private void extractMBeanPolicy(MBeanPolicyConfig pConfig, Node pMBeanNode)
throws MalformedObjectNameException {
NodeList params = pMBeanNode.getChildNodes();
String name = null;
Set<String> readAttributes = new HashSet<String>();
Set<String> writeAttributes = new HashSet<String>();
Set<String> operations = new HashSet<String>();
for (int k = 0; k < params.getLength(); k++) {
Node param = params.item(k);
if (param.getNodeType() != Node.ELEMENT_NODE) {
continue;
}
assertNodeName(param, "name", "attribute", "operation");
String tag = param.getNodeName();
if (tag.equals("name")) {
if (name != null) {
throw new SecurityException("<name> given twice as MBean name");
} else {
name = param.getTextContent().trim();
}
} else if (tag.equals("attribute")) {
extractAttribute(readAttributes, writeAttributes, param);
} else if (tag.equals("operation")) {
operations.add(param.getTextContent().trim());
} else {
throw new SecurityException("Tag <" + tag + "> invalid");
}
}
if (name == null) {
throw new SecurityException("No <name> given for <mbean>");
}
pConfig.addValues(new ObjectName(name), readAttributes, writeAttributes, operations);
}
private void extractAttribute(
Set<String> pReadAttributes, Set<String> pWriteAttributes, Node pParam) {
Node mode = pParam.getAttributes().getNamedItem("mode");
pReadAttributes.add(pParam.getTextContent().trim());
if (mode == null || !mode.getNodeValue().equalsIgnoreCase("read")) {
pWriteAttributes.add(pParam.getTextContent().trim());
}
}
@Override
public VPackage parse() {
logger.debug("Starting parsing package: " + xmlFile.getAbsolutePath());
long startParsing = System.currentTimeMillis();
try {
Document document = getDocument();
Element root = document.getDocumentElement();
_package = new VPackage(xmlFile);
Node name = root.getElementsByTagName(EL_NAME).item(0);
_package.setName(name.getTextContent());
Node descr = root.getElementsByTagName(EL_DESCRIPTION).item(0);
_package.setDescription(descr.getTextContent());
NodeList list = root.getElementsByTagName(EL_CLASS);
boolean initPainters = false;
for (int i = 0; i < list.getLength(); i++) {
PackageClass pc = parseClass((Element) list.item(i));
if (pc.getPainterName() != null) {
initPainters = true;
}
}
if (initPainters) {
_package.initPainters();
}
logger.info(
"Parsing the package '{}' finished in {}ms.\n",
_package.getName(),
(System.currentTimeMillis() - startParsing));
} catch (Exception e) {
collector.collectDiagnostic(e.getMessage(), true);
if (RuntimeProperties.isLogDebugEnabled()) {
e.printStackTrace();
}
}
try {
checkProblems("Error parsing package file " + xmlFile.getName());
} catch (Exception e) {
return null;
}
return _package;
}
private void initAllowedHosts(Document pDoc) {
NodeList nodes = pDoc.getElementsByTagName("remote");
if (nodes.getLength() == 0) {
// No restrictions found
allowedHostsSet = null;
return;
}
allowedHostsSet = new HashSet<String>();
for (int i = 0; i < nodes.getLength(); i++) {
Node node = nodes.item(i);
NodeList childs = node.getChildNodes();
for (int j = 0; j < childs.getLength(); j++) {
Node hostNode = childs.item(j);
if (hostNode.getNodeType() != Node.ELEMENT_NODE) {
continue;
}
assertNodeName(hostNode, "host");
String host = hostNode.getTextContent().trim().toLowerCase();
if (SUBNET_PATTERN.matcher(host).matches()) {
if (allowedSubnetsSet == null) {
allowedSubnetsSet = new HashSet<String>();
}
allowedSubnetsSet.add(host);
} else {
allowedHostsSet.add(host);
}
}
}
}
// Get the text value of a child element with a specified name.
private static String getChildText(Element el, String childName) {
String value = "";
Node child = el.getFirstChild();
while (child != null) {
if ((child.getNodeType() == Node.ELEMENT_NODE) && child.getNodeName().equals(childName)) {
return child.getTextContent();
}
child = child.getNextSibling();
}
return value;
}
private void appendNodeText(StringBuffer sb, Node node) {
if (node.getNodeType() == Node.TEXT_NODE) {
sb.append(" " + node.getTextContent());
} else if (node.getNodeType() == Node.ELEMENT_NODE) {
if (!node.getNodeName().equals("pt-age")) {
Node child = node.getFirstChild();
while (child != null) {
appendNodeText(sb, child);
child = child.getNextSibling();
}
}
}
}
private void call(Node operation)
throws ParserConfigurationException, TransformerConfigurationException {
String opName = operation.getNodeName();
if (opName.equals("call")) {
String script =
Utils.combine(Utils.getParentDir(this.currentScript), operation.getTextContent());
call(script);
} else if (opName.equals("apply")) processApply(operation);
else if (opName.equals("xml")) processXml(operation);
else if (opName.equals("txt")) processTxt(operation);
else if (opName.equals("copy")) processCopy(operation);
else if (opName.equals("delete")) processDelete(operation);
}
private void processDelete(Node operation) {
String path = absolutePath(operation.getTextContent());
File target = new File(path);
if (!target.exists()) {
Utils.onError(new Error.FileNotFound(target.getPath()));
return;
}
try {
if (target.isDirectory()) {
FileUtils.deleteDirectory(target);
} else {
FileUtils.forceDelete(target);
}
} catch (IOException ex) {
Utils.onError(new Error.FileDelete(target.getPath()));
}
}
// ===============================================================================
// Parsing routines
private void initTypeSet(Document pDoc) {
NodeList nodes = pDoc.getElementsByTagName("commands");
if (nodes.getLength() > 0) {
// Leave typeSet null if no commands has been given...
typeSet = new HashSet<JmxRequest.Type>();
}
for (int i = 0; i < nodes.getLength(); i++) {
Node node = nodes.item(i);
NodeList childs = node.getChildNodes();
for (int j = 0; j < childs.getLength(); j++) {
Node commandNode = childs.item(j);
if (commandNode.getNodeType() != Node.ELEMENT_NODE) {
continue;
}
assertNodeName(commandNode, "command");
String typeName = commandNode.getTextContent().trim();
JmxRequest.Type type = JmxRequest.Type.valueOf(typeName.toUpperCase());
typeSet.add(type);
}
}
}
/**
* Construct a Query from an XML document in the form described on the RSNA MIRC wiki.
*
* @param queryDoc the MIRCquery XML DOM object.
*/
public Query(Document queryDoc) {
super();
Element root = queryDoc.getDocumentElement();
unknown = root.getAttribute("unknown").trim().equals("yes");
bgcolor = root.getAttribute("bgcolor").trim();
display = root.getAttribute("display").trim();
icons = root.getAttribute("icons").trim();
orderby = root.getAttribute("orderby").trim();
firstresult = StringUtil.getInt(root.getAttribute("firstresult"));
if (firstresult <= 0) firstresult = 1;
maxresults = StringUtil.getInt(root.getAttribute("maxresults"));
if (maxresults <= 0) maxresults = 1;
StringBuffer sb = new StringBuffer();
Node child = root.getFirstChild();
while (child != null) {
if (child.getNodeType() == Node.ELEMENT_NODE) {
String dbname = child.getNodeName();
String text = getTextContent(child);
if (!text.equals("")) {
this.put(dbname, text);
containsNonFreetextQueries = true;
}
if (dbname.equals("temp")) isTempQuery = true;
} else if (child.getNodeType() == Node.TEXT_NODE) {
sb.append(" " + child.getTextContent());
}
child = child.getNextSibling();
}
String freetext = sb.toString().replaceAll("\\s+", " ").trim();
isBlankQuery = freetext.equals("");
isSpecialQuery = root.getAttribute("special").trim().equals("yes");
this.put("freetext", freetext);
setAgeRange(root);
// log();
}
private void initHttpMethodSet(Document pDoc) {
NodeList nodes = pDoc.getElementsByTagName("http");
if (nodes.getLength() > 0) {
// Leave typeSet null if no commands has been given...
httpMethodsSet = new HashSet<String>();
}
for (int i = 0; i < nodes.getLength(); i++) {
Node node = nodes.item(i);
NodeList childs = node.getChildNodes();
for (int j = 0; j < childs.getLength(); j++) {
Node commandNode = childs.item(j);
if (commandNode.getNodeType() != Node.ELEMENT_NODE) {
continue;
}
assertNodeName(commandNode, "method");
String methodName = commandNode.getTextContent().trim().toLowerCase();
if (!methodName.equals("post") || methodName.equals("get")) {
throw new SecurityException(
"HTTP method must be either GET or POST, but not " + methodName);
}
httpMethodsSet.add(methodName);
}
}
}
/**
* @param list
* @param parent
* @exception NumberFormatException
* @exception DicomException
*/
void addAttributesFromNodeToList(AttributeList list, Node parent)
throws NumberFormatException, DicomException {
if (parent != null) {
Node node = parent.getFirstChild();
while (node != null) {
String elementName = node.getNodeName();
NamedNodeMap attributes = node.getAttributes();
if (attributes != null) {
Node vrNode = attributes.getNamedItem("vr");
Node groupNode = attributes.getNamedItem("group");
Node elementNode = attributes.getNamedItem("element");
if (vrNode != null && groupNode != null && elementNode != null) {
String vrString = vrNode.getNodeValue();
String groupString = groupNode.getNodeValue();
String elementString = elementNode.getNodeValue();
if (vrString != null && groupString != null && elementString != null) {
byte[] vr = vrString.getBytes();
int group = Integer.parseInt(groupString, 16);
int element = Integer.parseInt(elementString, 16);
AttributeTag tag = new AttributeTag(group, element);
if ((group % 2 == 0 && element == 0)
|| (group == 0x0008 && element == 0x0001)
|| (group == 0xfffc && element == 0xfffc)) {
// System.err.println("ignoring group length or length to end or dataset trailing
// padding "+tag);
} else {
if (vrString.equals("SQ")) {
SequenceAttribute a = new SequenceAttribute(tag);
// System.err.println("Created "+a);
if (node.hasChildNodes()) {
Node childNode = node.getFirstChild();
while (childNode != null) {
String childNodeName = childNode.getNodeName();
// System.err.println("childNodeName = "+childNodeName);
if (childNodeName != null && childNodeName.equals("Item")) {
// should check item number, but ignore for now :(
// System.err.println("Adding item to sequence");
AttributeList itemList = new AttributeList();
addAttributesFromNodeToList(itemList, childNode);
a.addItem(itemList);
}
// else may be a #text element in between
childNode = childNode.getNextSibling();
}
}
// System.err.println("Sequence Attribute is "+a);
list.put(tag, a);
} else {
Attribute a = AttributeFactory.newAttribute(tag, vr);
// System.err.println("Created "+a);
if (node.hasChildNodes()) {
Node childNode = node.getFirstChild();
while (childNode != null) {
String childNodeName = childNode.getNodeName();
// System.err.println("childNodeName = "+childNodeName);
if (childNodeName != null && childNodeName.equals("value")) {
// should check value number, but ignore for now :(
String value = childNode.getTextContent();
// System.err.println("Value value = "+value);
if (value != null) {
value =
StringUtilities.removeLeadingOrTrailingWhitespaceOrISOControl(
value); // just in case
a.addValue(value);
}
}
// else may be a #text element in between
childNode = childNode.getNextSibling();
}
}
// System.err.println("Attribute is "+a);
list.put(tag, a);
}
}
}
}
}
node = node.getNextSibling();
}
}
}
private void processTxt(Node operation) {
List<Node> targets = getChildNodes(operation, "target");
List<Node> optionNodes = getChildNodes(operation, "opt");
List<Node> separatorNode = getChildNodes(operation, "separator");
if (targets.isEmpty() || optionNodes.isEmpty()) {
return;
}
String defaultSeparator = "=";
String globalSeparator = defaultSeparator;
if (!separatorNode.isEmpty()) {
globalSeparator = separatorNode.get(0).getTextContent();
if (globalSeparator.length() != 1) {
globalSeparator = defaultSeparator;
}
}
Map<String, String> options = new HashMap<String, String>();
Map<String, String> processedOptions = new HashMap<String, String>();
for (int i = 0; i < optionNodes.size(); i++) {
Node option = optionNodes.get(i);
String name = option.getAttributes().getNamedItem("name").getNodeValue();
String value = option.getTextContent();
if (options.containsKey(name)) {
options.remove(name);
}
options.put(name, value);
}
for (int t = 0; t < targets.size(); t++) {
File target = new File(absolutePath(targets.get(t).getTextContent()));
File tmpFile = new File(Utils.timestamp());
BufferedWriter bw = null;
BufferedReader br = null;
try {
Node separatorAttr = targets.get(t).getAttributes().getNamedItem("separator");
String separator = (separatorAttr == null) ? globalSeparator : separatorAttr.getNodeValue();
if (separator.length() != 1) {
separator = globalSeparator;
}
bw = new BufferedWriter(new FileWriter(tmpFile));
if (target.exists()) {
br = new BufferedReader(new FileReader(target));
for (String line; (line = br.readLine()) != null; ) {
String[] parts = line.split(separator);
if (parts.length < 2) {
bw.write(line);
bw.newLine();
continue;
}
String optName = parts[0].trim();
if (options.containsKey(optName)) {
String optValue = options.get(optName);
bw.write(optName + " " + separator + " " + optValue);
bw.newLine();
processedOptions.put(optName, optValue);
options.remove(optName);
} else if (processedOptions.containsKey(optName)) {
bw.write(optName + " " + separator + " " + processedOptions.get(optName));
bw.newLine();
} else {
bw.write(line);
bw.newLine();
}
}
br.close();
}
for (Map.Entry<String, String> entry : options.entrySet()) {
bw.write(entry.getKey() + " " + separator + " " + entry.getValue());
bw.newLine();
}
bw.close();
FileUtils.copyFile(tmpFile, target);
FileUtils.forceDelete(tmpFile);
} catch (IOException ex) {
Utils.onError(new Error.WriteTxtConfig(target.getPath()));
}
}
}
/**
* @see
* org.kuali.kra.proposaldevelopment.budget.service.BudgetSubAwardService#updateSubAwardBudgetDetails(org.kuali.kra.budget.core.Budget,
* org.kuali.kra.proposaldevelopment.budget.bo.BudgetSubAwards, java.util.List)
*/
public boolean updateSubAwardBudgetDetails(
Budget budget, BudgetSubAwards budgetSubAward, List<String[]> errors) throws Exception {
boolean result = true;
// extarct xml from the pdf because the stored xml has been modified
if (budgetSubAward.getSubAwardXfdFileData() == null
|| budgetSubAward.getSubAwardXfdFileData().length == 0) {
errors.add(new String[] {Constants.SUBAWARD_FILE_NOT_EXTRACTED});
return false;
}
PdfReader reader = new PdfReader(budgetSubAward.getSubAwardXfdFileData());
byte[] xmlContents = getXMLFromPDF(reader);
if (xmlContents == null) {
return false;
}
javax.xml.parsers.DocumentBuilderFactory domParserFactory =
javax.xml.parsers.DocumentBuilderFactory.newInstance();
javax.xml.parsers.DocumentBuilder domParser = domParserFactory.newDocumentBuilder();
ByteArrayInputStream byteArrayInputStream = new ByteArrayInputStream(xmlContents);
org.w3c.dom.Document document = domParser.parse(byteArrayInputStream);
NodeList budgetYearList =
XPathAPI.selectNodeList(document, "//*[local-name(.) = 'BudgetYear']");
DateFormat dateFormat = new SimpleDateFormat("yyyy-MM-dd");
boolean fnfForm = StringUtils.contains(budgetSubAward.getFormName(), "RR_FedNonFedBudget");
for (int i = 0; i < budgetYearList.getLength(); i++) {
Node budgetYear = budgetYearList.item(i);
Node startDateNode = XPathAPI.selectSingleNode(budgetYear, "BudgetPeriodStartDate");
if (startDateNode == null) {
startDateNode = XPathAPI.selectSingleNode(budgetYear, "PeriodStartDate");
}
Node endDateNode = XPathAPI.selectSingleNode(budgetYear, "BudgetPeriodEndDate");
if (endDateNode == null) {
endDateNode = XPathAPI.selectSingleNode(budgetYear, "PeriodEndDate");
}
Date startDate = dateFormat.parse(startDateNode.getTextContent());
Date endDate = dateFormat.parse(endDateNode.getTextContent());
// attempt to find a matching budget period
BudgetSubAwardPeriodDetail periodDetail =
findBudgetSubAwardPeriodDetail(budget, budgetSubAward, startDate, endDate);
if (periodDetail != null) {
Node directCostNode, indirectCostNode, costShareNode = null;
if (fnfForm) {
directCostNode = XPathAPI.selectSingleNode(budgetYear, "DirectCosts/FederalSummary");
indirectCostNode =
XPathAPI.selectSingleNode(
budgetYear, "IndirectCosts/TotalIndirectCosts/FederalSummary");
costShareNode = XPathAPI.selectSingleNode(budgetYear, "TotalCosts/NonFederalSummary");
} else {
directCostNode = XPathAPI.selectSingleNode(budgetYear, "DirectCosts");
indirectCostNode =
XPathAPI.selectSingleNode(budgetYear, "IndirectCosts/TotalIndirectCosts");
}
if (directCostNode != null) {
periodDetail.setDirectCost(
new BudgetDecimal(Float.parseFloat(directCostNode.getTextContent())));
}
if (indirectCostNode != null) {
periodDetail.setIndirectCost(
new BudgetDecimal(Float.parseFloat(indirectCostNode.getTextContent())));
}
if (costShareNode != null) {
periodDetail.setCostShare(
new BudgetDecimal(Float.parseFloat(costShareNode.getTextContent())));
} else {
periodDetail.setCostShare(BudgetDecimal.ZERO);
}
periodDetail.computeTotal();
} else {
Node budgetPeriodNode = XPathAPI.selectSingleNode(budgetYear, "BudgetPeriod");
String budgetPeriod = null;
if (budgetPeriodNode != null) {
budgetPeriod = budgetPeriodNode.getTextContent();
}
LOG.debug(
"Unable to find matching period for uploaded period '"
+ budgetPeriod
+ "' -- "
+ startDateNode.getTextContent()
+ " - "
+ endDateNode.getTextContent());
errors.add(
new String[] {
Constants.SUBAWARD_FILE_PERIOD_NOT_FOUND,
budgetPeriod,
startDateNode.getTextContent(),
endDateNode.getTextContent()
});
}
}
return result;
}