Example usage for org.dom4j Element elementIterator

Introduction

In this page you can find the example usage for org.dom4j Element elementIterator.

Prototype

Iterator<Element> elementIterator(QName qName);

Source Link

Document

Returns an iterator over the elements contained in this element which match the given fully qualified name.

Usage

From source file:fr.ens.transcriptome.teolenn.DesignReader.java

License:Open Source License

/**
 * Parse the "select" element of the DOM.
 * @param rootElement root element of the document
 * @return a list of weights objects/*from   w  ww. j a v  a2s. co m*/
 * @throws IOException if an error occurs while parsing
 */
private WeightsSetter parseSelectWeights(final Element rootElement) throws IOException {

    // Map of weights
    final Map<String, Float> selectWeights = new HashMap<String, Float>();

    // Map of properties
    final Map<String, Properties> selectProperties = new HashMap<String, Properties>();

    for (Iterator i = rootElement.elementIterator("selector"); i.hasNext();) {
        final Element select = (Element) i.next();

        for (Iterator i2 = select.elementIterator("measurement"); i2.hasNext();) {
            final Element measurement = (Element) i2.next();

            String measurementName = null;
            String measurementWeight = null;

            for (Iterator i3 = measurement.elementIterator("name"); i3.hasNext();) {
                final Element name = (Element) i3.next();
                measurementName = name.getTextTrim();
            }

            if (measurementName == null) {
                logger.warning("Measurement without name.");
                continue;
            }

            // Get the weight for the measurement
            for (Iterator i4 = measurement.elementIterator("weight"); i4.hasNext();) {
                final Element weight = (Element) i4.next();
                measurementWeight = weight.getTextTrim();
            }

            try {
                selectWeights.put(measurementName, Float.parseFloat(measurementWeight));
            } catch (NumberFormatException e) {
                logger.warning("Invalid " + measurementName + " weight: " + measurementWeight);
            }

            // Get the properties of the measurement
            selectProperties.put(measurementName, getElementParameters(measurement));
        }
    }

    return new WeightsSetter() {

        @Override
        public void setWeights(SequenceMeasurements sm) {

            // Set the weights
            for (Map.Entry<String, Float> e : selectWeights.entrySet())
                sm.setWeight(sm.getMeasurement(e.getKey()), e.getValue());

            // Set the properties
            for (Map.Entry<String, Properties> e : selectProperties.entrySet()) {

                final String name = e.getKey();
                final Properties properties = e.getValue();

                if (!sm.isMeasurement(name)) {
                    logger.warning("Unknown measurement: " + name);
                    continue;
                }

                for (Map.Entry<Object, Object> e2 : properties.entrySet()) {

                    sm.getMeasurement(name).setProperty((String) e2.getKey(), (String) e2.getValue());

                }
            }
        }
    };

}

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From source file:fr.ens.transcriptome.teolenn.DesignReader.java

License:Open Source License

/**
 * Parse the "output" element of the DOM.
 * @param rootElement root element of the document
 * @return a selector objects// ww w . ja  v a  2 s.  c  om
 * @throws TeolennException if an error occurs while parsing
 */
private List<Output> parseOutput(final Element rootElement) throws TeolennException {

    List<Output> list = new ArrayList<Output>();

    for (Iterator i = rootElement.elementIterator("outputs"); i.hasNext();) {

        final Element outputs = (Element) i.next();

        for (Iterator i1 = outputs.elementIterator("output"); i1.hasNext();) {

            final Element output = (Element) i1.next();

            String selectorName = null;

            for (Iterator i2 = output.elementIterator("name"); i2.hasNext();) {
                final Element name = (Element) i2.next();
                selectorName = name.getTextTrim();
            }

            // Add the selector to registery if it is a plug in
            for (Iterator i3 = output.elementIterator("class"); i3.hasNext();) {
                final Element clazz = (Element) i3.next();
                String outputClass = clazz.getTextTrim();
                OutputRegistery.addOutputType(selectorName, outputClass);
            }

            // Get the parameters of the measurement
            final Properties properties = getElementParameters(output);

            Output o = OutputRegistery.getOutput(selectorName);

            if (output == null) {
                logger.warning("Unknown output: " + selectorName);
                throw new TeolennException("Unknown output: " + selectorName);
            }

            // Set the initialization parameters for the selector
            for (Map.Entry<Object, Object> entry : properties.entrySet())
                o.setInitParameter((String) entry.getKey(), (String) entry.getValue());

            list.add(o);
        }
    }

    if (list.size() == 0)
        list.add(new DefaultOutput());

    // Set the default initialization parameters of the outputs
    for (Output o : list)
        this.design.setDefaultModuleInitParameters(o);

    return list;
}

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From source file:fr.ens.transcriptome.teolenn.DesignReader.java

License:Open Source License

/**
 * Get the parameter of an element/*from w w w .j a  va 2s . c  o  m*/
 * @param element Element to parse
 * @return a Properties object with the name and values of the parameters
 */
private final Properties getElementParameters(final Element element) {

    final Properties result = new Properties();

    for (Iterator i4 = element.elementIterator("parameters"); i4.hasNext();) {
        final Element params = (Element) i4.next();

        for (Iterator i5 = params.elementIterator("parameter"); i5.hasNext();) {
            final Element param = (Element) i5.next();

            String pKey = null;
            String pValue = null;

            for (Iterator i6 = param.elementIterator("name"); i6.hasNext();) {
                final Element name = (Element) i6.next();
                pKey = name.getTextTrim().toLowerCase();
            }

            for (Iterator i7 = param.elementIterator("value"); i7.hasNext();) {
                final Element value = (Element) i7.next();
                pValue = getValue(value.getTextTrim());
            }

            if (pKey != null && pValue != null)
                result.setProperty(pKey, pValue);
        }

    }

    return result;
}

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From source file:fr.ens.transcriptome.teolenn.DesignReader.java

License:Open Source License

/**
 * Get the constants// w  ww.j  a  v  a2 s.c o m
 * @param element Element to parse
 * @return a Properties object with the name and values of the parameters
 */
private final Properties getElementConstants(final Element element) {

    final Properties result = new Properties();

    for (Iterator i4 = element.elementIterator("constants"); i4.hasNext();) {
        final Element params = (Element) i4.next();

        for (Iterator i5 = params.elementIterator("constant"); i5.hasNext();) {
            final Element param = (Element) i5.next();

            String pKey = null;
            String pValue = null;

            for (Iterator i6 = param.elementIterator("name"); i6.hasNext();) {
                final Element name = (Element) i6.next();
                pKey = name.getTextTrim().toLowerCase();
            }

            for (Iterator i7 = param.elementIterator("value"); i7.hasNext();) {
                final Element value = (Element) i7.next();
                pValue = value.getTextTrim();

            }

            if (pKey != null || pValue != null)
                result.setProperty(pKey, pValue);
        }

    }

    return result;
}

---

From source file:fr.ens.transcriptome.teolenn.DesignReader.java

License:Open Source License

/**
 * Test if the phase of the element must be skipped.
 * @param rootElement DOM root element//from ww w  .  ja v  a2s  .  c o m
 * @param elementName Name of the tag to test
 * @return true if the phase of the element must be skipped
 */
private final boolean isSkipElementEnable(final Element rootElement, final String elementName) {

    boolean result = false;

    for (Iterator i = rootElement.elementIterator(elementName); i.hasNext();) {
        final Element e = (Element) i.next();

        final String value = e.attributeValue("skip");
        if (value == null)
            return false;

        result = Boolean.parseBoolean(value.trim());
    }

    return result;
}

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From source file:fr.mael.microrss.xml.opml.OPMLReader.java

License:Open Source License

public List<Category> parse(InputStream stream) throws DocumentException {
    List<Category> categories = new ArrayList<Category>();
    SAXReader reader = new SAXReader();
    Document document = reader.read(stream);
    Element root = document.getRootElement();
    Element body = (Element) root.elementIterator("body").next();
    for (Iterator i = body.elementIterator("outline"); i.hasNext();) {
        Element el = (Element) i.next();
        Category cat = getCategory(el, null);
        categories.add(cat);/*from w w  w .ja va 2  s . co m*/
        parseCategories(el, cat);
    }
    return categories;
}

---

From source file:fr.mael.microrss.xml.opml.OPMLReader.java

License:Open Source License

private void parseCategories(Element element, Category parent) {
    for (Iterator i = element.elementIterator("outline"); i.hasNext();) {
        Element el = (Element) i.next();
        if (isFeed(el)) {
            parent.getUserFeeds().add(getFeed(el, parent));
        } else {//from w ww .  j  a  v  a2  s.  co m
            Category cat = getCategory(el, parent);
            parseCategories(el, cat);
        }
    }
}

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From source file:galign.helpers.AlignmentMapping.java

License:Apache License

/**
 * Reads and validates a GAM XML file./*  w ww.  j a  v  a  2s.c  om*/
 */
protected void init(SAXReader p_reader, InputSource p_input) throws org.dom4j.DocumentException {
    Document dom = p_reader.read(p_input);
    Element root = dom.getRootElement();

    m_version = root.attributeValue("version");
    m_sourceTmxFileName = root.attributeValue("source-tmx");
    m_targetTmxFileName = root.attributeValue("target-tmx");

    clearAlignRecords();

    for (Iterator i = root.elementIterator("align"); i.hasNext();) {
        // Example data: <align source="7,8" target="12,14" approved="N" />

        Element item = (Element) i.next();
        StringTokenizer tok1 = new StringTokenizer(item.attributeValue("source"), ",");
        while (tok1.hasMoreTokens()) {
            Align align = new Align();

            align.m_source = tok1.nextToken();
            StringTokenizer tok2 = new StringTokenizer(item.attributeValue("target"), " ,");
            boolean first = true;
            while (tok2.hasMoreTokens()) {
                if (first) {
                    align.m_target = tok2.nextToken();
                    align.m_approved = item.attributeValue("approved");
                    addAlignRecord(align);
                    first = false;
                } else {
                    Align align2 = new Align();
                    align2.m_source = align.m_source;
                    align2.m_target = tok2.nextToken();
                    align2.m_approved = item.attributeValue("approved");
                    addAlignRecord(align2);
                }
            }
        }

    }

    clearRemoveRecords();

    for (Iterator i = root.elementIterator("remove"); i.hasNext();) {
        Element item = (Element) i.next();
        Remove remove = new Remove();

        remove.m_id = item.attributeValue("id");
        remove.m_isSource = item.attributeValue("locale");

        addRemoveRecord(remove);
    }

    clearIsolateRecords();

    for (Iterator i = root.elementIterator("isolate"); i.hasNext();) {
        Element item = (Element) i.next();
        Isolate isolate = new Isolate();

        isolate.m_id = item.attributeValue("id");
        isolate.m_isSource = item.attributeValue("locale");
        isolate.m_approved = item.attributeValue("approved");

        addIsolateRecord(isolate);
    }
}

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From source file:galign.helpers.AlignmentPackage.java

License:Apache License

/**
 * Reads and validates a GAP XML file./*from   w  w  w  .j a  v  a2 s .c  o  m*/
 */
protected void init(SAXReader p_reader, InputSource p_input, String p_dir) throws org.dom4j.DocumentException {
    Document dom = p_reader.read(p_input);
    Element root = dom.getRootElement();

    m_version = root.attributeValue("version");
    m_sourceLocale = root.attributeValue("source-locale");
    m_targetLocale = root.attributeValue("target-locale");
    m_dir = p_dir;

    m_files.clear();

    for (Iterator i = root.elementIterator("files"); i.hasNext();) {
        Element item = (Element) i.next();
        File file = new File();

        file.m_originalSourceFileName = item.attributeValue("original-source-file");
        file.m_originalTargetFileName = item.attributeValue("original-target-file");
        file.m_sourceCuvId = item.attributeValue("source-cuv-id");
        file.m_targetCuvId = item.attributeValue("target-cuv-id");
        file.m_sourceTmxFileName = item.attributeValue("source-tmx");
        file.m_targetTmxFileName = item.attributeValue("target-tmx");
        file.m_mappingFileName = item.attributeValue("gam");
        file.m_state = item.attributeValue("state");

        addFile(file);
    }
}

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From source file:galign.helpers.tmx.TmxHeader.java

License:Apache License

private void init(Element p_element) {
    Attribute attr;/*from ww w  .  j a  v a 2 s  . c o m*/
    List nodes;
    Date date;

    // mandatory

    m_creationtoolversion = p_element.attributeValue(CREATIONTOOLVERSION);
    m_creationtool = p_element.attributeValue(CREATIONTOOL);
    m_segtype = p_element.attributeValue(SEGTYPE);
    m_o_tmf = p_element.attributeValue(O_TMF);
    m_adminlang = p_element.attributeValue(ADMINLANG);
    m_srclang = p_element.attributeValue(SRCLANG);
    m_datatype = p_element.attributeValue(DATATYPE);

    // optional

    m_o_encoding = p_element.attributeValue(O_ENCODING);
    m_creationid = p_element.attributeValue(CREATIONID);
    m_changeid = p_element.attributeValue(CHANGEID);

    attr = p_element.attribute(CREATIONDATE);
    if (attr == null) {
        date = null;
    } else {
        date = UTC.parseNoSeparators(attr.getValue());
        if (date == null) {
            date = UTC.parse(attr.getValue());
        }
    }
    m_creationdate = date;

    attr = p_element.attribute(CHANGEDATE);
    if (attr == null) {
        date = null;
    } else {
        date = UTC.parseNoSeparators(attr.getValue());
        if (date == null) {
            date = UTC.parse(attr.getValue());
        }
    }
    m_changedate = date;

    // elements

    for (Iterator i = p_element.elementIterator("note"); i.hasNext();) {
        Element node = (Element) i.next();

        m_notes.add(new Note(node));
    }

    for (Iterator i = p_element.elementIterator("prop"); i.hasNext();) {
        Element node = (Element) i.next();

        m_props.add(new Prop(node));
    }

    // TODO: UDE
}

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