Example usage for org.jdom2 Element getChildren

Introduction

In this page you can find the example usage for org.jdom2 Element getChildren.

Prototype

public List<Element> getChildren(final String cname)

Source Link

Document

This returns a List of all the child elements nested directly (one level deep) within this element with the given local name and belonging to no namespace, returned as Element objects.

Usage

From source file:com.ohnosequences.xml.model.bio4j.Bio4jNodeXML.java

License:Open Source License

public List<Bio4jRelationshipXML> getIncomingRelationships() throws XMLElementException {
    LinkedList<Bio4jRelationshipXML> list = new LinkedList<Bio4jRelationshipXML>();
    Element elem = root.getChild(INCOMING_RELATIONSHIPS_TAG_NAME);
    if (elem != null) {
        for (Object e : elem.getChildren(Bio4jRelationshipXML.TAG_NAME)) {
            list.add(new Bio4jRelationshipXML((Element) e));
        }//from   w ww . j  ava 2  s.  co m
    }
    return list;
}

From source file:com.ohnosequences.xml.model.bio4j.Bio4jNodeXML.java

License:Open Source License

public List<Bio4jRelationshipXML> getOutgoingRelationships() throws XMLElementException {
    LinkedList<Bio4jRelationshipXML> list = new LinkedList<Bio4jRelationshipXML>();
    Element elem = root.getChild(OUTGOING_RELATIONSHIPS_TAG_NAME);
    if (elem != null) {
        for (Object e : elem.getChildren(Bio4jRelationshipXML.TAG_NAME)) {
            list.add(new Bio4jRelationshipXML((Element) e));
        }// w ww .j  av a2s. com
    }
    return list;
}

From source file:com.ohnosequences.xml.model.bio4j.Bio4jNodeXML.java

License:Open Source License

public List<Bio4jNodeIndexXML> getIndexes() throws XMLElementException {
    LinkedList<Bio4jNodeIndexXML> list = new LinkedList<Bio4jNodeIndexXML>();
    Element elem = root.getChild(INDEXES_TAG_NAME);
    if (elem != null) {
        for (Object e : elem.getChildren(Bio4jNodeIndexXML.TAG_NAME)) {
            list.add(new Bio4jNodeIndexXML((Element) e));
        }/*w w  w.  j  a v  a  2 s  .c o  m*/
    }
    return list;
}

From source file:com.ohnosequences.xml.model.bio4j.Bio4jRelationshipXML.java

License:Open Source License

public List<Bio4jNodeXML> getStartNodes() throws XMLElementException {
    LinkedList<Bio4jNodeXML> list = new LinkedList<Bio4jNodeXML>();
    Element elem = root.getChild(START_NODES_TAG_NAME);
    if (elem != null) {
        for (Object e : elem.getChildren(Bio4jNodeXML.TAG_NAME)) {
            list.add(new Bio4jNodeXML((Element) e));
        }//w  ww.  j a  v  a  2s .  c o m
    }
    return list;
}

From source file:com.ohnosequences.xml.model.bio4j.Bio4jRelationshipXML.java

License:Open Source License

public List<Bio4jNodeXML> getEndNodes() throws XMLElementException {
    LinkedList<Bio4jNodeXML> list = new LinkedList<Bio4jNodeXML>();
    Element elem = root.getChild(END_NODES_TAG_NAME);
    if (elem != null) {
        for (Object e : elem.getChildren(Bio4jNodeXML.TAG_NAME)) {
            list.add(new Bio4jNodeXML((Element) e));
        }//from   w  ww  . j a va  2  s . c o  m
    }
    return list;
}

From source file:com.ohnosequences.xml.model.bio4j.Bio4jRelationshipXML.java

License:Open Source License

public List<Bio4jRelationshipIndexXML> getIndexes() throws XMLElementException {
    LinkedList<Bio4jRelationshipIndexXML> list = new LinkedList<Bio4jRelationshipIndexXML>();
    Element elem = root.getChild(INDEXES_TAG_NAME);
    if (elem != null) {
        for (Object e : elem.getChildren(Bio4jRelationshipIndexXML.TAG_NAME)) {
            list.add(new Bio4jRelationshipIndexXML((Element) e));
        }/*w  ww  .j a  va2s.c o m*/
    }
    return list;
}

From source file:com.ohnosequences.xml.model.ContigXML.java

License:Open Source License

public List<Hsp> getHsps() throws XMLElementException {
    Element hsps = root.getChild(HSPS_TAG_NAME);
    if (hsps == null) {
        return null;
    } else {//from  w  w  w  .j  a va2s. c  om
        ArrayList<Hsp> array = new ArrayList<Hsp>();
        for (Object hspElem : hsps.getChildren(Hsp.TAG_NAME)) {
            array.add(new Hsp((Element) hspElem));
        }
        return array;
    }
}

From source file:com.ohnosequences.xml.model.go.GoAnnotationXML.java

License:Open Source License

public List<GoTermXML> getAnnotatorGoTerms() {
    Element tempElem = root.getChild(ANNOTATOR_GO_TERMS_TAG_NAME);
    if (tempElem != null) {
        List<GoTermXML> result = new ArrayList<GoTermXML>();
        List<Element> tempList = tempElem.getChildren(GoTermXML.TAG_NAME);
        for (Element element : tempList) {
            result.add(new GoTermXML(element));
        }//from  ww  w . ja  va 2  s . co  m
        return result;
    } else {
        return null;
    }
}

From source file:com.ohnosequences.xml.model.go.GOSlimXML.java

License:Open Source License

public List<GoTermXML> getGoTermsLostNotIncludedInSlimSet() {

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

    Element elem = this.asJDomElement().getChild(GO_TERMS_LOST_NOT_INCLUDED_IN_SLIM_SET);
    if (elem != null) {
        List<Element> tempList = elem.getChildren(GoTermXML.TAG_NAME);
        for (Element element : tempList) {
            list.add(new GoTermXML(element));
        }//from w w  w .  j a  v a2  s . com
    }

    return list;
}

From source file:com.ohnosequences.xml.model.Hit.java

License:Open Source License

public ArrayList<Hsp> getHitHsps() throws XMLElementException {
    ArrayList<Hsp> array = new ArrayList<Hsp>();
    Element hsps = initHitHspsTag();
    List<Element> tempList = hsps.getChildren(Hsp.TAG_NAME);
    for (Element elem : tempList) {
        array.add(new Hsp(elem));
    }/*  ww w  .  j  av a 2s  . co  m*/
    return array;

}