Examples with RelationshipTypeVocabularyProxy org.vcell.pathway.persistence.BiopaxProxy.RelationshipTypeVocabularyProxy used on opensource projects

Example 1 with RelationshipTypeVocabularyProxy

use of org.vcell.pathway.persistence.BiopaxProxy.RelationshipTypeVocabularyProxy in project vcell by virtualcell.

the class PathwayReaderBiopax3 method addObjectRelationshipTypeVocabulary.

private RelationshipTypeVocabulary addObjectRelationshipTypeVocabulary(Element element) {
    if (element.getChildren().size() == 0) {
        RelationshipTypeVocabularyProxy proxy = new RelationshipTypeVocabularyProxy();
        addAttributes(proxy, element);
        pathwayModel.add(proxy);
        return proxy;
    }
    for (Object child : element.getChildren()) {
        if (child instanceof Element) {
            Element childElement = (Element) child;
            if (childElement.getName().equals("RelationshipTypeVocabulary")) {
                RelationshipTypeVocabulary thingie = addObjectRelationshipTypeVocabulary(childElement);
                pathwayModel.add(thingie);
                return thingie;
            }
        }
    }
    RelationshipTypeVocabulary relationshipTypeVocabulary = new RelationshipTypeVocabulary();
    addAttributes(relationshipTypeVocabulary, element);
    for (Object child : element.getChildren()) {
        if (child instanceof Element) {
            Element childElement = (Element) child;
            if (!addContentControlledVocabulary(relationshipTypeVocabulary, element, childElement)) {
                showUnexpected(childElement);
            }
        }
    }
    pathwayModel.add(relationshipTypeVocabulary);
    return relationshipTypeVocabulary;
}