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

Example 11 with InputNode

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

the class JythonScript method validate.

/**
 * @param warnings
 *            returns the warning messages.
 * @return true if the workflow is valid; false otherwise.
 */
public boolean validate(List<String> warnings) {
    // Empty
    if (this.graph.getNodes().size() == 0) {
        String message = "The workflow is empty.";
        warnings.add(message);
    }
    // Input ports need to be connected.
    Collection<Port> inputPorts = GraphUtil.getPorts(this.graph, Port.Kind.DATA_IN);
    for (Port inputPort : inputPorts) {
        Collection<Port> fromPorts = inputPort.getFromPorts();
        if (fromPorts.size() == 0) {
            Node node = inputPort.getNode();
            String message = node.getID() + " has an unconnected input " + inputPort.getName();
            warnings.add(message);
        }
    }
    // Input nodes need to be connected.
    for (InputNode inputNode : this.inputNodes) {
        if (inputNode.getPort().getToPorts().size() == 0) {
            String message = inputNode.getID() + " is not connected to any service.";
            warnings.add(message);
        }
    }
    // Cycle
    if (GraphUtil.containsCycle(this.graph)) {
        String message = "There is a cycle in the workflow, only acyclic workflows are supported";
        warnings.add(message);
    }
    // Constants are not supported.
    List<ConstantNode> constantNodes = GraphUtil.getNodes(this.graph, ConstantNode.class);
    if (constantNodes.size() > 0) {
        String message = "Constants are not supported for Jython scripts.";
        warnings.add(message);
    }
    // If/endif are not supported.
    List<IfNode> ifNodes = GraphUtil.getNodes(this.graph, IfNode.class);
    List<EndifNode> endifNodes = GraphUtil.getNodes(this.graph, EndifNode.class);
    if (ifNodes.size() > 0 || endifNodes.size() > 0) {
        String message = "If/endif are not supported for Jython scripts.";
        warnings.add(message);
    }
    if (warnings.size() > 0) {
        return false;
    } else {
        // No error.
        return true;
    }
}

Example 12 with InputNode

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

the class MonitorEventHandler method getInputNodes.

/**
 * @param graph
 * @return
 */
private LinkedList<InputNode> getInputNodes(WSGraph graph) {
    List<NodeImpl> nodes = graph.getNodes();
    LinkedList<InputNode> inputNodes = new LinkedList<InputNode>();
    for (NodeImpl nodeImpl : nodes) {
        if (nodeImpl instanceof InputNode) {
            inputNodes.add((InputNode) nodeImpl);
        }
    }
    return inputNodes;
}

Example 13 with InputNode

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

the class BPELScript method removeUnnecessaryNodes.

// private GpelSequence createMainSequence() throws GraphException {
// GpelSequence sequence = new GpelSequence(this.bpelNS);
// 
// // Remove InputNodes and MemoNodes.
// removeUnnecessaryNodes(this.remainNodes);
// 
// addInitialReceive(sequence);
// 
// addBlock(this.remainNodes, sequence);
// 
// addFinalReply(sequence);
// 
// if (this.remainNodes.size() > 0) {
// throw new GraphException("Some node(s) are not connected.");
// }
// 
// return sequence;
// }
// 
// private void addInitialReceive(GpelSequence sequence) {
// // Create a partner link
// String partnerLinkName = WORKFLOW_PARTNER_LINK;
// XmlNamespace partnerLinkTypeNS = this.workflowWSDL.getTargetNamespace();
// String partnerLinkTypeName = this.workflowPrefix + PARTNER_LINK_TYPE_SUFFIX;
// String myRollName = this.workflowPrefix + MY_ROLE_SUFFIX;
// 
// this.process.addPartnerLink(partnerLinkName, partnerLinkTypeNS, partnerLinkTypeName, myRollName, null);
// this.workflowWSDL.addPartnerLinkTypeAndRoll(partnerLinkTypeName, myRollName,
// this.workflowWSDL.getPortTypeQName());
// 
// // Create a variable
// this.process.addMessageVariable(WORKFLOW_INPUT_NAME, this.targetNamespace,
// this.workflowWSDL.getWorkflowInputMessageName());
// 
// GpelReceive receive = new GpelReceive(this.bpelNS, WORKFLOW_PARTNER_LINK, this.workflowWSDL.getPortTypeQName(),
// this.workflowWSDL.getWorkflowOperationName());
// receive.setGpelVariableName(WORKFLOW_INPUT_NAME);
// sequence.addActivity(receive);
// }
// 
// private void addFinalReply(GpelSequence sequence) throws GraphException {
// // Create a variable
// this.process.addMessageVariable(WORKFLOW_OUTPUT_NAME, this.targetNamespace,
// this.workflowWSDL.getWorkflowOutputMessageName());
// 
// List<GpelAssignCopy> copies = new ArrayList<GpelAssignCopy>();
// List<OutputNode> outputNodes = GraphUtil.getNodes(this.graph, OutputNode.class);
// this.remainNodes.removeAll(outputNodes);
// for (OutputNode outputNode : outputNodes) {
// Port port = outputNode.getPort();
// GpelAssignCopyFrom from = createAssignCopyFrom(port);
// GpelAssignCopyTo to = createAssignCopyTo(port, false);
// 
// copies.add(new GpelAssignCopy(this.bpelNS, from, to));
// }
// 
// if (copies.size() != 0) {
// // When there is no outputs, we don't create assign.
// GpelAssign assign = new GpelAssign(this.bpelNS, copies);
// sequence.addActivity(assign);
// }
// 
// GpelReply reply = new GpelReply(this.bpelNS, WORKFLOW_PARTNER_LINK, this.workflowWSDL.getPortTypeQName(),
// this.workflowWSDL.getWorkflowOperationName());
// reply.setVariableName(WORKFLOW_OUTPUT_NAME);
// sequence.addActivity(reply);
// }
// 
// /**
// * @param block
// * @param sequence
// * @throws GraphException
// */
// private void addBlock(Collection<Node> block, GpelSequence sequence) throws GraphException {
// List<Node> nextNodes = getNextExecutableNodes(block);
// while (nextNodes.size() > 0) {
// block.removeAll(nextNodes);
// removeUnnecessaryNodes(nextNodes);
// if (nextNodes.size() == 0) {
// // Everything was uncessary nodes (constants, etc.). Move on.
// } else if (nextNodes.size() == 1) {
// addSingle(nextNodes.get(0), block, sequence);
// } else if (nextNodes.size() > 1) {
// // XXX The algorithm used here is not efficient. It introduces
// // unnessary barriers.
// addFlow(nextNodes, block, sequence);
// } else {
// // Should not happen.
// throw new WorkflowRuntimeException("nextNodes.size(): " + nextNodes.size());
// }
// nextNodes = getNextExecutableNodes(block);
// }
// }
// 
// private void addFlow(List<Node> nextNodes, Collection<Node> block, GpelSequence sequence) throws GraphException {
// GpelFlow flow = new GpelFlow(this.bpelNS);
// for (Node node : nextNodes) {
// GpelSequence childSequence = new GpelSequence(this.bpelNS);
// flow.addActivity(childSequence);
// addSingle(node, block, childSequence);
// }
// sequence.addActivity(flow);
// }
// 
// // TODO: Add xml to BPEL
// private void addSingle(Node node, Collection<Node> block, GpelSequence sequence) throws GraphException {
// logger.debug("Processing + " + node.getID());
// if (node instanceof WSNode) {
// addInvoke((WSNode) node, sequence);
// } else if (node instanceof ConstantNode) {
// // nothing
// } else if (node instanceof ForEachNode) {
// addForEach((ForEachNode) node, block, sequence);
// } else if (node instanceof EndForEachNode) {
// // nothing.
// } else if (node instanceof IfNode) {
// addIf((IfNode) node, block, sequence);
// } else if (node instanceof EndifNode) {
// // nothing
// } else if (node instanceof ReceiveNode) {
// addReceive((ReceiveNode) node, sequence);
// } else if (node instanceof BlockNode) {
// addBlock((BlockNode) node, block, sequence);
// } else if (node instanceof EndBlockNode) {
// // nothing
// } else if (node instanceof StreamSourceNode) {
// addStreamSource((StreamSourceNode) node, sequence);
// } else if (node instanceof ExitNode) {
// addExit((ExitNode) node, sequence);
// } else if (node instanceof ResourceNode) {
// // nothing
// } else {
// 
// throw new GraphException(node.getClass().getName() + " is not supported.");
// }
// }
// 
// /**
// * @param node
// * @param sequence
// */
// private void addStreamSource(StreamSourceNode node, GpelSequence sequence) {
// GpelFlow flow = new GpelFlow(this.bpelNS);
// new GpelSequence(this.bpelNS);
// sequence.addActivity(flow);
// 
// }
// 
// /**
// * @param node
// * @param sequence
// */
// private void addExit(ExitNode node, GpelSequence sequence) {
// sequence.xml().addElement(this.bpelNS, "exit");
// }
// 
// private void addInvoke(WSNode node, GpelSequence sequence) throws GraphException {
// String id = node.getID();
// 
// WSComponent wsdlComponent = node.getComponent();
// String operation = wsdlComponent.getOperationName();
// 
// QName portTypeQName = wsdlComponent.getPortTypeQName();
// XmlNamespace namespace = XMLUtil.declareNamespaceIfNecessary(id.toLowerCase(), portTypeQName.getNamespaceURI(),
// false, this.process.xml());
// 
// // Variable
// String inputVariableName = id + INPUT_SUFFIX;
// this.process.addMessageVariable(inputVariableName, namespace, portTypeQName.getLocalPart());
// String outputVariableName = id + OUTPUT_SUFFIX;
// this.process.addMessageVariable(outputVariableName, namespace, portTypeQName.getLocalPart());
// 
// // Assign
// List<GpelAssignCopy> copies = new ArrayList<GpelAssignCopy>();
// for (Port port : node.getInputPorts()) {
// Port fromPort = port.getFromPort();
// if (fromPort == null) {
// // optional input
// continue;
// }
// GpelAssignCopyFrom from = createAssignCopyFrom(port);
// GpelAssignCopyTo to = createAssignCopyTo(port, true);
// 
// GpelAssignCopy copy = new GpelAssignCopy(this.bpelNS, from, to);
// copies.add(copy);
// }
// 
// GpelAssign assign = new GpelAssign(this.bpelNS, copies);
// sequence.addActivity(assign);
// 
// PartnerLinkRole partnerRoll = this.workflowWSDL.getPartnerRoll(portTypeQName);
// if (partnerRoll == null) {
// String partnerLinkTypeName = id + PARTNER_LINK_TYPE_SUFFIX;
// String partnerRollName = id + PARTNER_ROLE_SUFFIX;
// partnerRoll = this.workflowWSDL.addPartnerLinkTypeAndRoll(partnerLinkTypeName, partnerRollName,
// portTypeQName);
// }
// PartnerLinkType partnerLinkType = partnerRoll.getPartnerLinkType();
// 
// // partnerLink
// String partnerLinkName = createPartnerLinkName(id);
// XmlNamespace partnerLinkTypeNS = this.targetNamespace;
// this.process.addPartnerLink(partnerLinkName, partnerLinkTypeNS, partnerLinkType.getName(), null,
// partnerRoll.getName());
// 
// // Invoke
// GpelInvoke invoke = new GpelInvoke(this.bpelNS, partnerLinkName, namespace, portTypeQName.getLocalPart(),
// operation);
// invoke.setName(INVOKE_NAME_PREFIX + id);
// invoke.setInputVariableName(inputVariableName);
// invoke.setOutputVariableName(outputVariableName);
// 
// sequence.addActivity(invoke);
// }
// /**
// * Creates BpelAssignCopyFrom for a specified port.
// *
// * @param port
// * @return The BpelAssignCopyFrom created
// * @throws GraphException
// */
// private GpelAssignCopyFrom createAssignCopyFrom(Port port) throws GraphException {
// GpelAssignCopyFrom from = new GpelAssignCopyFrom(this.bpelNS);
// 
// Port fromPort = port.getFromPort();
// Node fromNode = fromPort.getNode();
// if (fromNode instanceof InputNode) {
// from.setVariable(WORKFLOW_INPUT_NAME);
// from.setPart(WorkflowWSDL.INPUT_PART_NAME);
// from.setQuery("/" + this.typesNamespace.getPrefix() + ":"
// + this.workflowWSDL.getWorkflowInputMessageElelmentName() + "/" + fromNode.getID());
// } else if (fromNode instanceof ConstantNode) {
// ConstantNode constNode = (ConstantNode) fromNode;
// Object value = constNode.getValue();
// // The namaspace and name of the literal element will be set
// // correctly in from.setLiteral().
// XmlElement literalElement = XMLUtil.BUILDER.newFragment(GpelAssignCopyFrom.LITERAL_EL);
// literalElement.addChild(value);
// from.setLiteral(literalElement);
// } else if (fromNode instanceof WSNode) {
// String fromID = fromNode.getID();
// WSComponent fromWsdlComponent = (WSComponent) fromNode.getComponent();
// 
// WSComponentPort fromWsdlPort = (WSComponentPort) fromPort.getComponentPort();
// 
// from.setVariable(fromID + OUTPUT_SUFFIX);
// from.setPart(fromWsdlComponent.getOutputPartName());
// 
// if (fromWsdlPort.isSchemaUsed()) {
// String typesTargetNamespace = fromWsdlPort.getTargetNamespace();
// XmlNamespace namespace = XMLUtil.declareNamespaceIfNecessary(fromID.toLowerCase() + TYPENS_SUFFIX,
// typesTargetNamespace, false, this.process.xml());
// 
// from.setQuery("/" + namespace.getPrefix() + ":" + fromWsdlComponent.getOutputTypeName() + "/"
// + fromWsdlPort.getName());
// } else {
// // No query needed?
// }
// } else if (fromNode instanceof ForEachNode) {
// from.setVariable(fromNode.getID() + FOREACH_VALUE_SUFFIX);
// } else if (fromNode instanceof EndForEachNode) {
// from.setVariable(fromNode.getID() + ARRAY_SUFIX);
// } else if (fromNode instanceof EndifNode) {
// // endif has multiple outputs, so we use port ID here.
// from.setVariable(fromPort.getID() + OUTPUT_SUFFIX);
// } else if (fromNode instanceof ReceiveNode) {
// if (fromPort instanceof EPRPort) {
// from.setPartnerLink(fromNode.getID() + PARTNER_LINK_NAME_SUFFIX);
// from.setEndpointReference("myRole");
// } else {
// from.setVariable(fromNode.getID() + INPUT_SUFFIX);
// }
// } else if (fromNode instanceof InstanceNode) {
// // no op
// } else {
// throw new GraphException("Unexpected node," + fromNode.getClass().getName() + " is connected");
// }
// return from;
// }
// 
// /**
// * Creates BpelAssignCopyFrom for a specified port.
// *
// * @param toPort
// * @param input
// * @return The GpelAssignCopyTo created
// */
// private GpelAssignCopyTo createAssignCopyTo(Port toPort, boolean input) {
// GpelAssignCopyTo to = new GpelAssignCopyTo(this.bpelNS);
// 
// Node toNode = toPort.getNode();
// if (toNode instanceof OutputNode) {
// to.setVariable(WORKFLOW_OUTPUT_NAME);
// to.setPart(WorkflowWSDL.OUTPUT_PART_NAME);
// to.setQuery("/" + this.typesNamespace.getPrefix() + ":"
// + this.workflowWSDL.getWorkflowOutputMessageElementName() + "/" + toNode.getID());
// } else {
// WSComponentPort toComponentPort = (WSComponentPort) toPort.getComponentPort();
// 
// String toID = toNode.getID();
// WSComponent toWSComponent = (WSComponent) toNode.getComponent();
// to.setVariable(toID + INPUT_SUFFIX);
// to.setPart(toWSComponent.getInputPartName());
// 
// if (toComponentPort.isSchemaUsed()) {
// // Normal case.
// // e.g. <part name="name" type="typens:fooType">
// String typesTargetNamespace = toComponentPort.getTargetNamespace();
// XmlNamespace namespace = XMLUtil.declareNamespaceIfNecessary(toID.toLowerCase() + TYPENS_SUFFIX,
// typesTargetNamespace, false, this.process.xml());
// 
// String typeName = input ? toWSComponent.getInputTypeName() : toWSComponent.getOutputTypeName();
// to.setQuery("/" + namespace.getPrefix() + ":" + typeName + "/" + toComponentPort.getName());
// } else {
// // e.g. <part name="name" type="xsd:string">
// // No query is needed?
// }
// }
// return to;
// }
private void removeUnnecessaryNodes(List<Node> block) {
    List<Node> unnecessaryNodes = new ArrayList<Node>();
    for (Node node : block) {
        if (node instanceof InputNode || node instanceof MemoNode || node instanceof ConstantNode) {
            unnecessaryNodes.add(node);
        }
    }
    block.removeAll(unnecessaryNodes);
}

Example 14 with InputNode

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

the class BPELScript method validate.

/**
 * @param warnings
 *            returns the warning messages.
 * @return true if the workflow is valid; false otherwise.
 */
public boolean validate(List<String> warnings) {
    // Empty
    if (this.graph.getNodes().size() == 0) {
        String message = "The workflow is empty.";
        warnings.add(message);
    }
    // Input ports need to be connected.
    Collection<Port> inputPorts = GraphUtil.getPorts(this.graph, Port.Kind.DATA_IN);
    for (Port inputPort : inputPorts) {
        ComponentPort componentPort = inputPort.getComponentPort();
        if (componentPort instanceof WSComponentPort) {
            WSComponentPort wsComponentPort = (WSComponentPort) componentPort;
            if (wsComponentPort.isOptional()) {
                // optional input.
                continue;
            }
        }
        Collection<Port> fromPorts = inputPort.getFromPorts();
        if (fromPorts.size() == 0) {
            Node node = inputPort.getNode();
            String message = node.getID() + " has an unconnected input " + inputPort.getName();
            warnings.add(message);
        }
    }
    // Input nodes need to be connected.
    List<InputNode> inputNodes = GraphUtil.getNodes(this.graph, InputNode.class);
    for (InputNode inputNode : inputNodes) {
        if (inputNode.getPort().getToPorts().size() == 0) {
            String message = inputNode.getID() + " is not connected to any service.";
            warnings.add(message);
        }
    }
    // Cycle
    if (GraphUtil.containsCycle(this.graph)) {
        String message = "There is a cycle in the workflow.";
        warnings.add(message);
    }
    // XXX bypass some checks for debugging.
    String debug = System.getProperty("xbaya.debug");
    if (!"true".equalsIgnoreCase(debug)) {
        // split/merge are not supported.
        List<ForEachNode> splitNodes = GraphUtil.getNodes(this.graph, ForEachNode.class);
        List<EndForEachNode> mergeNodes = GraphUtil.getNodes(this.graph, EndForEachNode.class);
        if (splitNodes.size() > 0 || mergeNodes.size() > 0) {
            String message = "Split/merge are not supported yet.";
            warnings.add(message);
        }
        // block are not supported.
        List<BlockNode> blockNodes = GraphUtil.getNodes(this.graph, BlockNode.class);
        List<EndBlockNode> endBlockNodes = GraphUtil.getNodes(this.graph, EndBlockNode.class);
        if (blockNodes.size() > 0 || endBlockNodes.size() > 0) {
            String message = "Blocks/EndBlocks are not supported yet.";
            warnings.add(message);
        }
    // // receive is not supported.
    // List<ReceiveNode> receiveNodes = GraphUtil.getNodes(this.graph,
    // ReceiveNode.class);
    // if (receiveNodes.size() > 0) {
    // String message = "Receive is not supported yet.";
    // warnings.add(message);
    // }
    }
    if (warnings.size() > 0) {
        return false;
    } else {
        // No error.
        return true;
    }
}

Example 15 with InputNode

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

the class GraphImpl method fixParameterNodes.

// private void createID() {
// Date date = new Date();
// SimpleDateFormat format = new SimpleDateFormat("yyyyMMdd_HHmmss_S");
// String time = format.format(date);
// 
// this.id = StringUtil.convertToJavaIdentifier(this.name) + "_" + time;
// }
/**
 * @throws GraphException
 */
public void fixParameterNodes() {
    // XXX fix the ports of parameter nodes for 2.6.3 or before.
    for (InputNode node : GraphUtil.getNodes(this, InputNode.class)) {
        DataPort oldPort = node.getOutputPort(0);
        if (oldPort instanceof WSPort) {
            node.getOutputPorts().remove(oldPort);
            this.ports.remove(oldPort);
            SystemDataPort newPort = new SystemDataPort();
            this.ports.add(newPort);
            newPort.setKind(Kind.DATA_OUT);
            newPort.setName(oldPort.getName());
            newPort.setGraph(this);
            newPort.setNode(node);
            newPort.createID();
            node.getOutputPorts().add(newPort);
            for (DataEdge edge : oldPort.getEdges()) {
                edge.setFromPort(newPort);
                newPort.getEdges().add(edge);
            }
        }
    }
    for (OutputNode node : GraphUtil.getNodes(this, OutputNode.class)) {
        DataPort oldPort = node.getInputPort(0);
        if (oldPort instanceof WSPort) {
            node.getInputPorts().remove(oldPort);
            this.ports.remove(oldPort);
            SystemDataPort newPort = new SystemDataPort();
            this.ports.add(newPort);
            newPort.setKind(Kind.DATA_IN);
            newPort.setName(oldPort.getName());
            newPort.setGraph(this);
            newPort.setNode(node);
            newPort.createID();
            node.getInputPorts().add(newPort);
            for (DataEdge edge : oldPort.getEdges()) {
                edge.setToPort(newPort);
                newPort.getEdges().add(edge);
            }
        }
    }
}