Examples with DataPort org.apache.airavata.workflow.model.graph.DataPort used on opensource projects

Example 91 with DataPort

use of org.apache.airavata.workflow.model.graph.DataPort in project airavata by apache.

the class WorkflowInterpreter method setupNodeDetailsInput.

private void setupNodeDetailsInput(Node node, WorkflowNodeDetails nodeDetails) {
    List<DataPort> inputPorts = node.getInputPorts();
    for (DataPort dataPort : inputPorts) {
        Node fromNode = dataPort.getFromNode();
        String portInputValue = null;
        if (fromNode instanceof InputNode) {
            portInputValue = (String) ((InputNode) fromNode).getDefaultValue();
        } else if (fromNode instanceof WSNode) {
            Map<String, String> outputData = nodeOutputData.get(fromNode);
            portInputValue = outputData.get(dataPort.getName());
            if (portInputValue == null) {
                portInputValue = outputData.get(dataPort.getEdge(0).getFromPort().getName());
            }
        }
        // 123456789
        InputDataObjectType elem = new InputDataObjectType();
        elem.setName(dataPort.getName());
        elem.setValue(portInputValue);
        if (dataPort instanceof WSPort) {
            WSPort port = (WSPort) dataPort;
            elem.setInputOrder(port.getComponentPort().getInputOrder());
            elem.setApplicationArgument((port.getComponentPort().getApplicationArgument() != null ? port.getComponentPort().getApplicationArgument() : ""));
            elem.setType(port.getType());
        }
        nodeDetails.addToNodeInputs(elem);
    }
    try {
        getExperimentCatalog().update(ExperimentCatalogModelType.WORKFLOW_NODE_DETAIL, nodeDetails, nodeDetails.getNodeInstanceId());
    } catch (RegistryException e) {
        log.error(e.getMessage(), e);
    }
}

Example 92 with DataPort

use of org.apache.airavata.workflow.model.graph.DataPort in project airavata by apache.

the class WorkflowInterpreter method runInThread.

private void runInThread(final LinkedList<String> listOfValues, ForEachNode forEachNode, final Node middleNode, List<Node> endForEachNodes, Map<Node, Invoker> tempInvoker, AtomicInteger counter, final Integer[] inputNumber) throws WorkflowException, RegistryException, TException {
    final LinkedList<String> taskIdList = new LinkedList<String>();
    if (inputNumber.length > 1) {
        List<String> inputValues = createInputValues(listOfValues, inputNumber);
        for (final Iterator<String> iterator = inputValues.iterator(); iterator.hasNext(); ) {
            final String input = iterator.next();
            WSComponent wsComponent = (WSComponent) middleNode.getComponent();
            final String invoker2 = createInvokerForEachSingleWSNode(middleNode, wsComponent);
            taskIdList.add(invoker2);
            try {
                Thread.sleep(3000);
            } catch (InterruptedException e) {
                log.error(e.getLocalizedMessage(), e);
            }
        }
    } else {
        String invoker = null;
        for (Iterator<String> iterator = listOfValues.iterator(); iterator.hasNext(); ) {
            String input = iterator.next();
            WSComponent wsComponent = (WSComponent) middleNode.getComponent();
            taskIdList.add(invoker);
            // find inputs
            List<DataPort> inputPorts = middleNode.getInputPorts();
            // for (DataPort port : inputPorts) {
            // Object inputVal = InterpreterUtil.findInputFromPort(port, this.invokerMap);
            // /*
            // * Handle ForEachNode
            // */
            // Node fromNode = port.getFromNode();
            // // if (fromNode instanceof ForEachNode) {
            // inputVal = WorkflowInputUtil.parseValue((WSComponentPort) port.getComponentPort(), input);
            // // }
            // 
            // if (null == inputVal) {
            // throw new WorkFlowInterpreterException("Unable to find inputs for the node:" + middleNode.getID());
            // }
            // }
            invoker = createInvokerForEachSingleWSNode(middleNode, wsComponent);
        }
    }
    // String arrayElementName = foreachWSNode.getOperationName() +
    // "ArrayResponse";
    // String outputStr = "<" + arrayElementName + ">";
    // invokerMap size and endForEachNodes size can be difference
    // because we can create endForEachNode with n number of input/output
    // ports so always have to use
    // middleNode.getOutputPorts when iterate
    String[] outputStr = new String[middleNode.getOutputPorts().size()];
    int i = 0;
    for (DataPort port : middleNode.getOutputPorts()) {
        String outputString = "";
        // for (Iterator<Invoker> iterator = taskIdList.iterator(); iterator.hasNext();) {
        // Invoker workflowInvoker = iterator.next();
        // 
        // // /
        // Object output = workflowInvoker.getOutput(port.getName());
        // if (output instanceof org.xmlpull.v1.builder.XmlElement) {
        // org.xmlpull.v1.builder.XmlElement element = (org.xmlpull.v1.builder.XmlElement) ((org.xmlpull.v1.builder.XmlElement) output).children()
        // .next();
        // outputString += "\n" + XMLUtil.xmlElementToString(element);
        // } else {
        // outputString += "\n<value>" + output + "</value>";
        // }
        // counter.incrementAndGet();
        // }
        outputStr[i] = outputString;
        System.out.println(outputStr[i]);
        i++;
    }
    i = 0;
    // outputStr += "\n</" + arrayElementName + ">";
    int outputPortIndex = 0;
    for (DataPort port : middleNode.getOutputPorts()) {
        for (Node endForEachNode : endForEachNodes) {
            if (tempInvoker.get(endForEachNode) != null) {
                if (!(endForEachNode instanceof OutputNode)) {
                    ((SystemComponentInvoker) tempInvoker.get(endForEachNode)).addOutput(port.getName(), outputStr[i]);
                }
            }
            outputPortIndex++;
        }
        i++;
    }
    forEachNode.setState(NodeExecutionState.FINISHED);
}

Example 93 with DataPort

use of org.apache.airavata.workflow.model.graph.DataPort in project airavata by apache.

the class WorkflowInterpreter method handleSubWorkComponent.

private void handleSubWorkComponent(Node node) throws WorkflowException {
    // TODO we will not support this in 0.13
    notifyViaInteractor(WorkflowExecutionMessage.OPEN_SUBWORKFLOW, node);
    // setting the inputs
    Workflow subWorkflow = ((SubWorkflowNode) node).getWorkflow();
    ArrayList<Node> subWorkflowInputNodes = getInputNodes(subWorkflow);
    List<DataPort> inputPorts = node.getInputPorts();
    for (DataPort port : inputPorts) {
        Object inputVal = InterpreterUtil.findInputFromPort(port, this.invokerMap);
        if (null == inputVal) {
            throw new WorkFlowInterpreterException("Unable to find inputs for the subworkflow node node:" + node.getID());
        }
        for (Iterator<Node> iterator = subWorkflowInputNodes.iterator(); iterator.hasNext(); ) {
            InputNode inputNode = (InputNode) iterator.next();
            if (inputNode.getName().equals(port.getName())) {
                inputNode.setDefaultValue(inputVal);
            }
        }
    }
    for (Iterator<Node> iterator = subWorkflowInputNodes.iterator(); iterator.hasNext(); ) {
        InputNode inputNode = (InputNode) iterator.next();
        if (inputNode.getDefaultValue() == null) {
            throw new WorkFlowInterpreterException("Input not set for  :" + inputNode.getID());
        }
    }
    try {
        WorkflowInterpreter subworkflowInterpreter = (WorkflowInterpreter) getInputViaInteractor(WorkflowExecutionMessage.INPUT_WORKFLOWINTERPRETER_FOR_WORKFLOW, subWorkflow);
        subworkflowInterpreter.scheduleDynamically();
    } catch (Exception e) {
        throw new WorkflowException(e);
    }
}

Example 94 with DataPort

use of org.apache.airavata.workflow.model.graph.DataPort in project airavata by apache.

the class WorkflowInterpreter method taskOutputChanged.

@Subscribe
public void taskOutputChanged(TaskOutputChangeEvent taskOutputEvent) {
    String taskId = taskOutputEvent.getTaskIdentity().getTaskId();
    if (isTaskAwaiting(taskId)) {
        ProcessState state = ProcessState.COMPLETED;
        Node node = getAwaitingNodeForTask(taskId);
        List<OutputDataObjectType> applicationOutputs = taskOutputEvent.getOutput();
        Map<String, String> outputData = new HashMap<String, String>();
        for (OutputDataObjectType outputObj : applicationOutputs) {
            List<DataPort> outputPorts = node.getOutputPorts();
            for (DataPort dataPort : outputPorts) {
                if (dataPort.getName().equals(outputObj.getName())) {
                    outputData.put(outputObj.getName(), outputObj.getValue());
                }
            }
        }
        nodeOutputData.put(node, outputData);
        setupNodeDetailsOutput(node);
        node.setState(NodeExecutionState.FINISHED);
        try {
            publishNodeStatusChange(WorkflowNodeState.COMPLETED, node.getID(), experiment.getExperimentID());
            updateWorkflowNodeStatus(nodeInstanceList.get(node), state);
        } catch (RegistryException e) {
            log.error(e.getMessage(), e);
        } catch (AiravataException e) {
            log.error(e.getMessage(), e);
        }
    }
}

Example 95 with DataPort

use of org.apache.airavata.workflow.model.graph.DataPort in project airavata by apache.

the class WorkflowInterpreter method setupNodeDetailsOutput.

private void setupNodeDetailsOutput(Node node) {
    WorkflowNodeDetails nodeDetails = nodeInstanceList.get(node);
    List<DataPort> outputPorts = node.getOutputPorts();
    Map<String, String> outputData = nodeOutputData.get(node);
    for (DataPort dataPort : outputPorts) {
        String portInputValue = outputData.get(dataPort.getName());
        OutputDataObjectType elem = new OutputDataObjectType();
        elem.setName(dataPort.getName());
        elem.setValue(portInputValue);
        nodeDetails.addToNodeOutputs(elem);
    }
    try {
        getExperimentCatalog().update(ExperimentCatalogModelType.WORKFLOW_NODE_DETAIL, nodeDetails, nodeDetails.getNodeInstanceId());
    } catch (RegistryException e) {
        log.error(e.getMessage(), e);
    }
}