Examples with FixedDriftModel dr.evomodel.branchratemodel.FixedDriftModel used on opensource projects

Example 1 with FixedDriftModel

use of dr.evomodel.branchratemodel.FixedDriftModel in project beast-mcmc by beast-dev.

the class FixedDriftModelParser method parseXMLObject.

public Object parseXMLObject(XMLObject xo) throws XMLParseException {
    /*
        String idOne = xo.getStringAttribute(RATE_ONE_ID);

        String idTwo = xo.getStringAttribute(RATE_TWO_ID);

        Parameter rateOne = (Parameter) xo.getElementFirstChild(RATE_ONE);

        Parameter rateTwo = (Parameter) xo.getElementFirstChild(RATE_TWO);

        Parameter remainingRates = (Parameter) xo.getElementFirstChild(REMAINING_RATES);
        */
    TaxonList taxonList = (TaxonList) xo.getElementFirstChild(BACKBONE_TAXON_LIST);
    TreeModel treeModel = (TreeModel) xo.getChild(TreeModel.class);
    Parameter backboneDrift = (Parameter) xo.getElementFirstChild(BACKBONE_DRIFT);
    Parameter otherDrift = (Parameter) xo.getElementFirstChild(OTHER_DRIFT);
    Logger.getLogger("dr.evomodel").info("Using fixed drift model.");
    return new FixedDriftModel(treeModel, backboneDrift, otherDrift, taxonList);
//  return new FixedDriftModel(rateOne, rateTwo, remainingRates, idOne, idTwo);
}