Examples with RateVarianceScaleOperator dr.evomodel.operators.RateVarianceScaleOperator used on opensource projects

Example 1 with RateVarianceScaleOperator

use of dr.evomodel.operators.RateVarianceScaleOperator in project beast-mcmc by beast-dev.

the class RateVarianceScaleOperatorParser method parseXMLObject.

public Object parseXMLObject(XMLObject xo) throws XMLParseException {
    CoercionMode mode = CoercionMode.parseMode(xo);
    final double weight = xo.getDoubleAttribute(MCMCOperator.WEIGHT);
    final double scaleFactor = xo.getDoubleAttribute(SCALE_FACTOR);
    if (scaleFactor <= 0.0 || scaleFactor >= 1.0) {
        throw new XMLParseException("scaleFactor must be between 0.0 and 1.0");
    }
    final TreeModel treeModel = (TreeModel) xo.getChild(TreeModel.class);
    final Parameter variance = (Parameter) xo.getChild(Parameter.class);
    if (variance.getDimension() != 1) {
        throw new XMLParseException("dimension of the variance parameter should be 1");
    }
    RateVarianceScaleOperator operator = new RateVarianceScaleOperator(treeModel, variance, scaleFactor, mode);
    operator.setWeight(weight);
    return operator;
}