 * Insert the method's description here.
 * Creation date: (7/29/2003 10:34:11 AM)
 * @param event cbit.rmi.event.ExportEvent
 */
public void exportMessage(cbit.rmi.event.ExportEvent event) {
    try {
        VCMessageSession dataSession = vcMessagingService.createProducerSession();
        VCMessage exportEventMessage = dataSession.createObjectMessage(event);
        exportEventMessage.setStringProperty(VCMessagingConstants.MESSAGE_TYPE_PROPERTY, MessageConstants.MESSAGE_TYPE_EXPORT_EVENT_VALUE);
        exportEventMessage.setStringProperty(VCMessagingConstants.USERNAME_PROPERTY, event.getUser().getName());
        dataSession.sendTopicMessage(VCellTopic.ClientStatusTopic, exportEventMessage);
        dataSession.close();
    } catch (VCMessagingException ex) {
        lg.error(ex.getMessage(), ex);
    }
}