Examples with SimulationJobStatus cbit.vcell.server.SimulationJobStatus used on opensource projects

Example 6 with SimulationJobStatus

use of cbit.vcell.server.SimulationJobStatus in project vcell by virtualcell.

the class SimulationStateMachine method onStopRequest.

public synchronized void onStopRequest(User user, SimulationJobStatus simJobStatus, SimulationDatabase simulationDatabase, VCMessageSession session) throws VCMessagingException, DataAccessException, SQLException {
    updateSolverProcessTimestamp();
    if (!user.equals(simJobStatus.getVCSimulationIdentifier().getOwner())) {
        lg.error(user + " is not authorized to stop simulation (key=" + simKey + ")");
        StatusMessage message = new StatusMessage(new SimulationJobStatus(VCellServerID.getSystemServerID(), simJobStatus.getVCSimulationIdentifier(), 0, null, SchedulerStatus.FAILED, 0, SimulationMessage.workerFailure("You are not authorized to stop this simulation!"), null, null), user.getName(), null, null);
        message.sendToClient(session);
        VCMongoMessage.sendInfo("onStopRequest(" + simJobStatus.getVCSimulationIdentifier() + ") ignoring stop simulation request - wrong user)");
        return;
    }
    // stop latest task if active
    SchedulerStatus schedulerStatus = simJobStatus.getSchedulerStatus();
    int taskID = simJobStatus.getTaskID();
    if (schedulerStatus.isActive()) {
        SimulationQueueEntryStatus simQueueEntryStatus = simJobStatus.getSimulationQueueEntryStatus();
        SimulationExecutionStatus simExeStatus = simJobStatus.getSimulationExecutionStatus();
        SimulationJobStatus newJobStatus = new SimulationJobStatus(simJobStatus.getServerID(), simJobStatus.getVCSimulationIdentifier(), jobIndex, simJobStatus.getSubmitDate(), SchedulerStatus.STOPPED, taskID, SimulationMessage.solverStopped("simulation stopped by user"), simQueueEntryStatus, simExeStatus);
        // 
        if (lg.isTraceEnabled())
            lg.trace("send " + MessageConstants.MESSAGE_TYPE_STOPSIMULATION_VALUE + " to " + VCellTopic.ServiceControlTopic.getName() + " topic");
        VCMessage msg = session.createMessage();
        msg.setStringProperty(VCMessagingConstants.MESSAGE_TYPE_PROPERTY, MessageConstants.MESSAGE_TYPE_STOPSIMULATION_VALUE);
        msg.setLongProperty(MessageConstants.SIMKEY_PROPERTY, Long.parseLong(simKey + ""));
        msg.setIntProperty(MessageConstants.JOBINDEX_PROPERTY, jobIndex);
        msg.setIntProperty(MessageConstants.TASKID_PROPERTY, taskID);
        msg.setStringProperty(VCMessagingConstants.USERNAME_PROPERTY, user.getName());
        if (simExeStatus.getHtcJobID() != null) {
            msg.setStringProperty(MessageConstants.HTCJOBID_PROPERTY, simExeStatus.getHtcJobID().toDatabase());
        }
        session.sendTopicMessage(VCellTopic.ServiceControlTopic, msg);
        simulationDatabase.updateSimulationJobStatus(newJobStatus);
        // addStateMachineTransition(new StateMachineTransition(new StopStateMachineEvent(taskID), simJobStatus, newJobStatus));
        // update client
        StatusMessage message = new StatusMessage(newJobStatus, user.getName(), null, null);
        message.sendToClient(session);
    }
}

Example 7 with SimulationJobStatus

use of cbit.vcell.server.SimulationJobStatus in project vcell by virtualcell.

the class SimulationDispatcherEngine method onStopRequest.

public void onStopRequest(VCSimulationIdentifier vcSimID, User user, SimulationDatabase simulationDatabase, VCMessageSession session) throws DataAccessException, VCMessagingException, SQLException {
    KeyValue simKey = vcSimID.getSimulationKey();
    SimulationJobStatus[] allActiveSimJobStatusArray = simulationDatabase.getActiveJobs(VCellServerID.getSystemServerID());
    ArrayList<SimulationJobStatus> simJobStatusArray = new ArrayList<SimulationJobStatus>();
    for (SimulationJobStatus activeSimJobStatus : allActiveSimJobStatusArray) {
        if (activeSimJobStatus.getVCSimulationIdentifier().getSimulationKey().equals(vcSimID.getSimulationKey())) {
            simJobStatusArray.add(activeSimJobStatus);
        }
    }
    for (SimulationJobStatus simJobStatus : simJobStatusArray) {
        SimulationStateMachine simStateMachine = getSimulationStateMachine(simKey, simJobStatus.getJobIndex());
        try {
            simStateMachine.onStopRequest(user, simJobStatus, simulationDatabase, session);
        } catch (UpdateSynchronizationException e) {
            simStateMachine.onStopRequest(user, simJobStatus, simulationDatabase, session);
        }
    }
}

Example 8 with SimulationJobStatus

use of cbit.vcell.server.SimulationJobStatus in project vcell by virtualcell.

the class SimulationDatabaseDirect method translateToSimulationJobStatusTransient.

private SimulationJobStatus translateToSimulationJobStatusTransient(SimulationJobStatusPersistent simJobStatus) {
    VCellServerID serverID = simJobStatus.getServerID();
    VCSimulationIdentifier vcSimID = simJobStatus.getVCSimulationIdentifier();
    int jobIndex = simJobStatus.getJobIndex();
    Date submitDate = simJobStatus.getSubmitDate();
    SchedulerStatus schedulerStatus = SimulationJobStatus.SchedulerStatus.valueOf(simJobStatus.getSchedulerStatus().name());
    int taskID = simJobStatus.getTaskID();
    SimulationMessage simMessage = SimulationMessage.fromSerializedMessage(simJobStatus.getSimulationMessage().toSerialization());
    Date queueDate = simJobStatus.getSimulationQueueEntryStatus().getQueueDate();
    int queuePriority = simJobStatus.getSimulationQueueEntryStatus().getQueuePriority();
    SimulationQueueID queueId = SimulationJobStatus.SimulationQueueID.valueOf(simJobStatus.getSimulationQueueEntryStatus().getQueueID().name());
    SimulationQueueEntryStatus simQueueStatus = new SimulationQueueEntryStatus(queueDate, queuePriority, queueId);
    SimulationExecutionStatus simExecStatus = new SimulationExecutionStatus(simJobStatus.getSimulationExecutionStatus().getStartDate(), simJobStatus.getSimulationExecutionStatus().getComputeHost(), simJobStatus.getSimulationExecutionStatus().getLatestUpdateDate(), simJobStatus.getSimulationExecutionStatus().getEndDate(), simJobStatus.getSimulationExecutionStatus().hasData(), simJobStatus.getSimulationExecutionStatus().getHtcJobID());
    SimulationJobStatus simJobStatusTransient = new SimulationJobStatus(serverID, vcSimID, jobIndex, submitDate, schedulerStatus, taskID, simMessage, simQueueStatus, simExecStatus);
    return simJobStatusTransient;
}

Example 9 with SimulationJobStatus

use of cbit.vcell.server.SimulationJobStatus in project vcell by virtualcell.

the class SimulationDatabaseDirect method translateToSimpleJobStatusTransient.

private SimpleJobStatus translateToSimpleJobStatusTransient(SimpleJobStatusPersistent simpleJobStatusPersistent, SimulationJobStatus cachedSimulationJobStatus, StateInfo cachedStateInfo) {
    SimulationJobStatus simJobStatus = null;
    if (cachedSimulationJobStatus != null) {
        simJobStatus = cachedSimulationJobStatus;
    } else {
        simJobStatus = translateToSimulationJobStatusTransient(simpleJobStatusPersistent.jobStatus);
    }
    SimpleJobStatus simpleJobStatus = new SimpleJobStatus(simpleJobStatusPersistent.simulationMetadata, simpleJobStatusPersistent.simulationDocumentLink, simJobStatus, cachedStateInfo);
    return simpleJobStatus;
}

Example 10 with SimulationJobStatus

use of cbit.vcell.server.SimulationJobStatus in project vcell by virtualcell.

the class SimulationDatabaseDirect method queryJobs.

@Override
public SimulationJobStatus[] queryJobs(SimpleJobStatusQuerySpec simStatusQuerySpec) throws ObjectNotFoundException, DataAccessException {
    // 
    // create corresponding SimpleJobStatus[] from SimpleJobStatusPersistent[]
    // 1) get SimpleJobStatusPersistent from database (with stored status, metadata, and documentLinks - but no stateInfo)
    // 2) if already in cache, use SimulationJobStatus and stateInfo from cache.
    // 3) if not in cache, use SimulationJobStatus from database and no stateInfo, populate cache.
    // 
    List<SimulationJobStatusPersistent> simpleJobStatusPersistentList = databaseServerImpl.getSimulationJobStatus(simStatusQuerySpec);
    ArrayList<SimulationJobStatus> simulationJobStatusList = new ArrayList<SimulationJobStatus>();
    for (SimulationJobStatusPersistent simJobStatusDb : simpleJobStatusPersistentList) {
        SimJobStatusKey key = new SimJobStatusKey(simJobStatusDb.getVCSimulationIdentifier().getSimulationKey(), simJobStatusDb.getJobIndex(), simJobStatusDb.getTaskID());
        SimStatusCacheEntry simStatusCacheEntry = cache.get(key);
        // TODO need to get this from memory cache.
        StateInfo cachedStateInfo = null;
        SimulationJobStatus latestSimulationJobStatus = null;
        if (simStatusCacheEntry != null) {
            cachedStateInfo = simStatusCacheEntry.stateInfo;
            latestSimulationJobStatus = simStatusCacheEntry.jobStatus;
        } else {
            latestSimulationJobStatus = translateToSimulationJobStatusTransient(simJobStatusDb);
            cache.put(key, new SimStatusCacheEntry(latestSimulationJobStatus, null));
        }
        SimulationJobStatus simulationJobStatus = translateToSimulationJobStatusTransient(simJobStatusDb);
        // uses latest SimulationJobStatus and StateInfo.
        simulationJobStatusList.add(simulationJobStatus);
    }
    return simulationJobStatusList.toArray(new SimulationJobStatus[simulationJobStatusList.size()]);
}