Examples with ObjectNotFoundException org.vcell.util.ObjectNotFoundException used on opensource projects

Example 41 with ObjectNotFoundException

use of org.vcell.util.ObjectNotFoundException in project vcell by virtualcell.

the class RestDatabaseService method stopSimulation.

public SimulationRep stopSimulation(BiomodelSimulationStopServerResource resource, User vcellUser) throws PermissionException, ObjectNotFoundException, DataAccessException, SQLException {
    // resource.getRequestAttributes().get(VCellApiApplication.SIMDATAID);
    String simId = resource.getAttribute(VCellApiApplication.SIMULATIONID);
    KeyValue simKey = new KeyValue(simId);
    SimulationRep simRep = getSimulationRep(simKey);
    if (simRep == null) {
        throw new ObjectNotFoundException("Simulation with key " + simKey + " not found");
    }
    User owner = simRep.getOwner();
    if (!owner.compareEqual(vcellUser)) {
        throw new PermissionException("not authorized to stop simulation");
    }
    VCMessageSession rpcSession = vcMessagingService.createProducerSession();
    try {
        UserLoginInfo userLoginInfo = new UserLoginInfo(vcellUser.getName(), null);
        try {
            userLoginInfo.setUser(vcellUser);
        } catch (Exception e) {
            e.printStackTrace();
            throw new DataAccessException(e.getMessage());
        }
        RpcSimServerProxy rpcSimServerProxy = new RpcSimServerProxy(userLoginInfo, rpcSession);
        VCSimulationIdentifier vcSimID = new VCSimulationIdentifier(simKey, owner);
        rpcSimServerProxy.stopSimulation(vcellUser, vcSimID);
        return simRep;
    } finally {
        rpcSession.close();
    }
}

Example 42 with ObjectNotFoundException

use of org.vcell.util.ObjectNotFoundException in project vcell by virtualcell.

the class SimDataServerResource method getSimDataRepresentation.

private SimDataRepresentation getSimDataRepresentation(User vcellUser) {
    // if (!application.authenticate(getRequest(), getResponse())){
    // // not authenticated
    // return new SimulationTaskRepresentation[0];
    // }else{
    RestDatabaseService restDatabaseService = ((VCellApiApplication) getApplication()).getRestDatabaseService();
    try {
        DataSetMetadata dataSetMetadata = restDatabaseService.getDataSetMetadata(this, vcellUser);
        SimulationRep simRep = restDatabaseService.getSimulationRep(dataSetMetadata.getSimKey());
        SimDataRepresentation simDataRepresentation = new SimDataRepresentation(dataSetMetadata, simRep.getScanCount());
        return simDataRepresentation;
    } catch (PermissionException e) {
        e.printStackTrace();
        throw new ResourceException(Status.CLIENT_ERROR_UNAUTHORIZED, "not authorized");
    } catch (ObjectNotFoundException e) {
        e.printStackTrace();
        throw new ResourceException(Status.CLIENT_ERROR_NOT_FOUND, "simulation metadata not found");
    } catch (Exception e) {
        throw new ResourceException(Status.SERVER_ERROR_INTERNAL, e.getMessage());
    }
// }
}

Example 43 with ObjectNotFoundException

use of org.vcell.util.ObjectNotFoundException in project vcell by virtualcell.

the class DataSetControllerImpl method getFieldDataIdentifierSpecs_private.

private FieldDataIdentifierSpec[] getFieldDataIdentifierSpecs_private(FieldFunctionArguments[] fieldFuncArgumentsArr, User user, boolean bForceUpdate) throws DataAccessException {
    Vector<ExternalDataIdentifier> userExtDataIdentifiersV = userExtDataIDH.get(user);
    if (userExtDataIdentifiersV == null || userExtDataIdentifiersV.size() < fieldFuncArgumentsArr.length || bForceUpdate) {
        // must refresh
        ExternalDataIdentifierService extDataIDService = VCellServiceHelper.getInstance().loadService(ExternalDataIdentifierService.class);
        userExtDataIDH = extDataIDService.getAllExternalDataIdentifiers();
        userExtDataIdentifiersV = userExtDataIDH.get(user);
    }
    FieldDataIdentifierSpec[] fieldDataIdentifierSpecs = new FieldDataIdentifierSpec[fieldFuncArgumentsArr.length];
    Arrays.fill(fieldDataIdentifierSpecs, null);
    for (int i = 0; i < fieldFuncArgumentsArr.length; i++) {
        for (int j = 0; userExtDataIdentifiersV != null && j < userExtDataIdentifiersV.size(); j++) {
            if (fieldFuncArgumentsArr[i].getFieldName().equals(userExtDataIdentifiersV.elementAt(j).getName())) {
                fieldDataIdentifierSpecs[i] = new FieldDataIdentifierSpec(fieldFuncArgumentsArr[i], userExtDataIdentifiersV.elementAt(j));
                break;
            }
        }
        if (fieldDataIdentifierSpecs[i] == null) {
            throw new ObjectNotFoundException("The data locator for FieldData Function '" + fieldFuncArgumentsArr[i].getFieldName() + "' could not be found.");
        }
    }
    return fieldDataIdentifierSpecs;
}

Example 44 with ObjectNotFoundException

use of org.vcell.util.ObjectNotFoundException in project vcell by virtualcell.

the class DatabaseServerImpl method groupRemoveUser.

/**
 * This method was created in VisualAge.
 * @return void
 * @param key KeyValue
 * @exception org.vcell.util.DataAccessException The exception description.
 * @exception java.rmi.RemoteException The exception description.
 */
public VersionInfo groupRemoveUser(User user, VersionableType vType, KeyValue key, String userRemoveFromGroup, boolean isHiddenFromOwner) throws DataAccessException, ObjectNotFoundException {
    try {
        if (lg.isTraceEnabled())
            lg.trace("DatabaseServerImpl.groupRemoveUser(vType=" + vType.getTypeName() + ", Key=" + key + ", userRemoveFromGroup=" + userRemoveFromGroup + ")");
        dbTop.groupRemoveUser(user, vType, key, true, userRemoveFromGroup, isHiddenFromOwner);
        VersionInfo newVersionInfo = (VersionInfo) (dbTop.getVersionableInfos(user, key, vType, false, true, true).elementAt(0));
        return newVersionInfo;
    } catch (SQLException e) {
        lg.error(e.getMessage(), e);
        throw new DataAccessException(e.getMessage());
    } catch (ObjectNotFoundException e) {
        lg.error(e.getMessage(), e);
        throw new ObjectNotFoundException(e.getMessage());
    } catch (Throwable e) {
        lg.error(e.getMessage(), e);
        throw new DataAccessException(e.getMessage());
    }
}

Example 45 with ObjectNotFoundException

use of org.vcell.util.ObjectNotFoundException in project vcell by virtualcell.

the class DatabaseServerImpl method groupSetPublic.

/**
 * This method was created in VisualAge.
 * @return void
 * @param key KeyValue
 * @exception org.vcell.util.DataAccessException The exception description.
 * @exception java.rmi.RemoteException The exception description.
 */
public VersionInfo groupSetPublic(User user, VersionableType vType, KeyValue key) throws DataAccessException, ObjectNotFoundException {
    try {
        if (lg.isTraceEnabled())
            lg.trace("DatabaseServerImpl.groupSetPublic(vType=" + vType.getTypeName() + ", Key=" + key + ")");
        dbTop.groupSetPublic(user, vType, key, true);
        VersionInfo newVersionInfo = (VersionInfo) (dbTop.getVersionableInfos(user, key, vType, false, true, true).elementAt(0));
        return newVersionInfo;
    } catch (SQLException e) {
        lg.error(e.getMessage(), e);
        throw new DataAccessException(e.getMessage());
    } catch (ObjectNotFoundException e) {
        lg.error(e.getMessage(), e);
        throw new ObjectNotFoundException(e.getMessage());
    } catch (Throwable e) {
        lg.error(e.getMessage(), e);
        throw new DataAccessException(e.getMessage());
    }
}