/*
* MulSpeciesTreePriorParser.java
*
* Copyright (c) 2002-2017 Alexei Drummond, Andrew Rambaut and Marc Suchard
*
* This file is part of BEAST.
* See the NOTICE file distributed with this work for additional
* information regarding copyright ownership and licensing.
*
* BEAST is free software; you can redistribute it and/or modify
* it under the terms of the GNU Lesser General Public License as
* published by the Free Software Foundation; either version 2
* of the License, or (at your option) any later version.
*
* BEAST is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU Lesser General Public License for more details.
*
* You should have received a copy of the GNU Lesser General Public
* License along with BEAST; if not, write to the
* Free Software Foundation, Inc., 51 Franklin St, Fifth Floor,
* Boston, MA 02110-1301 USA
*/
package dr.evomodel.alloppnet.parsers;
import dr.evomodel.alloppnet.speciation.MulSpeciesTreeModel;
import dr.evomodel.alloppnet.speciation.MulSpeciesTreePrior;
import dr.evomodel.speciation.SpeciationModel;
import dr.xml.AbstractXMLObjectParser;
import dr.xml.ElementRule;
import dr.xml.XMLObject;
import dr.xml.XMLParseException;
import dr.xml.XMLSyntaxRule;
public class MulSpeciesTreePriorParser extends AbstractXMLObjectParser {
public static final String MUL_SPECIES_TREE_PRIOR = "mulSpeciesTreePrior";
public static final String MODEL = "model";
public static final String MUL_SPECIES_TREE = "mulTree";
public String getParserName() {
return MUL_SPECIES_TREE_PRIOR;
}
@Override
public Object parseXMLObject(XMLObject xo) throws XMLParseException {
final XMLObject mxo = xo.getChild(MODEL);
final SpeciationModel sppm = (SpeciationModel) mxo.getChild(SpeciationModel.class);
final XMLObject mulsptxo = xo.getChild(MUL_SPECIES_TREE);
final MulSpeciesTreeModel mulspt = (MulSpeciesTreeModel) mulsptxo.getChild(MulSpeciesTreeModel.class);
return new MulSpeciesTreePrior(sppm, mulspt);
}
private XMLSyntaxRule[] modelRules() {
return new XMLSyntaxRule[]{
new ElementRule(SpeciationModel.class)
};
}
private XMLSyntaxRule[] mulsptRules() {
return new XMLSyntaxRule[]{
new ElementRule(MulSpeciesTreeModel.class)
};
}
@Override
public XMLSyntaxRule[] getSyntaxRules() {
return new XMLSyntaxRule[]{
new ElementRule(MODEL, modelRules()),
new ElementRule(MUL_SPECIES_TREE, mulsptRules()),
};
}
@Override
public String getParserDescription() {
return "Prior for a multiply-labelled species tree for allopolyploids.";
}
@Override
public Class getReturnType() {
return MulSpeciesTreePrior.class;
}
}