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

Example 1 with PiecewisePopulationModel

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

the class PiecewisePopulationModelParser method parseXMLObject.

public Object parseXMLObject(XMLObject xo) throws XMLParseException {
    Units.Type units = XMLUnits.Utils.getUnitsAttr(xo);
    XMLObject obj = xo.getChild(EPOCH_WIDTHS);
    double[] epochWidths = obj.getDoubleArrayAttribute(WIDTHS);
    if (xo.hasChildNamed(EPOCH_SIZES)) {
        Parameter epochSizes = (Parameter) xo.getElementFirstChild(EPOCH_SIZES);
        boolean isLinear = false;
        if (xo.hasAttribute(LINEAR)) {
            isLinear = xo.getBooleanAttribute(LINEAR);
        }
        return new PiecewisePopulationModel(PIECEWISE_POPULATION, epochSizes, epochWidths, isLinear, units);
    } else {
        Parameter populationSize = (Parameter) xo.getElementFirstChild(POPULATION_SIZE);
        Parameter growthRates = (Parameter) xo.getElementFirstChild(GROWTH_RATES);
        return new PiecewisePopulationModel(PIECEWISE_POPULATION, populationSize, growthRates, epochWidths, units);
    }
}