Examples with EmergingEpidemicModel dr.evomodel.coalescent.EmergingEpidemicModel used on opensource projects

Example 1 with EmergingEpidemicModel

use of dr.evomodel.coalescent.EmergingEpidemicModel in project beast-mcmc by beast-dev.

the class EmergingEpidemicModelParser method parseXMLObject.

public Object parseXMLObject(XMLObject xo) throws XMLParseException {
    Units.Type units = XMLUnits.Utils.getUnitsAttr(xo);
    Parameter growthRateParameter = (Parameter) xo.getElementFirstChild(GROWTH_RATE);
    Parameter generationTimeParameter = (Parameter) xo.getElementFirstChild(GENERATION_TIME);
    Parameter generationShapeParameter = (Parameter) xo.getElementFirstChild(GENERATION_DISTRIBUTION_SHAPE);
    Parameter offspringDispersionParameter = (Parameter) xo.getElementFirstChild(OFFSPRING_DISPERSION);
    TreeModel tree = (TreeModel) xo.getElementFirstChild(TREE);
    return new EmergingEpidemicModel(growthRateParameter, generationTimeParameter, generationShapeParameter, offspringDispersionParameter, tree, units);
}