NodeList getElementsByTagNameNS(
final Parent xshadow, final String namespaceURI, final String localName) {
if (localName == null) {
return EMPTYLIST;
}
if (namespaceURI == null) {
return EMPTYLIST;
}
final boolean alluri = "*".equals(namespaceURI);
final boolean allname = "*".equals(localName);
final ArrayList<JElement> enodes = new ArrayList<JElement>();
if (xshadow != null) {
final Iterator<org.jdom2.Element> it = xshadow.getDescendants(Filters.element());
org.jdom2.Element e = null;
if (xshadow instanceof org.jdom2.Element) {
e = (org.jdom2.Element) xshadow;
} else {
if (it.hasNext()) {
e = it.next();
}
}
while (e != null) {
if ((allname || localName.equals(e.getName()))
&& (alluri || namespaceURI.equals(e.getNamespaceURI()))) {
enodes.add(find(e));
}
e = it.hasNext() ? it.next() : null;
}
}
return new JNodeList(enodes);
}
static void parseXml(Element p_element, MessageDigest p_md, ArrayList<String> p_ignoreList) {
p_md.update(p_element.getName().getBytes());
String content = p_element.getText();
if (content != null) {
p_md.update(content.getBytes());
}
for (Attribute attribute : p_element.getAttributes()) {
String name = attribute.getName();
if (p_ignoreList.contains(name)) {
continue;
}
String value = attribute.getValue();
if (value != null) {
p_md.update(value.getBytes());
}
}
for (Element child : p_element.getChildren()) {
parseXml(child, p_md, p_ignoreList);
}
}
static void filterMarkerInElement(List<Element> eltList, Map<String, Object> parameterMap) {
final Pattern patternMarker = Pattern.compile("\\$\\{([^}]+)\\}"); // matching pattern is ${..}
for (Element elt : eltList) {
String elementValue = elt.getText();
if (elementValue == null) {
continue;
}
Matcher matcher = patternMarker.matcher(elementValue);
while (matcher.find()) {
String marker = matcher.group(0); // full pattern matched ${..}
String markerName = matcher.group(1); // get only text between curly braces
String parameterValue = ServletUtil.getFirstParameter(parameterMap.get(markerName));
if (parameterValue != null) {
elementValue = elementValue.replace(marker, parameterValue);
elt.setText(elementValue);
} else {
logger.warn(
"Found marker \""
+ marker
+ "\" with NO matching parameter in Element <"
+ elt.getName()
+ ">");
}
}
}
}
protected void parseLauncherTemplate(JnlpTemplate launcher)
throws ServletErrorException, IOException {
// PARSE JNLP LAUNCHER AS JDOM
Element rootElt = null;
BufferedReader reader = null;
try {
// Assume the template has UTF-8 encoding
reader =
new BufferedReader(
new InputStreamReader(
launcher.realPathURL.openConnection().getInputStream(), "UTF-8"));
rootElt = new SAXBuilder(XMLReaders.NONVALIDATING, null, null).build(reader).getRootElement();
// rootElt = new SAXBuilder().build(launcher.realPathURL).getRootElement();
// NOTE : doesn't work with all URl like "file://///server/..."
} catch (JDOMException e) {
throw new ServletErrorException(
HttpServletResponse.SC_NOT_ACCEPTABLE, "Can't parse launcher template", e);
} finally {
FileUtil.safeClose(reader);
}
if (!rootElt.getName().equals(JNLP_TAG_ELT_ROOT)) {
throw new ServletErrorException(
HttpServletResponse.SC_NOT_ACCEPTABLE, "Invalid JNLP launcher template");
}
launcher.rootElt = rootElt;
}
private org.jdom2.Element getDataforCase(String specName, String caseID, String data) {
String caseData = "";
try {
caseData = _ibClient.getCaseData(caseID, _handle);
} catch (IOException e) {
e.printStackTrace();
}
org.jdom2.Element result = new org.jdom2.Element(specName);
SAXBuilder builder = new SAXBuilder();
org.jdom2.Element root = null;
List<org.jdom2.Element> ls = null;
try {
org.jdom2.Document document = builder.build(new StringReader(data));
root = document.getRootElement();
ls = document.getRootElement().getChildren();
} catch (Exception e) {
System.out.println(e);
}
for (org.jdom2.Element l : ls) {
String paramName = l.getName();
org.jdom2.Element advElem = root.getChild(paramName);
try {
if (advElem != null) {
org.jdom2.Element copy = (org.jdom2.Element) advElem.clone();
result.addContent(copy);
} else {
result.addContent(new org.jdom2.Element(paramName));
}
} catch (IllegalAddException iae) {
}
}
return result;
}
private void ItemPostConstraint(WorkItemRecord wir, String data) {
AdviceQuery query = new AdviceQuery();
List<Advice> advs = query.getAdvicesByAdviceJoinPointID(wir.getID());
if ((advs != null) && (advs.size() > 0)) {
suspendCase(wir.getCaseID().substring(0, wir.getCaseID().indexOf('.')));
System.out.println("@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@");
System.out.println(
"suspended case is " + wir.getCaseID().substring(0, wir.getCaseID().indexOf('.')));
for (Advice advice : advs) {
SAXBuilder builder = new SAXBuilder();
List<org.jdom2.Element> ls = null;
org.jdom2.Element root = null;
try {
org.jdom2.Document document = builder.build(new StringReader(data));
ls = document.getRootElement().getChildren();
} catch (Exception e) {
System.out.println(e);
}
String s = "<" + advice.getProceedName() + ">";
for (org.jdom2.Element l : ls) {
s = s + "<" + l.getName() + ">" + l.getText() + "</" + l.getName() + ">";
}
s = s + "</" + advice.getProceedName() + ">";
connect();
advice.setSynched(false);
this._Persister.beginTransaction();
this._Persister.update(advice);
this._Persister.commit();
System.out.println(
"*** try to checkin workitem with proceed id of "
+ advice.getProceedID()
+ " - with data: "
+ s);
try {
_ibClient.checkInWorkItem(advice.getProceedID(), s, "", _handle);
} catch (IOException e) {
System.out.println("************************ problem in checkin");
e.printStackTrace();
}
}
}
}
private void handlePartOfOrganOfOrgan(
Document document, Element description, Element biologicalEntity, String parentOrgan) {
String partOfChain =
getPartOfChain(document, description, biologicalEntity, 0).replace(" of ", ",").trim();
if (!partOfChain.isEmpty()) {
// use explicit part_of
log(
LogLevel.DEBUG,
"===>[pchain] use '"
+ partOfChain
+ "' as constraint to '"
+ biologicalEntity.getName()
+ "'");
appendConstraint(biologicalEntity, formatParentOrgan(partOfChain));
} else {
String part = biologicalEntity.getName();
if (part.matches("\\b(" + nonSpecificParts + ")\\b.*")
&& !part.contains(",")
&& parentOrgan.equals("whole_organism")) {
parentOrgan =
hasPart(
biologicalEntity,
biologicalEntity,
description,
parentOrgan,
part,
nonSpecificParts);
if (!parentOrgan.isEmpty()) {
log(
LogLevel.DEBUG,
"===>[part of 2] use '"
+ parentOrgan
+ "' as constraint to '"
+ biologicalEntity.getName()
+ "'");
appendConstraint(biologicalEntity, formatParentOrgan(parentOrgan));
} /*else{
//quite strong an assumption that the organ of the first clause is the parent organ of all following clauses.
//If this is not true, or the part_of hashtable is complete, comment out this part.
//log(LogLevel.DEBUG,"===>[default] use '"+pocp+"' as constraint to '"+struct.getName()+"'");
struct.appendConstraint(formatParentOrgan(pocp));
parentorgan = pocp;
}*/
}
}
}
/**
* Load all the deals in this element
*
* @param e an element that contains messages in XML format.
*/
protected void loadDeals(Element e) {
Element root = StringToElement.getElementFromString(e.getValue(), e.getName());
for (Element d : root.getChildren()) {
String owner = d.getChildText("owner");
Element deal = d.getChild("Deal");
addDeal(owner, new Contrat(deal));
}
}
/**
* Gets maps that are not installed, but may be downloaded.
*
* @return set of all maps available for download
*/
public static Set<AutoRefMap> getRemoteMaps() {
// check the cache first, we might want to just use the cached value
long time = ManagementFactory.getRuntimeMXBean().getUptime() - _cachedRemoteMapsTime;
if (_cachedRemoteMaps != null && time < AutoRefMap.REMOTE_MAP_CACHE_LENGTH)
return _cachedRemoteMaps;
Set<AutoRefMap> maps = Sets.newHashSet();
String repo = AutoRefMatch.getMapRepo();
try {
Map<String, String> params = Maps.newHashMap();
params.put("prefix", "maps/");
for (; ; ) {
String url = String.format("%s?%s", repo, QueryUtil.prepareParams(params));
Element listing = new SAXBuilder().build(new URL(url)).getRootElement();
assert "ListBucketResult".equals(listing.getName()) : "Unexpected response";
Namespace ns = listing.getNamespace();
String lastkey = null;
for (Element entry : listing.getChildren("Contents", ns)) {
lastkey = entry.getChildTextTrim("Key", ns);
if (!lastkey.endsWith(".zip")) continue;
String[] keyparts = lastkey.split("/");
String mapfile = keyparts[keyparts.length - 1];
String mapslug = mapfile.substring(0, mapfile.length() - 4);
String slugparts[] = mapslug.split("-v");
if (slugparts.length < 2) {
AutoReferee.log("Invalid map filename: " + mapfile, Level.WARNING);
AutoReferee.log("Map files should be of the form \"MapName-vX.X.zip\"", Level.WARNING);
} else {
String etag = entry.getChildTextTrim("ETag", ns);
maps.add(
new AutoRefMap(
slugparts[0], slugparts[1], lastkey, etag.substring(1, etag.length() - 1)));
}
}
// stop looping if the result says that it hasn't been truncated (no more results)
if (!Boolean.parseBoolean(listing.getChildText("IsTruncated", ns))) break;
// use the last key as a marker for the next pass
if (lastkey != null) params.put("marker", lastkey);
}
} catch (IOException e) {
e.printStackTrace();
} catch (JDOMException e) {
e.printStackTrace();
}
_cachedRemoteMapsTime = ManagementFactory.getRuntimeMXBean().getUptime();
return _cachedRemoteMaps = maps;
}
/**
* get named element from parent element
*
* @param elem _more_
* @param eleName _more_
* @return _more_
*/
public Element readElements(Element elem, String eleName) {
List<Element> children = elem.getChildren();
for (Element child : children) {
String childName = child.getName();
if (childName.equals(eleName)) {
return child;
}
}
return null;
}
public static void xpathAttVal(Document doc, String ruta, String val) {
XPathExpression<Element> xpath = XPathFactory.instance().compile(ruta, Filters.element());
List<Element> elemento = xpath.evaluate(doc);
Iterator it = elemento.iterator();
while (it.hasNext()) {
Element at = (Element) it.next();
System.out.println(at.getName() + ": " + at.getAttributeValue(val));
}
}
/**
* This will invoke the <code>endElement</code> callback in the <code>ContentHandler</code>.
*
* @param element <code>Element</code> used in callbacks.
*/
private void endElement(Element element) throws JDOMException {
String namespaceURI = element.getNamespaceURI();
String localName = element.getName();
String rawName = element.getQualifiedName();
try {
contentHandler.endElement(namespaceURI, localName, rawName);
} catch (SAXException se) {
throw new JDOMException("Exception in endElement", se);
}
}
public void addVariables(Element inRoot) throws org.jdom2.DataConversionException {
Element vs = inRoot.getChild("decoder").getChild("variables");
Element segment = new Element("segment");
segment.setAttribute("space", "253");
root.addContent(segment);
Iterator it = vs.getDescendants();
while (it.hasNext()) {
Object o = it.next();
if (o instanceof Element) {
Element e = (Element) o;
if (e.getName().equals("variable")) {
// get common attributes
String comment = e.getAttributeValue("comment");
for (Object oc : e.getChildren("comment")) {
Element ec = (Element) oc;
if (ec.getAttributeValue("lang", "xml").equals("")) comment = ec.getText();
}
String name = e.getAttributeValue("label");
if (name.equals("")) name = e.getAttributeValue("item");
for (Object on : e.getChildren("label")) {
Element en = (Element) on;
if (en.getAttributeValue("lang", "xml").equals("")) name = en.getText();
}
long cv = e.getAttribute("CV").getIntValue();
// find subtype and process
Element type;
type = e.getChild("decVal");
if (type != null) {
segment.addContent(handleDecVal(type, cv, name, comment, e.getAttributeValue("mask")));
continue;
}
type = e.getChild("enumVal");
if (type != null) {
segment.addContent(handleEnumVal(type, cv, name, comment, e.getAttributeValue("mask")));
continue;
}
type = e.getChild("shortAddressVal");
if (type != null) {
segment.addContent(handleShortAddressVal(type, cv, name, comment));
continue;
}
type = e.getChild("longAddressVal");
if (type != null) {
segment.addContent(handleLongAddressVal(type, cv, name, comment));
continue;
}
}
}
}
}
/**
* This constructor is not intended for usage.
*
* @param xml An XML string
* @throws JDOMException Is thrown when the xml string is invalid
* @throws IOException Is thrown when the xml string is invalid
*/
public LolStatus(String xml) throws JDOMException, IOException {
outputter.setFormat(outputter.getFormat().setExpandEmptyElements(false));
final SAXBuilder saxBuilder = new SAXBuilder();
doc = saxBuilder.build(new StringReader(xml));
for (final Element e : doc.getRootElement().getChildren()) {
boolean found = false;
for (final XMLProperty p : XMLProperty.values()) {
if (p.name().equals(e.getName())) {
found = true;
}
}
if (!found) {
System.err.println(
"XMLProperty \""
+ e.getName()
+ "\" value: \""
+ e.getValue()
+ "\" not implemented yet!");
}
}
}
private String parseXmlToHtml(List<Content> docElements) {
String html = "";
Iterator<Content> li = docElements.listIterator();
while (li.hasNext()) {
Content content = li.next();
CType type = content.getCType();
if (type == CType.Element) {
Element element = (Element) content;
if (element.getName().equals("bold")) html += "<b>";
else if (element.getName().equals("italics")) html += "<i>";
else if (element.getName().equals("list")) html += "<ul>";
else if (element.getName().equals("item")) {
html = html.trim();
html += "<li>";
}
html += parseXmlToHtml(element.getContent()).trim();
if (element.getName().equals("bold")) html += "</b>";
else if (element.getName().equals("italics")) html += "</i>";
else if (element.getName().equals("list")) html += "</ul>";
else if (element.getName().equals("item")) html += "</li>";
} else if (type == CType.Text) {
Text text = (Text) content;
String str = text.getText();
html += str;
}
}
return html;
}
public static AutoRefGoal fromElement(AutoRefTeam team, Element elt) {
Class<? extends AutoRefGoal> cls = goalNames.get(elt.getName());
if (cls == null) return null;
try {
Constructor<? extends AutoRefGoal> cons =
cls.getConstructor(AutoRefTeam.class, Element.class);
return cons.newInstance(team, elt).getGoalSettings(team, elt);
} catch (Exception e) {
e.printStackTrace();
return null;
}
}
public static void main(String[] args) {
long start = System.currentTimeMillis();
try {
// 获取JDOM解析器
SAXBuilder builder = new SAXBuilder();
// 解析文件
File file = new File("xml/books.xml");
Document document = builder.build(file);
// 写入XML文件
FileOutputStream fileOutputStream = new FileOutputStream(new File("D:/aaa.xml"));
XMLOutputter xmlOutputter = new XMLOutputter();
xmlOutputter.output(document, fileOutputStream);
fileOutputStream.close();
// 获取根节点
Element root = document.getRootElement();
// 获取子节点列表
List<Element> books = root.getChildren();
// 循环遍历子节点
for (int i = 0; i < books.size(); i++) {
// 获取某一个子节点
Element book = books.get(i);
// 获取得属性值
String isbn = book.getAttributeValue("isbn");
System.out.print("isbn: " + isbn);
List<Element> childrenList = book.getChildren();
for (Element element : childrenList) {
System.out.print(" " + element.getName() + ": ");
System.out.print(element.getText());
}
System.out.println("");
}
} catch (JDOMException e) {
e.printStackTrace();
} catch (IOException e) {
e.printStackTrace();
}
long end = System.currentTimeMillis();
System.out.println("耗时： " + (end - start));
}
void metaVersusData(Element p_element) {
m_metaSize += p_element.getName().length();
String content = p_element.getText();
if (content != null) m_dataSize += content.length();
for (Attribute attribute : p_element.getAttributes()) {
String name = attribute.getName();
m_metaSize += name.length();
String value = attribute.getValue();
if (value != null) {
m_dataSize += value.length();
}
}
for (Element child : p_element.getChildren()) {
metaVersusData(child);
}
}
/**
* This will invoke the <code>startElement</code> callback in the <code>ContentHandler</code>.
*
* @param element <code>Element</code> used in callbacks.
* @param nsAtts <code>List</code> of namespaces to declare with the element or <code>null</code>.
*/
private void startElement(Element element, Attributes nsAtts) throws JDOMException {
String namespaceURI = element.getNamespaceURI();
String localName = element.getName();
String rawName = element.getQualifiedName();
// Allocate attribute list.
AttributesImpl atts = (nsAtts != null) ? new AttributesImpl(nsAtts) : new AttributesImpl();
for (Attribute a : element.getAttributes()) {
atts.addAttribute(
a.getNamespaceURI(),
a.getName(),
a.getQualifiedName(),
getAttributeTypeName(a.getAttributeType()),
a.getValue());
}
try {
contentHandler.startElement(namespaceURI, localName, rawName, atts);
} catch (SAXException se) {
throw new JDOMException("Exception in startElement", se);
}
}
/**
* Amend the given NetcdfFile with metadata from HDF-EOS structMetadata
*
* @param ncfile Amend this file
* @param structMetadata structMetadata as String
* @throws IOException on read error
*/
private void amendFromODL(NetcdfFile ncfile, String structMetadata) throws IOException {
Group rootg = ncfile.getRootGroup();
ODLparser parser = new ODLparser();
Element root = parser.parseFromString(structMetadata); // now we have the ODL in JDOM elements
FeatureType featureType = null;
// SWATH
Element swathStructure = root.getChild("SwathStructure");
if (swathStructure != null) {
List<Element> swaths = swathStructure.getChildren();
for (Element elemSwath : swaths) {
Element swathNameElem = elemSwath.getChild("SwathName");
if (swathNameElem == null) {
log.warn("No SwathName element in {} {} ", elemSwath.getName(), ncfile.getLocation());
continue;
}
String swathName = NetcdfFile.makeValidCdmObjectName(swathNameElem.getText().trim());
Group swathGroup = findGroupNested(rootg, swathName);
// if (swathGroup == null)
// swathGroup = findGroupNested(rootg, H4header.createValidObjectName(swathName));
if (swathGroup != null) {
featureType = amendSwath(ncfile, elemSwath, swathGroup);
} else {
log.warn("Cant find swath group {} {}", swathName, ncfile.getLocation());
}
}
}
// GRID
Element gridStructure = root.getChild("GridStructure");
if (gridStructure != null) {
List<Element> grids = gridStructure.getChildren();
for (Element elemGrid : grids) {
Element gridNameElem = elemGrid.getChild("GridName");
if (gridNameElem == null) {
log.warn("No GridName element in {} {} ", elemGrid.getName(), ncfile.getLocation());
continue;
}
String gridName = NetcdfFile.makeValidCdmObjectName(gridNameElem.getText().trim());
Group gridGroup = findGroupNested(rootg, gridName);
// if (gridGroup == null)
// gridGroup = findGroupNested(rootg, H4header.createValidObjectName(gridName));
if (gridGroup != null) {
featureType = amendGrid(elemGrid, ncfile, gridGroup, ncfile.getLocation());
} else {
log.warn("Cant find Grid group {} {}", gridName, ncfile.getLocation());
}
}
}
// POINT - NOT DONE YET
Element pointStructure = root.getChild("PointStructure");
if (pointStructure != null) {
List<Element> pts = pointStructure.getChildren();
for (Element elem : pts) {
Element nameElem = elem.getChild("PointName");
if (nameElem == null) {
log.warn("No PointName element in {} {}", elem.getName(), ncfile.getLocation());
continue;
}
String name = nameElem.getText().trim();
Group ptGroup = findGroupNested(rootg, name);
// if (ptGroup == null)
// ptGroup = findGroupNested(rootg, H4header.createValidObjectName(name));
if (ptGroup != null) {
featureType = FeatureType.POINT;
} else {
log.warn("Cant find Point group {} {}", name, ncfile.getLocation());
}
}
}
if (featureType != null) {
if (showWork) System.out.println("***EOS featureType= " + featureType.toString());
rootg.addAttribute(new Attribute(CF.FEATURE_TYPE, featureType.toString()));
// rootg.addAttribute(new Attribute(CDM.CONVENTIONS, "HDFEOS"));
}
}
/**
* Create a LayoutEditor object, then register and fill it, then pop it in a JFrame
*
* @param shared Top level Element to unpack.
*/
@Override
public boolean load(Element shared, Element perNode) {
boolean result = true;
Attribute a;
// find coordinates
int x = 0;
int y = 0;
// From this version onwards separate sizes for window and panel are used
int windowHeight = 400;
int windowWidth = 300;
int panelHeight = 340;
int panelWidth = 280;
int sidetrackwidth = 3;
int mainlinetrackwidth = 3;
try {
x = shared.getAttribute("x").getIntValue();
y = shared.getAttribute("y").getIntValue();
// For compatibility with previous versions, try and see if height and width tags are
// contained in the file
if ((a = shared.getAttribute("height")) != null) {
windowHeight = a.getIntValue();
panelHeight = windowHeight - 60;
}
if ((a = shared.getAttribute("width")) != null) {
windowWidth = a.getIntValue();
panelWidth = windowWidth - 18;
}
// For files created by the new version, retrieve window and panel sizes
if ((a = shared.getAttribute("windowheight")) != null) {
windowHeight = a.getIntValue();
}
if ((a = shared.getAttribute("windowwidth")) != null) {
windowWidth = a.getIntValue();
}
if ((a = shared.getAttribute("panelheight")) != null) {
panelHeight = a.getIntValue();
}
if ((a = shared.getAttribute("panelwidth")) != null) {
panelWidth = a.getIntValue();
}
mainlinetrackwidth = shared.getAttribute("mainlinetrackwidth").getIntValue();
sidetrackwidth = shared.getAttribute("sidetrackwidth").getIntValue();
} catch (org.jdom2.DataConversionException e) {
log.error("failed to convert LayoutEditor's attribute");
result = false;
}
double xScale = 1.0;
double yScale = 1.0;
a = shared.getAttribute("xscale");
if (a != null) {
try {
xScale = (Float.parseFloat(a.getValue()));
} catch (Exception e) {
log.error("failed to convert to float - " + a.getValue());
result = false;
}
}
a = shared.getAttribute("yscale");
if (a != null) {
try {
yScale = (Float.parseFloat(a.getValue()));
} catch (Exception e) {
log.error("failed to convert to float - " + a.getValue());
result = false;
}
}
// find the name and default track color
String name = "";
if (shared.getAttribute("name") != null) {
name = shared.getAttribute("name").getValue();
}
if (jmri.jmrit.display.PanelMenu.instance().isPanelNameUsed(name)) {
JFrame frame = new JFrame("DialogDemo");
frame.setDefaultCloseOperation(JFrame.DISPOSE_ON_CLOSE);
log.warn("File contains a panel with the same name (" + name + ") as an existing panel");
int n =
JOptionPane.showConfirmDialog(
frame,
java.text.MessageFormat.format(rb.getString("DuplicatePanel"), new Object[] {name}),
rb.getString("DuplicatePanelTitle"),
JOptionPane.YES_NO_OPTION);
if (n == JOptionPane.NO_OPTION) {
return false;
}
}
String defaultColor = "black";
String defaultTextColor = "black";
if (shared.getAttribute("defaulttrackcolor") != null) {
defaultColor = shared.getAttribute("defaulttrackcolor").getValue();
}
if (shared.getAttribute("defaulttextcolor") != null) {
defaultTextColor = shared.getAttribute("defaulttextcolor").getValue();
}
String turnoutCircleColor =
"track"; // default to using use default track color for circle color
if (shared.getAttribute("turnoutcirclecolor") != null) {
turnoutCircleColor = shared.getAttribute("turnoutcirclecolor").getValue();
}
int turnoutCircleSize = 2;
if (shared.getAttribute("turnoutcirclesize") != null) {
try {
turnoutCircleSize = shared.getAttribute("turnoutcirclesize").getIntValue();
} catch (DataConversionException e1) {
// leave at default if cannot convert
log.warn("unable to convert turnoutcirclesize");
}
}
boolean turnoutDrawUnselectedLeg = true;
if ((a = shared.getAttribute("turnoutdrawunselectedleg")) != null
&& a.getValue().equals("no")) {
turnoutDrawUnselectedLeg = false;
}
// create the objects
LayoutEditor panel = new LayoutEditor(name);
panel.setLayoutName(name);
panel.setMainlineTrackWidth(mainlinetrackwidth);
panel.setSideTrackWidth(sidetrackwidth);
panel.setDefaultTrackColor(defaultColor);
panel.setDefaultTextColor(defaultTextColor);
panel.setTurnoutCircleColor(turnoutCircleColor);
panel.setTurnoutCircleSize(turnoutCircleSize);
panel.setTurnoutDrawUnselectedLeg(turnoutDrawUnselectedLeg);
panel.setXScale(xScale);
panel.setYScale(yScale);
// turnout size parameters
double sz = 20.0;
a = shared.getAttribute("turnoutbx");
if (a != null) {
try {
sz = (Float.parseFloat(a.getValue()));
panel.setTurnoutBX(sz);
} catch (Exception e) {
log.error("failed to convert to float - " + a.getValue());
result = false;
}
}
a = shared.getAttribute("turnoutcx");
if (a != null) {
try {
sz = (Float.parseFloat(a.getValue()));
panel.setTurnoutCX(sz);
} catch (Exception e) {
log.error("failed to convert to float - " + a.getValue());
result = false;
}
}
a = shared.getAttribute("turnoutwid");
if (a != null) {
try {
sz = (Float.parseFloat(a.getValue()));
panel.setTurnoutWid(sz);
} catch (Exception e) {
log.error("failed to convert to float - " + a.getValue());
result = false;
}
}
a = shared.getAttribute("xoverlong");
if (a != null) {
try {
sz = (Float.parseFloat(a.getValue()));
panel.setXOverLong(sz);
} catch (Exception e) {
log.error("failed to convert to float - " + a.getValue());
result = false;
}
}
a = shared.getAttribute("xoverhwid");
if (a != null) {
try {
sz = (Float.parseFloat(a.getValue()));
panel.setXOverHWid(sz);
} catch (Exception e) {
log.error("failed to convert to float - " + a.getValue());
result = false;
}
}
a = shared.getAttribute("xovershort");
if (a != null) {
try {
sz = (Float.parseFloat(a.getValue()));
panel.setXOverShort(sz);
} catch (Exception e) {
log.error("failed to convert to float - " + a.getValue());
result = false;
}
}
// grid size parameter
int iz = 10; // thisw value is never used but it's the default
a = shared.getAttribute("gridSize");
if (a != null) {
try {
iz = (Integer.parseInt(a.getValue()));
panel.setGridSize(iz);
} catch (Exception e) {
log.error("failed to convert to int - " + a.getValue());
result = false;
}
}
// set contents state
String slValue = "both";
if ((a = shared.getAttribute("sliders")) != null && a.getValue().equals("no")) {
slValue = "none";
}
if ((a = shared.getAttribute("scrollable")) != null) {
slValue = a.getValue();
}
boolean edValue = true;
if ((a = shared.getAttribute("editable")) != null && a.getValue().equals("no")) {
edValue = false;
}
boolean value = true;
if ((a = shared.getAttribute("positionable")) != null && a.getValue().equals("no")) {
value = false;
}
panel.setAllPositionable(value);
value = true;
if ((a = shared.getAttribute("controlling")) != null && a.getValue().equals("no")) {
value = false;
}
panel.setAllControlling(value);
value = true;
if ((a = shared.getAttribute("animating")) != null && a.getValue().equals("no")) {
value = false;
}
panel.setTurnoutAnimation(value);
boolean hbValue = true;
if ((a = shared.getAttribute("showhelpbar")) != null && a.getValue().equals("no")) {
hbValue = false;
}
boolean dgValue = false;
if ((a = shared.getAttribute("drawgrid")) != null && a.getValue().equals("yes")) {
dgValue = true;
}
boolean sgaValue = false;
if ((a = shared.getAttribute("snaponadd")) != null && a.getValue().equals("yes")) {
sgaValue = true;
}
boolean sgmValue = false;
if ((a = shared.getAttribute("snaponmove")) != null && a.getValue().equals("yes")) {
sgmValue = true;
}
boolean aaValue = false;
if ((a = shared.getAttribute("antialiasing")) != null && a.getValue().equals("yes")) {
aaValue = true;
}
value = false;
if ((a = shared.getAttribute("turnoutcircles")) != null && a.getValue().equals("yes")) {
value = true;
}
panel.setTurnoutCircles(value);
value = false;
if ((a = shared.getAttribute("tooltipsnotedit")) != null && a.getValue().equals("yes")) {
value = true;
}
panel.setTooltipsNotEdit(value);
value = false;
if ((a = shared.getAttribute("autoblkgenerate")) != null && a.getValue().equals("yes")) {
value = true;
}
panel.setAutoBlockAssignment(value);
value = true;
if ((a = shared.getAttribute("tooltipsinedit")) != null && a.getValue().equals("no")) {
value = false;
}
panel.setTooltipsInEdit(value);
// set default track color
if ((a = shared.getAttribute("defaulttrackcolor")) != null) {
panel.setDefaultTrackColor(a.getValue());
}
// set default track color
if ((a = shared.getAttribute("defaultoccupiedtrackcolor")) != null) {
panel.setDefaultOccupiedTrackColor(a.getValue());
}
// set default track color
if ((a = shared.getAttribute("defaultalternativetrackcolor")) != null) {
panel.setDefaultAlternativeTrackColor(a.getValue());
}
try {
int red = shared.getAttribute("redBackground").getIntValue();
int blue = shared.getAttribute("blueBackground").getIntValue();
int green = shared.getAttribute("greenBackground").getIntValue();
panel.setDefaultBackgroundColor(ColorUtil.colorToString(new Color(red, green, blue)));
panel.setBackgroundColor(new Color(red, green, blue));
} catch (org.jdom2.DataConversionException e) {
log.warn("Could not parse color attributes!");
} catch (NullPointerException e) { // considered normal if the attributes are not present
}
if (shared.getAttribute("useDirectTurnoutControl") != null) {
if (shared.getAttribute("useDirectTurnoutControl").getValue().equals("yes")) {
panel.setDirectTurnoutControl(true);
}
}
// Set editor's option flags, load content after
// this so that individual item flags are set as saved
panel.initView();
// load the contents
List<Element> items = shared.getChildren();
for (int i = 0; i < items.size(); i++) {
// get the class, hence the adapter object to do loading
Element item = items.get(i);
String adapterName = item.getAttribute("class").getValue();
if (log.isDebugEnabled()) {
String id = "<null>";
try {
id = item.getAttribute("ident").getValue();
} catch (Exception e) {
}
log.debug("Load " + id + " for [" + panel.getName() + "] via " + adapterName);
}
try {
XmlAdapter adapter = (XmlAdapter) Class.forName(adapterName).newInstance();
// and do it
adapter.load(item, panel);
if (!panel.loadOK()) {
result = false;
}
} catch (Exception e) {
log.error("Exception while loading " + item.getName() + ":" + e);
result = false;
e.printStackTrace();
}
}
panel.disposeLoadData(); // dispose of url correction data
// final initialization of objects
panel.setConnections();
// display the results
panel.setAllEditable(edValue); // set first since other attribute use this setting
panel.setShowHelpBar(hbValue);
panel.setDrawGrid(dgValue);
panel.setSnapOnAdd(sgaValue);
panel.setSnapOnMove(sgmValue);
panel.setAntialiasingOn(aaValue);
panel.setScroll(slValue);
panel.pack();
panel.setLayoutDimensions(windowWidth, windowHeight, x, y, panelWidth, panelHeight);
panel.setVisible(true); // always show the panel
panel.resetDirty();
// register the resulting panel for later configuration
InstanceManager.getOptionalDefault(jmri.ConfigureManager.class).registerUser(panel);
if (jmri.InstanceManager.getDefault(jmri.TransitManager.class).getSystemNameList().size() > 0) {
if (shared.getAttribute("openDispatcher") != null) {
if (shared.getAttribute("openDispatcher").getValue().equals("yes")) {
panel.setOpenDispatcherOnLoad(true);
jmri.jmrit.dispatcher.DispatcherFrame.instance();
} else {
panel.setOpenDispatcherOnLoad(false);
}
}
}
return result;
}
/**
* form and apply a parent organ to parts
*
* @param description:
* @param statement
* @param parentStructure element holding a candidate parent
* @param parentOfParentStructure string of the name of the parent organ of the parentstructure
* @return
*/
private String attachParentOrganToOtherBiologicalEntities(
Document document,
Element description,
Element statement,
Element parentStructure,
String parentOfParentStructure,
String nonSpecificParts) {
String parentOrgan =
getParentOrgan(document, description, parentStructure, parentOfParentStructure);
// parentorgan = parentorgan.trim();
// attach parentorgan to other 'structures' in this statement
List<Element> biologicalEntities =
statement.getChildren("biological_entity"); // could include 'relation' too
String parentStructureName = null;
for (Element biologicalEntity : biologicalEntities) {
if (!biologicalEntity.equals(parentStructure)) {
// skip the 1st structure which is parentstruct
if (!hasStructuralConstraint(biologicalEntity)) {
String partOfChain =
getPartOfChain(document, description, biologicalEntity, 3)
.replace(" of ", ",")
.trim(); // part of organ of organ
String part =
biologicalEntity.getAttributeValue("name")
+ (partOfChain.isEmpty() ? "" : "," + partOfChain);
if (part.matches("\\b(" + nonSpecificParts + ")\\b.*")
&& !part.contains(",")
&& parentOrgan.equals("whole_organism")) {
parentStructureName =
hasPart(
parentStructure,
biologicalEntity,
description,
parentOrgan,
part,
nonSpecificParts);
if (!parentStructureName.isEmpty()) {
log(
LogLevel.DEBUG,
"===>[part of 1] use '"
+ parentStructureName
+ "' as constraint to '"
+ biologicalEntity.getName()
+ "'");
appendConstraint(biologicalEntity, formatParentOrgan(parentStructureName));
} else if (possess(parentStructure, biologicalEntity, description)) {
parentStructureName = formatParentOrgan(parentOrgan);
log(
LogLevel.DEBUG,
"===>[possess] use '"
+ parentStructureName
+ "' as constraint to '"
+ biologicalEntity.getName()
+ "'");
appendConstraint(biologicalEntity, formatParentOrgan(parentStructureName));
}
}
}
}
}
return parentStructureName != null
? parentStructureName
: parentOrgan.replaceAll("(^,|,$)", "");
}
/**
* if parentStruct and partStruct has a non-possessing relation, return "" (e.g., The nucleus
* situated in the posterior part of the body. => Body is not part of Nucleus.) otherwise (i.e.
* has no relation, or has a possessing relation), return parent structure name as a string
*
* @param parentStructure
* @param partStructure
* @param description
* @param parentName a list of organ, separated by ',', listed from suborgan to parent organ.
* @param partName a list of organ, separated by ',', listed from suborgan to parent organ.
* @return the name of parent structure (Format: "blade,leaf"), or "" if parentStruct is not a
* parent
*/
private String hasPart(
Element parentStructure,
Element partStructure,
Element description,
String parentName,
String partName,
String nonSpecificParts) {
if (partName.contains(",")) {
return partName.substring(partName.indexOf(",")).trim();
}
List<Element> statements = description.getChildren("statement");
// check relations for evidence
boolean hasRelation = false;
boolean hasPossessRelation = false;
for (Element statement : statements) {
List<Element> relations = statement.getChildren("relation");
for (Element relation : relations) {
String from = relation.getAttributeValue("from");
String to = relation.getAttributeValue("to");
if ((from != null
&& from.equals(parentStructure.getAttributeValue("id"))
&& to != null
&& to.equals(partStructure.getAttributeValue("id")))) {
hasRelation = true;
if (possessionTerms.contains(relation.getName())) hasPossessRelation = true;
}
}
}
// check character constraints for evidence
String parentId = parentStructure.getAttributeValue("id");
String partId = partStructure.getAttributeValue("id");
for (Element statement : statements) {
List<Element> biologicalEnties = statement.getChildren("biological_entity");
for (Element biologicalEntity : biologicalEnties) {
for (Element character : biologicalEntity.getChildren("character")) {
String constraintId = character.getAttributeValue("constraintid");
String constraint = character.getAttributeValue("constraint");
if (constraintId != null
&& constraintId.equals(partId)
&& biologicalEntity.getAttributeValue("id").equals(parentId)
&& constraint != null) {
hasRelation = true;
if (possessionTerms.contains(
constraint.contains(" ")
? constraint.substring(0, constraint.indexOf(" "))
: constraint)) // first word in constraint string is in possess
hasPossessRelation = true;
}
}
}
}
if (!hasRelation || (hasRelation && hasPossessRelation)) {
if (partName.matches("\\b(" + nonSpecificParts + ")\\b.*") && !partName.contains(",")) {
parentName =
parentName.replaceFirst(
"(\\b(" + nonSpecificParts + ")\\b,? ?)+",
""); // "base of surface, stem" does not make sense.
return parentName;
}
}
return "";
}
public static void read(org.jdom2.Element root, StringBuilder errlog) {
List children = root.getChildren();
for (int i = 0; i < children.size(); i++) {
Element elem = (Element) children.get(i);
if (elem.getName().equals("ioServiceProvider")) {
String className = elem.getAttributeValue("class");
try {
ucar.nc2.NetcdfFile.registerIOProvider(className);
} catch (ClassNotFoundException e) {
errlog.append(
"CoordSysBuilder class not found= " + className + "; check your classpath\n");
} catch (Exception e) {
errlog.append("IOServiceProvider " + className + " failed= " + e.getMessage() + "\n");
}
} else if (elem.getName().equals("coordSysBuilder")) {
String conventionName = elem.getAttributeValue("convention");
String className = elem.getAttributeValue("class");
try {
ucar.nc2.dataset.CoordSysBuilder.registerConvention(conventionName, className);
} catch (ClassNotFoundException e) {
errlog.append(
"CoordSysBuilder class not found= " + className + "; check your classpath\n");
} catch (Exception e) {
errlog.append("CoordSysBuilder " + className + " failed= " + e.getMessage() + "\n");
}
} else if (elem.getName().equals("coordTransBuilder")) {
String transformName = elem.getAttributeValue("name");
String className = elem.getAttributeValue("class");
try {
ucar.nc2.dataset.CoordTransBuilder.registerTransform(transformName, className);
} catch (ClassNotFoundException e) {
errlog.append(
"CoordSysBuilder class not found= " + className + "; check your classpath\n");
} catch (Exception e) {
errlog.append("CoordTransBuilder " + className + " failed= " + e.getMessage() + "\n");
}
} else if (elem.getName().equals("typedDatasetFactory")) {
String typeName = elem.getAttributeValue("datatype");
String className = elem.getAttributeValue("class");
FeatureType datatype = FeatureType.valueOf(typeName.toUpperCase());
if (null == datatype) {
errlog.append(
"TypedDatasetFactory " + className + " unknown datatype= " + typeName + "\n");
continue;
}
try {
ucar.nc2.dt.TypedDatasetFactory.registerFactory(datatype, className);
} catch (ClassNotFoundException e) {
errlog.append(
"CoordSysBuilder class not found= " + className + "; check your classpath\n");
} catch (Exception e) {
errlog.append("TypedDatasetFactory " + className + " failed= " + e.getMessage() + "\n");
}
} else if (elem.getName().equals("gribParameterTable")) {
String editionS = elem.getAttributeValue("edition");
String centerS = elem.getAttributeValue("center");
String subcenterS = elem.getAttributeValue("subcenter");
String versionS = elem.getAttributeValue("version");
String filename = elem.getText();
if ((centerS == null) || (versionS == null) || (filename == null)) {
errlog.append("table element must center, version and filename attributes\n");
continue;
}
// Grib1ParamTables.addParameterTable(int center, int subcenter, int tableVersion, String
// filename) {
// use reflection to decouple from the grib package
try {
int center = Integer.parseInt(centerS);
int subcenter = (subcenterS == null) ? -1 : Integer.parseInt(subcenterS);
int version = Integer.parseInt(versionS);
// ucar.nc2.grib.grib1.tables.Grib1ParamTables.addParameterTable(int center, int
// subcenter, int tableVersion, String tableFilename)
Class c =
RuntimeConfigParser.class
.getClassLoader()
.loadClass("ucar.nc2.grib.grib1.tables.Grib1ParamTables");
Method m =
c.getMethod("addParameterTable", int.class, int.class, int.class, String.class);
m.invoke(null, center, subcenter, version, filename);
} catch (Exception e) {
e.printStackTrace();
}
String strictS = elem.getAttributeValue("strict");
if (strictS != null) {
boolean notStrict = strictS.equalsIgnoreCase("false");
try {
Class c =
RuntimeConfigParser.class
.getClassLoader()
.loadClass("ucar.grib.grib1.tables.Grib1ParamTables");
Method m = c.getMethod("setStrict", boolean.class);
m.invoke(null, !notStrict);
} catch (Exception e) {
e.printStackTrace();
}
continue;
}
} else if (elem.getName().equals("gribParameterTableLookup")) {
String editionS = elem.getAttributeValue("edition");
String filename = elem.getText();
// ucar.nc2.grib.grib1.tables.Grib1ParamTables.addParameterTableLookup(String
// lookupFilename)
try {
Class c =
RuntimeConfigParser.class
.getClassLoader()
.loadClass("ucar.nc2.grib.grib1.tables.Grib1ParamTables");
Method m = c.getMethod("addParameterTableLookup", String.class);
m.invoke(null, filename);
} catch (Exception e) {
e.printStackTrace();
}
} else if (elem.getName().equals("table")) {
String type = elem.getAttributeValue("type");
String filename = elem.getAttributeValue("filename");
if ((type == null) || (filename == null)) {
errlog.append("table element must have both type and filename attributes\n");
continue;
}
try {
if (type.equalsIgnoreCase("GRIB1")) {
// ucar.grib.grib1.GribPDSParamTable.addParameterUserLookup( filename);
// use reflection instead to decouple from the grib package
try {
Class c =
RuntimeConfigParser.class
.getClassLoader()
.loadClass("ucar.grib.grib1.GribPDSParamTable");
Method m = c.getMethod("addParameterUserLookup", String.class);
m.invoke(null, filename);
} catch (ClassNotFoundException e) {
e.printStackTrace();
} catch (NoSuchMethodException e) {
e.printStackTrace();
} catch (InvocationTargetException e) {
e.printStackTrace();
} catch (IllegalAccessException e) {
e.printStackTrace();
}
} else if (type.equalsIgnoreCase("GRIB2")) {
// ucar.grib.grib2.ParameterTable.addParametersUser( filename);
try {
Class c =
RuntimeConfigParser.class
.getClassLoader()
.loadClass(" ucar.grib.grib2.ParameterTable");
Method m = c.getMethod("addParametersUser", String.class);
m.invoke(null, filename);
} catch (Exception e) {
e.printStackTrace();
}
} else {
errlog.append("Unknown table type " + type + "\n");
continue;
}
} catch (Exception e) {
errlog.append("table read failed on " + filename + " = " + e.getMessage() + "\n");
}
} else if (elem.getName().equals("bufrtable")) {
String filename = elem.getAttributeValue("filename");
if (filename == null) {
errlog.append("bufrtable must have filename attribute\n");
continue;
}
// reflection is used to decouple optional jars
Class bufrTablesClass;
try {
bufrTablesClass =
RuntimeConfigParser.class
.getClassLoader()
.loadClass(
"ucar.nc2.iosp.bufr.tables.BufrTables"); // only load if bufr.jar is present
java.lang.Class[] params = new Class[1];
params[0] = String.class;
Method method = bufrTablesClass.getMethod("addLookupFile", params);
Object[] args = new Object[1];
args[0] = filename;
method.invoke(null, args); // static method has null for object
} catch (Throwable e) {
if (e instanceof FileNotFoundException)
errlog.append("bufrtable read failed on " + filename + " = " + e.getMessage() + "\n");
else errlog.append("bufr.jar is not on classpath\n");
}
} else if (elem.getName().equals("Netcdf4Clibrary")) {
// cdm does not have a dependency on netcdf4 (and we don't want to introduce one),
// so we cannot refer to the Nc4Iosp.class object.
String nc4IospClassName = "ucar.nc2.jni.netcdf.Nc4Iosp";
/*
<Netcdf4Clibrary>
<libraryPath>/usr/local/lib</libraryPath>
<libraryName>netcdf</libraryName>
<useForReading>false</useForReading>
</Netcdf4Clibrary>
*/
String path = elem.getChildText("libraryPath");
String name = elem.getChildText("libraryName");
if (path != null && name != null) {
// reflection is used to decouple optional jars
try {
Class nc4IospClass =
RuntimeConfigParser.class.getClassLoader().loadClass(nc4IospClassName);
Method method =
nc4IospClass.getMethod(
"setLibraryAndPath", new Class[] {String.class, String.class});
method.invoke(null, path, name); // static method has null for object
} catch (Throwable e) {
errlog.append(nc4IospClassName + " is not on classpath\n");
}
}
boolean useForReading = Boolean.parseBoolean(elem.getChildText("useForReading"));
if (useForReading) {
try {
// Registers Nc4Iosp in front of all the other IOSPs already registered in
// NetcdfFile.<clinit>().
// Crucially, this means that we'll try to open a file with Nc4Iosp before we try it
// with H5iosp.
NetcdfFile.registerIOProvider(nc4IospClassName);
} catch (IllegalAccessException | InstantiationException | ClassNotFoundException e) {
errlog.append(
String.format(
"Could not register IOSP '%s': %s%n", nc4IospClassName, e.getMessage()));
}
}
}
}
}
/** Parse a DAX file with jdom */
private void parseXmlFile(String path) {
try {
SAXBuilder builder = new SAXBuilder();
// parse using builder to get DOM representation of the XML file
Document dom = builder.build(new File(path));
Element root = dom.getRootElement();
List list = root.getChildren();
for (Iterator it = list.iterator(); it.hasNext(); ) {
Element node = (Element) it.next();
if (node.getName().toLowerCase().equals("job")) {
long length = 0;
String nodeName = node.getAttributeValue("id");
String nodeType = node.getAttributeValue("name");
/**
* capture runtime. If not exist, by default the runtime is 0.1. Otherwise CloudSim would
* ignore this task. BUG/#11
*/
double runtime = 0.1;
if (node.getAttributeValue("runtime") != null) {
String nodeTime = node.getAttributeValue("runtime");
runtime = 1000 * Double.parseDouble(nodeTime);
if (runtime < 100) {
runtime = 100;
}
length = (long) runtime;
} else {
Log.printLine("Cannot find runtime for " + nodeName + ",set it to be 0");
}
// multiple the scale, by default it is 1.0
length *= Parameters.getRuntimeScale();
List fileList = node.getChildren();
List mFileList = new ArrayList<org.cloudbus.cloudsim.File>();
for (Iterator itf = fileList.iterator(); itf.hasNext(); ) {
Element file = (Element) itf.next();
if (file.getName().toLowerCase().equals("uses")) {
String fileName = file.getAttributeValue("name"); // DAX version 3.3
if (fileName == null) {
fileName = file.getAttributeValue("file"); // DAX version 3.0
}
if (fileName == null) {
Log.print("Error in parsing xml");
}
String inout = file.getAttributeValue("link");
double size = 0.0;
String fileSize = file.getAttributeValue("size");
if (fileSize != null) {
size = Double.parseDouble(fileSize) /*/ 1024*/;
} else {
Log.printLine("File Size not found for " + fileName);
}
/** a bug of cloudsim, size 0 causes a problem. 1 is ok. */
if (size == 0) {
size++;
}
/** Sets the file type 1 is input 2 is output */
int type = 0;
if (inout.equals("input")) {
type = Parameters.FileType.INPUT.value;
} else if (inout.equals("output")) {
type = Parameters.FileType.OUTPUT.value;
} else {
Log.printLine("Parsing Error");
}
org.cloudbus.cloudsim.File tFile;
/*
* Already exists an input file (forget output file)
*/
if (size < 0) {
/*
* Assuming it is a parsing error
*/
size = 0 - size;
Log.printLine("Size is negative, I assume it is a parser error");
}
if (type == Parameters.FileType.OUTPUT.value) {
/** It is good that CloudSim does tell whether a size is zero */
tFile = new org.cloudbus.cloudsim.File(fileName, (int) size);
} else if (ReplicaCatalog.containsFile(fileName)) {
tFile = ReplicaCatalog.getFile(fileName);
} else {
tFile = new org.cloudbus.cloudsim.File(fileName, (int) size);
ReplicaCatalog.setFile(fileName, tFile);
}
tFile.setType(type);
mFileList.add(tFile);
}
}
Task task;
// In case of multiple workflow submission. Make sure the jobIdStartsFrom is consistent.
synchronized (this) {
task = new Task(this.jobIdStartsFrom, length);
this.jobIdStartsFrom++;
}
task.setType(nodeType);
task.setUserId(userId);
mName2Task.put(nodeName, task);
for (Iterator itm = mFileList.iterator(); itm.hasNext(); ) {
org.cloudbus.cloudsim.File file = (org.cloudbus.cloudsim.File) itm.next();
task.addRequiredFile(file.getName());
}
task.setFileList(mFileList);
this.getTaskList().add(task);
/** Add dependencies info. */
} else if (node.getName().toLowerCase().equals("child")) {
List pList = node.getChildren();
String childName = node.getAttributeValue("ref");
if (mName2Task.containsKey(childName)) {
Task childTask = (Task) mName2Task.get(childName);
for (Iterator itc = pList.iterator(); itc.hasNext(); ) {
Element parent = (Element) itc.next();
String parentName = parent.getAttributeValue("ref");
if (mName2Task.containsKey(parentName)) {
Task parentTask = (Task) mName2Task.get(parentName);
parentTask.addChild(childTask);
childTask.addParent(parentTask);
}
}
}
}
}
/** If a task has no parent, then it is root task. */
ArrayList roots = new ArrayList<Task>();
for (Iterator it = mName2Task.values().iterator(); it.hasNext(); ) {
Task task = (Task) it.next();
task.setDepth(0);
if (task.getParentList().isEmpty()) {
roots.add(task);
}
}
/** Add depth from top to bottom. */
for (Iterator it = roots.iterator(); it.hasNext(); ) {
Task task = (Task) it.next();
setDepth(task, 1);
}
/** Clean them so as to save memory. Parsing workflow may take much memory */
this.mName2Task.clear();
} catch (JDOMException jde) {
Log.printLine("JDOM Exception;Please make sure your dax file is valid");
} catch (IOException ioe) {
Log.printLine("IO Exception;Please make sure dax.path is correctly set in your config file");
} catch (Exception e) {
e.printStackTrace();
Log.printLine("Parsing Exception");
}
}