Example usage for org.jdom2.output Format getPrettyFormat

Introduction

In this page you can find the example usage for org.jdom2.output Format getPrettyFormat.

Prototype

public static Format getPrettyFormat() 

Source Link

Document

Returns a new Format object that performs whitespace beautification with 2-space indents, uses the UTF-8 encoding, doesn't expand empty elements, includes the declaration and encoding, and uses the default entity escape strategy.

Usage

From source file:org.goobi.production.export.ExportXmlLog.java

License:Open Source License

/**
 * This method exports the production metadata for al list of processes as a single file to a given stream.
 * /*from w  w  w  .  j av a 2 s .  co  m*/
 * @param processList
 * @param outputStream
 * @param xslt
 */

public void startExport(List<Process> processList, OutputStream outputStream, String xslt) {
    Document answer = new Document();
    Element root = new Element("processes");
    answer.setRootElement(root);
    Namespace xmlns = Namespace.getNamespace("http://www.goobi.io/logfile");

    Namespace xsi = Namespace.getNamespace("xsi", "http://www.w3.org/2001/XMLSchema-instance");
    root.addNamespaceDeclaration(xsi);
    root.setNamespace(xmlns);
    Attribute attSchema = new Attribute("schemaLocation", "http://www.goobi.io/logfile" + " XML-logfile.xsd",
            xsi);
    root.setAttribute(attSchema);
    for (Process p : processList) {
        Document doc = createDocument(p, false);
        Element processRoot = doc.getRootElement();
        processRoot.detach();
        root.addContent(processRoot);
    }

    XMLOutputter outp = new XMLOutputter();
    outp.setFormat(Format.getPrettyFormat());

    try {

        outp.output(answer, outputStream);
    } catch (IOException e) {

    } finally {
        if (outputStream != null) {
            try {
                outputStream.close();
            } catch (IOException e) {
                outputStream = null;
            }
        }
    }

}

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From source file:org.helm.notation2.MonomerFactory.java

License:Open Source License

private static String buildMonomerDbXMLFromCache(MonomerCache cache) throws MonomerException {
    XMLOutputter outputer = new XMLOutputter(Format.getPrettyFormat());

    StringBuilder sb = new StringBuilder();
    sb.append("<?xml version=\"1.0\" encoding=\"UTF-8\"?>" + System.getProperty("line.separator")
            + "<MonomerDB xmlns=\"lmr\" xmlns:xsi=\"http://www.w3.org/2001/XMLSchema-instance\">"
            + System.getProperty("line.separator"));

    Map<String, Map<String, Monomer>> mDB = cache.getMonomerDB();
    Element polymerListElement = new Element(POLYMER_LIST_ELEMENT);
    Set<String> polymerTypeSet = mDB.keySet();
    for (Iterator i = polymerTypeSet.iterator(); i.hasNext();) {
        String polymerType = (String) i.next();
        Element polymerElement = new Element(POLYMER_ELEMENT);
        Attribute att = new Attribute(POLYMER_TYPE_ATTRIBUTE, polymerType);
        polymerElement.setAttribute(att);
        polymerListElement.getChildren().add(polymerElement);

        Map<String, Monomer> monomerMap = mDB.get(polymerType);
        Set<String> monomerSet = monomerMap.keySet();

        for (Iterator it = monomerSet.iterator(); it.hasNext();) {
            String monomerID = (String) it.next();
            Monomer m = monomerMap.get(monomerID);
            Element monomerElement = MonomerParser.getMonomerElement(m);
            polymerElement.getChildren().add(monomerElement);
        }/*  w ww. j  a  v a 2 s.c o  m*/
    }
    String polymerListString = outputer.outputString(polymerListElement);
    sb.append(polymerListString + System.getProperty("line.separator"));

    Map<String, Attachment> aDB = cache.getAttachmentDB();
    Element attachmentListElement = new Element(ATTACHMENT_LIST_ELEMENT);
    Set<String> attachmentSet = aDB.keySet();
    for (Iterator itr = attachmentSet.iterator(); itr.hasNext();) {
        String attachmentID = (String) itr.next();
        Attachment attachment = aDB.get(attachmentID);
        Element attachmentElement = MonomerParser.getAttachementElement(attachment);
        attachmentListElement.getChildren().add(attachmentElement);
    }
    String attachmentListString = outputer.outputString(attachmentListElement);
    sb.append(attachmentListString);

    sb.append(System.getProperty("line.separator") + "</MonomerDB>" + System.getProperty("line.separator"));

    return sb.toString();
}

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From source file:org.helm.notation2.tools.NucleotideParser.java

License:Open Source License

public static String getNucleotideTemplatesXML(Map<String, Map<String, String>> templates) {
    XMLOutputter outputer = new XMLOutputter(Format.getPrettyFormat());

    StringBuilder sb = new StringBuilder();
    sb.append(/*ww  w . ja  va 2s  .  c o m*/
            "<?xml version=\"1.0\" encoding=\"UTF-8\"?>\n<NUCLEOTIDE_TEMPLATES xsi:schemaLocation=\"lmr NucleotideTemplateSchema.xsd\" xmlns=\"lmr\" xmlns:xsi=\"http://www.w3.org/2001/XMLSchema-instance\">\n");

    Set<String> templateSet = templates.keySet();
    for (Iterator i = templateSet.iterator(); i.hasNext();) {
        String template = (String) i.next();
        Element templateElement = new Element(TEMPLATE_ELEMENT);
        Attribute att = new Attribute(TEMPLATE_NOTATION_SOURCE_ATTRIBUTE, template);
        templateElement.setAttribute(att);

        Map<String, String> nucMap = templates.get(template);
        Set<String> nucleotideSet = nucMap.keySet();

        for (Iterator it = nucleotideSet.iterator(); it.hasNext();) {
            Element nucleotideElement = new Element(NUCLEOTIDE_ELEMENT);
            templateElement.getChildren().add(nucleotideElement);

            String symbol = (String) it.next();
            Element symbolElement = new Element(NUCLEOTIDE_SYMBOL_ELEMENT);
            symbolElement.setText(symbol);
            nucleotideElement.getChildren().add(symbolElement);

            String notation = nucMap.get(symbol);
            Element notationElement = new Element(NUCLEOTIDE_MONOMER_NOTATION_ELEMENT);
            notationElement.setText(notation);
            nucleotideElement.getChildren().add(notationElement);
        }

        String templateString = outputer.outputString(templateElement);
        sb.append(templateString);
    }

    sb.append("\n</NUCLEOTIDE_TEMPLATES>");

    return sb.toString();
}

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From source file:org.helm.notation2.tools.xHelmNotationExporter.java

License:Open Source License

/**
 * method to get xhelm for the helm2 notation with the new functionality
 *
 * @param helm2notation, HELM2Notation object
 * @return xhelm/*ww w  . ja  va  2 s  .co  m*/
 * @throws MonomerException
 * @throws JDOMException
 * @throws IOException
 * @throws ChemistryException
 */
public static String getXHELM2(HELM2Notation helm2notation)
        throws MonomerException, IOException, JDOMException, ChemistryException {
    set = new HashSet<Monomer>();
    Element root = new Element(xHelmNotationExporter.XHELM_ELEMENT);

    Document doc = new Document(root);

    Element helmElement = new Element(xHelmNotationExporter.HELM_NOTATION_ELEMENT);
    helmElement.setText(helm2notation.toHELM2());

    root.addContent(helmElement);

    Element monomerListElement = new Element(xHelmNotationExporter.MONOMER_LIST_ELEMENT);

    /* save all adhocMonomers */
    for (MonomerNotation monomernotation : MethodsMonomerUtils
            .getListOfMonomerNotation(helm2notation.getListOfPolymers())) {
        /* get all elements of an rna */
        if (monomernotation instanceof MonomerNotationUnitRNA) {
            for (MonomerNotationUnit unit : ((MonomerNotationUnitRNA) monomernotation).getContents()) {
                addAdHocMonomer(unit);
            }
        } else {
            addAdHocMonomer(monomernotation);

        }

    }
    /* give the adhocMonomer's information */
    for (Monomer distinctmonomer : set) {
        Element monomerElement = MonomerParser.getMonomerElement(distinctmonomer);
        monomerListElement.getChildren().add(monomerElement);
    }

    root.addContent(monomerListElement);
    XMLOutputter xmlOutput = new XMLOutputter();
    // display nice
    xmlOutput.setFormat(Format.getPrettyFormat());
    return xmlOutput.outputString(doc);
}

---

From source file:org.helm.notation2.tools.xHelmNotationExporter.java

License:Open Source License

/**
 * method to get xhelm for the helm notation, only if it was possible to
 * convert the helm in the old format//w  w  w.j a v  a 2 s .  co m
 *
 * @param helm2notation, HELM2Notation object
 * @return xhelm
 * @throws MonomerException
 * @throws HELM1FormatException
 * @throws JDOMException
 * @throws IOException
 * @throws NotationException
 * @throws CTKException
 * @throws ValidationException
 * @throws ChemistryException if the Chemistry Engine can not be initialized
 */
public static String getXHELM(HELM2Notation helm2notation) throws MonomerException, HELM1FormatException,
        IOException, JDOMException, NotationException, CTKException, ValidationException, ChemistryException {
    set = new HashSet<Monomer>();
    Element root = new Element(xHelmNotationExporter.XHELM_ELEMENT);

    Document doc = new Document(root);

    Element helmElement = new Element(xHelmNotationExporter.HELM_NOTATION_ELEMENT);
    helmElement.setText(HELM1Utils.getStandard(helm2notation));

    root.addContent(helmElement);

    Element monomerListElement = new Element(xHelmNotationExporter.MONOMER_LIST_ELEMENT);

    /* save all adhocMonomers in the set */
    for (MonomerNotation monomernotation : MethodsMonomerUtils
            .getListOfMonomerNotation(helm2notation.getListOfPolymers())) {
        /* get all elements of an rna */
        if (monomernotation instanceof MonomerNotationUnitRNA) {
            for (MonomerNotationUnit unit : ((MonomerNotationUnitRNA) monomernotation).getContents()) {
                addAdHocMonomer(unit);
            }
        } else {
            addAdHocMonomer(monomernotation);
        }
    }

    /* give adhoc monomer's information */
    for (Monomer distinctmonomer : set) {
        Element monomerElement = MonomerParser.getMonomerElement(distinctmonomer);
        monomerListElement.getChildren().add(monomerElement);
    }

    root.addContent(monomerListElement);

    XMLOutputter xmlOutput = new XMLOutputter();
    // display nice
    xmlOutput.setFormat(Format.getPrettyFormat());

    return xmlOutput.outputString(doc);

}

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From source file:org.humsat.demo.gssw.sensorlocator.kml.SimpleKMLWriter.java

License:Open Source License

/**
 * Writes the current KML tree to the given output stream.
 * //w w w  . ja v  a 2s. c  o m
 * @param os The output stream where the KML tree is to be written.
 * @throws IOException In case an IO error occurs.
 */
public void writeXML(OutputStream os) throws IOException {
    XMLOutputter outputter = new XMLOutputter(Format.getPrettyFormat());
    outputter.output(this.kmlDocument, os);
}

---

From source file:org.isima.carsharing.launcher.Launcher.java

public static void addConfigComment(SettingsDelegate settingsDelegate, File out) {
    try {/*from   w  ww  .  ja  v a2 s. c o m*/
        SAXBuilder builder = new SAXBuilder();

        Document doc = (Document) builder.build(out);
        Element rootNode = doc.getRootElement();
        Element rootNodeCopy = rootNode.clone();

        doc.removeContent(rootNode);
        rootNodeCopy.detach();

        Comment comment = new Comment(settingsDelegate.usedConfigsToXMLComment());
        doc.addContent(comment);
        doc.addContent(rootNodeCopy);

        XMLOutputter xmlOutput = new XMLOutputter();
        xmlOutput.setFormat(Format.getPrettyFormat());
        xmlOutput.output(doc, new FileWriter(out));
    } catch (JDOMException | IOException ex) {
        Logger.getLogger(Launcher.class.getName()).log(Level.SEVERE, null, ex);
    }
}

---

From source file:org.isisaddons.module.docx.fixture.dom.templates.CustomerConfirmation.java

License:Apache License

@Action(semantics = SemanticsOf.SAFE, restrictTo = RestrictTo.PROTOTYPING)
@ActionLayout(contributed = Contributed.AS_ACTION)
@MemberOrder(sequence = "11")
public Clob downloadCustomerConfirmationInputHtml(final Order order)
        throws IOException, JDOMException, MergeException {

    final Document orderAsHtmlJdomDoc = asInputDocument(order);

    final XMLOutputter xmlOutput = new XMLOutputter();
    xmlOutput.setFormat(Format.getPrettyFormat());

    final String html = xmlOutput.outputString(orderAsHtmlJdomDoc);

    final String clobName = "customerConfirmation-" + order.getNumber() + ".html";
    final String clobMimeType = "text/html";
    final String clobBytes = html;

    return new Clob(clobName, clobMimeType, clobBytes);
}

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From source file:org.jls.toolbox.util.xml.XMLParser.java

License:Open Source License

/**
 * Permet  partir d'un document XML gnr par JDom de rcuprer la chane
 * formate en XML./*from ww  w .j av a2s  .co m*/
 * 
 * @param xmlDocument
 *            Fichier XML gnr avec JDom.
 * @return Chane formate en XML.
 */
public static String getStream(Document xmlDocument) {
    Format format = Format.getPrettyFormat();
    format.setIndent("\t");
    XMLOutputter output = new XMLOutputter(format);
    return output.outputString(xmlDocument);
}

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From source file:org.jls.toolbox.util.xml.XMLParser.java

License:Open Source License

/**
 * Permet d'exporter un {@link Document} vers un fichier XML.
 * /*from w ww . j a  va2s  .  c  om*/
 * @param doc
 *            Document  exporter dans un fichier.
 * @param file
 *            Fichier vers lequel exporter le fichier.
 * @throws FileNotFoundException
 *             Le fichier est cr donc on s'en fout.
 * @throws IOException
 *             Si une erreur survient pendant l'criture, une exception est
 *             leve.
 */
public static void exportToFile(final Document doc, final File file) throws FileNotFoundException, IOException {
    if (doc != null && file != null) {
        try (FileOutputStream os = new FileOutputStream(file)) {
            XMLOutputter out = new XMLOutputter(Format.getPrettyFormat());
            out.output(doc, os);
        }
    } else {
        throw new NullPointerException();
    }
}

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