Package org.apache.airavata.workflow.model.graph

Examples of org.apache.airavata.workflow.model.graph.Node


    List<DataPort> inputPorts = forEachNode.getInputPorts();

    Object returnValForProvenance = null;
    for (DataPort inputPort : inputPorts) {

      Node inputNode = inputPort.getFromNode();
      // if input node for for-each is WSNode
      if (inputNode instanceof InputNode) {
        for (DataPort dataPort : forEachNode.getInputPorts()) {
          returnValForProvenance = InterpreterUtil.findInputFromPort(dataPort, invokerMap);
          if (null == returnValForProvenance) {
            throw new WorkFlowInterpreterException("Unable to find input for the node:" + forEachNode.getID());
          }
          String[] vals = returnValForProvenance.toString().split(",");
          listOfValues.addAll(Arrays.asList(vals));
        }
      } else {
        Invoker workflowInvoker = invokerMap.get(inputNode);
        if (workflowInvoker != null) {
          if (workflowInvoker instanceof GenericInvoker) {

            String outputName = inputNode.getOutputPort(0).getName();
            returnValForProvenance = workflowInvoker.getOutput(outputName);
            org.xmlpull.v1.builder.XmlElement msgElmt = (org.xmlpull.v1.builder.XmlElement) returnValForProvenance;
            Iterator children = msgElmt.children();
            while (children.hasNext()) {
              Object object = children.next();
              if (object instanceof org.xmlpull.v1.builder.XmlElement) {
                org.xmlpull.v1.builder.XmlElement child = (org.xmlpull.v1.builder.XmlElement) object;
                Iterator valItr = child.children();
                if (valItr.hasNext()) {
                  Object object2 = valItr.next();
                  if (object2 instanceof String) {
                    listOfValues.add(object2.toString());
                  }
                }
              }
            }
          } else if (workflowInvoker instanceof SystemComponentInvoker) {
            int index = inputNode.getOutputPorts().indexOf(inputPort.getEdge(0).getFromPort());
            String outputName = "";
            if (inputNode.getInputPort(index) instanceof SystemDataPort) {
              outputName = ((SystemDataPort) inputNode.getInputPort(index)).getWSComponentPort().getName();
            } else if (inputNode.getInputPort(index) instanceof WSPort) {
              outputName = ((SystemDataPort) inputNode.getInputPort(inputNode.getOutputPorts().indexOf(
                  inputPort.getEdge(0).getFromPort()))).getWSComponentPort().getName();
            }
            returnValForProvenance = workflowInvoker.getOutput(outputName);
            XmlElement msgElmt = XmlConstants.BUILDER.parseFragmentFromString("<temp>" + returnValForProvenance + "</temp>");
            Iterator valItr = msgElmt.children().iterator();
View Full Code Here


   * @return
   * @throws WorkflowException
   */
  public static Object findInputFromPort(DataPort inputPort, Map<Node, Invoker> invokerMap) throws WorkflowException {
    Object outputVal = null;
    Node fromNode = inputPort.getFromNode();
    if (fromNode instanceof InputNode) {
      outputVal = ((InputNode) fromNode).getDefaultValue();
    } else if (fromNode instanceof ConstantNode) {
      outputVal = ((ConstantNode) fromNode).getValue();
    } else if (fromNode instanceof DifferedInputNode && ((DifferedInputNode) fromNode).isConfigured()) {
      outputVal = ((DifferedInputNode) fromNode).getDefaultValue();
    } else if (fromNode instanceof EndifNode || fromNode instanceof DoWhileNode  || fromNode instanceof EndDoWhileNode) {
      Invoker fromInvoker = invokerMap.get(fromNode);
      outputVal = fromInvoker.getOutput(inputPort.getFromPort().getID());
    } else if (fromNode instanceof InstanceNode) {
      return ((InstanceNode) fromNode).getOutputInstanceId();
    } else if (fromNode instanceof EndForEachNode) {
      outputVal = "";
      Invoker workflowInvoker = invokerMap.get(fromNode);
      String outputName = "";
      if (inputPort instanceof SystemDataPort) {
        outputName = ((SystemDataPort) inputPort).getWSComponentPort().getName();

      } else if (inputPort instanceof WSPort) {
        outputName = ((SystemDataPort) fromNode.getInputPort(fromNode.getOutputPorts().indexOf(inputPort.getEdge(0).getFromPort())))
            .getWSComponentPort().getName();
      }
      XmlElement msgElmt = XmlConstants.BUILDER.parseFragmentFromString("<temp>" + workflowInvoker.getOutput(outputName) + "</temp>");
      Iterator valItr = msgElmt.children().iterator();
      while (valItr.hasNext()) {
View Full Code Here

    Collection<Node> toNodes = node.getOutputPort(0).getToNodes();
    if (toNodes.size() != 1) {
      throw new WorkflowRuntimeException("ForEach output does not contain single out-edge");
    }
    Node middleNode = toNodes.iterator().next();
    List<DataPort> outputPorts = middleNode.getOutputPorts();
    for (DataPort dataPort : outputPorts) {
      if (dataPort.getToNodes().size() == 1) {
        Node possibleEndForEachNode = dataPort.getToNodes().get(0);
        if (possibleEndForEachNode instanceof EndForEachNode) {
          return possibleEndForEachNode;
        }
      }
    }
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  public static Integer[] getNumberOfInputsForForEachNode(final ForEachNode forEachNode, Map<Node, Invoker> invokerMap) throws WorkflowException {
    List<DataPort> inputPorts = forEachNode.getInputPorts();
    Integer[] inputNumbers = new Integer[inputPorts.size()];
    for (DataPort forEachInputPort : inputPorts) {
      // if input node for for-each is WSNode
      Node forEachInputNode = forEachInputPort.getFromNode();
      int index = 0;
      Object returnValForProvenance = null;
      if (forEachInputNode instanceof InputNode) {
        returnValForProvenance = InterpreterUtil.findInputFromPort(forEachInputPort, invokerMap);
        if (null == returnValForProvenance) {
          throw new WorkFlowInterpreterException("Unable to find input for the node:" + forEachNode.getID());
        }
        String[] vals = returnValForProvenance.toString().split(",");
        inputNumbers[inputPorts.indexOf(forEachInputPort)] = vals.length;
      } else {
        Invoker workflowInvoker = invokerMap.get(forEachInputNode);
        if (workflowInvoker != null) {
          if (workflowInvoker instanceof GenericInvoker) {

            returnValForProvenance = ((GenericInvoker) workflowInvoker).getOutputs();
            String message = returnValForProvenance.toString();

            XmlElement msgElmt = XmlConstants.BUILDER.parseFragmentFromString(message);
            Iterator children = msgElmt.children().iterator();
            while (children.hasNext()) {
              Object object = children.next();
              // foreachWSNode.getInputPort(0).getType()
              if (object instanceof XmlElement) {
                index++;
              }
            }
          } else if (workflowInvoker instanceof WorkflowInvokerWrapperForGFacInvoker) {
            String outputName = forEachInputNode.getOutputPort(0).getName();
            returnValForProvenance = workflowInvoker.getOutput(outputName);
            org.xmlpull.v1.builder.XmlElement msgElmt = (org.xmlpull.v1.builder.XmlElement) returnValForProvenance;
            Iterator children = msgElmt.children();
            while (children.hasNext()) {
              Object object = children.next();
              if (object instanceof org.xmlpull.v1.builder.XmlElement) {
                org.xmlpull.v1.builder.XmlElement child = (org.xmlpull.v1.builder.XmlElement) object;
                Iterator valItr = child.children();
                if (valItr.hasNext()) {
                  Object object2 = valItr.next();
                  if (object2 instanceof String) {
                    index++;
                  }
                }
              }
            }
            inputNumbers[inputPorts.indexOf(forEachInputPort)] = index;
          } else if (workflowInvoker instanceof SystemComponentInvoker) {
            int portIndex = forEachInputNode.getOutputPorts().indexOf(forEachInputPort.getEdge(0).getFromPort());
            String outputName = "";
            if (forEachInputNode.getInputPort(portIndex) instanceof SystemDataPort) {
              outputName = ((SystemDataPort) forEachInputNode.getInputPort(portIndex)).getWSComponentPort().getName();
            } else if (forEachInputNode.getInputPort(portIndex) instanceof WSPort) {
              outputName = ((WSPort) forEachInputNode.getInputPort(portIndex)).getComponentPort().getName();
            }
            returnValForProvenance = workflowInvoker.getOutput(outputName);
            XmlElement msgElmt = XmlConstants.BUILDER.parseFragmentFromString("<temp>" + returnValForProvenance + "</temp>");
            Iterator valItr = msgElmt.children().iterator();
            while (valItr.hasNext()) {
View Full Code Here

        // Remove Adder_2 and replace with Multiplier_2.
        graph.removeNode(adder2);
        repaintAndWait(1);

        Node multiplier2 = workflow.addNode(multiplierComponent);
        multiplier2.setPosition(new Point(170, 210));
        repaintAndWait(1);

        graph.addEdge(c.getOutputPort(0), multiplier2.getInputPort(0));
        repaintAndWait(1);

        graph.addEdge(d.getOutputPort(0), multiplier2.getInputPort(1));
        repaintAndWait(1);

        graph.addEdge(multiplier2.getOutputPort(0), multiplier.getInputPort(1));
        repaintAndWait(1);

        // Add one more adder and an output.
        Node adder3 = workflow.addNode(adderComponent);
        adder3.setPosition(new Point(320, 300));
        repaintAndWait(1);

        graph.addEdge(adder.getOutputPort(0), adder3.getInputPort(0));
        repaintAndWait(1);

        graph.addEdge(multiplier2.getOutputPort(0), adder3.getInputPort(1));
        repaintAndWait(1);

        Node output2 = workflow.addNode(outputComponent);
        output2.setPosition(new Point(500, 300));
        repaintAndWait(1);

        graph.addEdge(adder3.getOutputPort(0), output2.getInputPort(0));
        repaintAndWait(1);
    }
View Full Code Here

      }
      ArrayList<Node> inputNodes = this.getInputNodesDynamically();
      Object[] values = new Object[inputNodes.size()];
      String[] keywords = new String[inputNodes.size()];
      for (int i = 0; i < inputNodes.size(); ++i) {
        Node node = inputNodes.get(i);
        NodeController.getGUI(node).setBodyColor(NodeState.FINISHED.color);
        notifyViaInteractor(WorkflowExecutionMessage.NODE_STATE_CHANGED, null);
        keywords[i] = ((InputNode) node).getName();
        values[i] = ((InputNode) node).getDefaultValue();
      }
      this.config.getNotifier().workflowStarted(values, keywords);
      while (this.getWorkflow().getExecutionState() != WorkflowExecutionState.STOPPED) {
        if (getRemainNodesDynamically() == 0) {
          notifyViaInteractor(WorkflowExecutionMessage.EXECUTION_STATE_CHANGED, WorkflowExecutionState.PAUSED);
          // if (this.config.getMode() ==
          // WorkflowInterpreterConfiguration.GUI_MODE) {
          // this.notifyPause();
          // } else {
          // this.getWorkflow().setExecutionState(
          // WorkflowExecutionState.STOPPED);
          // }
        }
        // ok we have paused sleep
        while (this.getWorkflow().getExecutionState() == WorkflowExecutionState.PAUSED) {
          try {
            Thread.sleep(400);
          } catch (InterruptedException e) {
            e.printStackTrace();
          }
        }
        // get task list and execute them
        ArrayList<Node> readyNodes = this.getReadyNodesDynamically();
        for (Node node : readyNodes) {
          if (node.isBreak()) {
            this.notifyPause();
            break;
          }
          if (this.getWorkflow().getExecutionState() == WorkflowExecutionState.PAUSED
              || this.getWorkflow().getExecutionState() == WorkflowExecutionState.STOPPED) {
View Full Code Here

      /*
       * Set type after get input value, and override inputValue if output
       * type is array
       */
      Node fromNode = dataPort.getFromNode();
      QName type = null;
      if (fromNode instanceof InputNode) {
        type = BasicTypeMapping.STRING_QNAME;
      } else if (fromNode instanceof ConstantNode) {
        type = ((ConstantNode) fromNode).getType();
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      throw new WorkFlowInterpreterException("Only one node allowed inside foreach");
    }
    Iterator<Node> iterator = repeatNodes.iterator();
    if (iterator.hasNext()) {

      Node middleNode = iterator.next();

      // forEachNode should point to a WSNode and should have only one
      // output
      if ((!(middleNode instanceof WSNode)) && (!(middleNode instanceof SubWorkflowNode))) {
        throw new WorkFlowInterpreterException("Encountered Node inside foreach that is not a WSNode" + middleNode);
      } else if (middleNode instanceof SubWorkflowNode) {
        /* Get the EndforEach Node of the Subworkflow */
        Iterator<Node> subWorkflowOut = middleNode.getOutputPort(0).getToNodes().iterator();
        while (subWorkflowOut.hasNext()) {
          Node node2 = subWorkflowOut.next();
          if (node2 instanceof EndForEachNode) {
            endForEachNode = (EndForEachNode) node2;
          }
        }

        final LinkedList<String> listOfValues = new LinkedList<String>();
        InterpreterUtil.getInputsForForEachNode(forEachNode, listOfValues, this.invokerMap);
        final Integer[] inputNumbers = InterpreterUtil.getNumberOfInputsForForEachNode(forEachNode, this.invokerMap);
        Workflow workflow1 = ((SubWorkflowNode) middleNode).getWorkflow();
        List<NodeImpl> nodes = workflow1.getGraph().getNodes();
        List<Node> wsNodes = new ArrayList<Node>();
        /* Take the List of WSNodes in the subworkflow */
        for (NodeImpl subWorkflowNode : nodes) {
          if (subWorkflowNode instanceof WSNode) {
            wsNodes.add(subWorkflowNode);
          }
        }

        for (int i = 0; i < wsNodes.size(); i++) {
          final WSNode node1 = (WSNode) wsNodes.get(i);
          SystemComponentInvoker systemInvoker = null;
          List<DataPort> outputPorts1 = node1.getOutputPorts();
          List<Node> endForEachNodes = new ArrayList<Node>();
          for (DataPort port : outputPorts1) {
            Iterator<Node> endForEachNodeItr1 = port.getToNodes().iterator();
            while (endForEachNodeItr1.hasNext()) {
              Node node2 = endForEachNodeItr1.next();
              if (node2 instanceof EndForEachNode) {
                endForEachNodes.add(node2);
              } else if (node2 instanceof OutputNode) {
                // intentionally left noop
              } else {
                throw new WorkFlowInterpreterException("Found More than one node inside foreach");
              }

            }
          }
          final List<Node> finalEndForEachNodes = endForEachNodes;

          Iterator<Node> endForEachNodeItr1 = node1.getOutputPort(0).getToNodes().iterator();
          while (endForEachNodeItr1.hasNext()) {
            Node node2 = endForEachNodeItr1.next();
            // Start reading input came for foreach node
            int parallelRuns = listOfValues.size() * node1.getOutputPorts().size();
            if (listOfValues.size() > 0) {
              NodeController.getGUI(forEachNode).setBodyColor(NodeState.EXECUTING.color);
              NodeController.getGUI(node1).setBodyColor(NodeState.EXECUTING.color);
              List<DataPort> outputPorts = node1.getOutputPorts();
              final AtomicInteger counter = new AtomicInteger();
              for (Node endFor : endForEachNodes) {
                systemInvoker = new SystemComponentInvoker();
                this.invokerMap.put(endFor, systemInvoker);
              }
              final Map<Node, Invoker> finalMap = this.invokerMap;
              new Thread() {
                @Override
                public void run() {
                  try {
                    runInThread(listOfValues, forEachNode, node1, finalEndForEachNodes, finalMap, counter, inputNumbers);
                  } catch (WorkflowException e) {

                    WorkflowInterpreter.this.config.getGUI().getErrorWindow().error(e);
                  }
                }

              }.start();

              while (counter.intValue() < parallelRuns) {
                try {
                  Thread.sleep(100);
                } catch (InterruptedException e) {
                  Thread.currentThread().interrupt();
                }

              }
              if (!(node2 instanceof OutputNode)) {
                listOfValues.removeAll(listOfValues);
                String output = (String) systemInvoker.getOutput(node1.getOutputPort(0).getName());
                XmlElement xmlElement = XMLUtil.stringToXmlElement("<result>" + output + "</result>");
                Iterator iterator1 = xmlElement.children().iterator();
                while (iterator1.hasNext()) {
                  Object next1 = iterator1.next();
                  if (next1 instanceof XmlElement) {
                    listOfValues.add((String) ((XmlElement) next1).children().iterator().next());
                  }
                }
              }
            }
          }
        }
        // we have finished execution so end foreach is finished
        // todo this has to be done in a separate thread
        NodeController.getGUI(endForEachNode).setBodyColor(NodeState.FINISHED.color);
        NodeController.getGUI(middleNode).setBodyColor(NodeState.FINISHED.color);
        NodeController.getGUI(node).setBodyColor(NodeState.FINISHED.color);

      } else {

        // First node after foreach should end with EndForEachNode
        List<DataPort> outputPorts1 = middleNode.getOutputPorts();
        List<Node> endForEachNodes = new ArrayList<Node>();
        for (DataPort port : outputPorts1) {
          Iterator<Node> endForEachNodeItr1 = port.getToNodes().iterator();
          while (endForEachNodeItr1.hasNext()) {
            Node node2 = endForEachNodeItr1.next();
            if (node2 instanceof EndForEachNode) {
              endForEachNodes.add(node2);
            } else if (node2 instanceof OutputNode) {
              // intentionally left noop
            } else {
              throw new WorkFlowInterpreterException("Found More than one node inside foreach");
            }

          }
        }
        final List<Node> finalEndForEachNodes = endForEachNodes;
        final Node foreachWSNode = middleNode;
        final LinkedList<String> listOfValues = new LinkedList<String>();

        // Start reading input came for foreach node
        InterpreterUtil.getInputsForForEachNode(forEachNode, listOfValues, this.invokerMap);
        final Integer[] inputNumbers = InterpreterUtil.getNumberOfInputsForForEachNode(forEachNode, this.invokerMap);
View Full Code Here

          Object inputVal = InterpreterUtil.findInputFromPort(port, this.invokerMap);

          /*
           * Handle ForEachNode
           */
          Node fromNode = port.getFromNode();
          // if (fromNode instanceof ForEachNode) {
          inputVal = ODEClientUtil.parseValue((WSComponentPort) port.getComponentPort(), input);
          // }

          if (null == inputVal) {
View Full Code Here

    for (DataPort port : inputPorts) {
      Object inputVal = InterpreterUtil.findInputFromPort(port, this.invokerMap);
      /*
       * Handle ForEachNode
       */
      Node fromNode = port.getFromNode();
      if (fromNode instanceof ForEachNode) {
        inputVal = inputArray[index++];
      }

      if (null == inputVal) {
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