Examples with InteractionImpl org.vcell.pathway.InteractionImpl used on opensource projects

Example 1 with InteractionImpl

use of org.vcell.pathway.InteractionImpl in project vcell by virtualcell.

the class PathwayReaderBiopax3 method addObjectInteraction.

private Interaction addObjectInteraction(Element element) {
    if (element.getChildren().size() == 0) {
        // if there are no children it must be a resource inside another object
        InteractionProxy proxy = new InteractionProxy();
        addAttributes(proxy, element);
        pathwayModel.add(proxy);
        return proxy;
    }
    Interaction interaction = new InteractionImpl();
    addAttributes(interaction, element);
    for (Object child : element.getChildren()) {
        if (!addContentInteraction(interaction, element, (Element) child)) {
            showUnexpected((Element) child);
        }
    }
    pathwayModel.add(interaction);
    return interaction;
}

Example 2 with InteractionImpl

use of org.vcell.pathway.InteractionImpl in project vcell by virtualcell.

the class PathwayReader method addObjectInteraction.

private Interaction addObjectInteraction(Element element) {
    Interaction interaction = new InteractionImpl();
    addAttributes(interaction, element);
    for (Object child : element.getChildren()) {
        if (!addContentInteraction(interaction, element, (Element) child)) {
            showUnexpected((Element) child, interaction);
        }
    }
    pathwayModel.add(interaction);
    return interaction;
}