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Example 1 with CellBean

use of eu.esdihumboldt.hale.common.align.io.impl.internal.CellBean in project hale by halestudio.

the class OmlReader method loadAlignment.

@Override
protected MutableAlignment loadAlignment(ProgressIndicator progress, IOReporter reporter) throws IOProviderConfigurationException, IOException {
    try {
        progress.begin("Load ontology mapping file", ProgressIndicator.UNKNOWN);
        OmlRdfReader reader = new OmlRdfReader();
        Alignment alignment = reader.read(getSource().getLocation().toURL());
        AlignmentBean align = new AlignmentBean();
        List<CellBean> cells = new ArrayList<CellBean>();
        List<ICell> map = alignment.getMap();
        for (ICell cell : map) {
            // create a new CellBean for each ICell
            CellBean cellBean = new CellBean();
            IEntity entity = cell.getEntity1();
            IEntity entity2 = cell.getEntity2();
            // temporary list to be copied into the CellBean
            List<NamedEntityBean> temp_source = new ArrayList<NamedEntityBean>();
            List<NamedEntityBean> temp_target = new ArrayList<NamedEntityBean>();
            setBeanLists(entity, temp_source, getSourceSchema());
            setBeanLists(entity2, temp_target, getTargetSchema());
            // set source/target lists of the CellBean
            cellBean.setSource(temp_source);
            cellBean.setTarget(temp_target);
            // check if one of the entities has a transformation
            if (entity.getTransformation() != null || entity2.getTransformation() != null) {
                // entity 1 if it has the transformation
                if (entity.getTransformation() != null) {
                    setParameters(cellBean, entity, reporter, cell);
                    setTransformationId(cellBean, entity);
                } else {
                    // else set parameters and transformation id from entity
                    // 2
                    setParameters(cellBean, entity2, reporter, cell);
                    setTransformationId(cellBean, entity2);
                }
            }
            // add the CellBean to a list of CellBeans
            cells.add(cellBean);
        }
        // set the cells for the alignment after the all iterations
        align.setCells(cells);
        MutableAlignment mutableAlignment = align.createAlignment(reporter, getSourceSchema(), getTargetSchema(), new PathUpdate(null, null));
        reporter.setSuccess(true);
        return mutableAlignment;
    } finally {
        progress.end();
    }
}
Also used : IEntity(eu.esdihumboldt.hale.io.oml.internal.model.align.IEntity) ArrayList(java.util.ArrayList) MutableAlignment(eu.esdihumboldt.hale.common.align.model.MutableAlignment) ICell(eu.esdihumboldt.hale.io.oml.internal.model.align.ICell) MutableAlignment(eu.esdihumboldt.hale.common.align.model.MutableAlignment) Alignment(eu.esdihumboldt.hale.io.oml.internal.goml.align.Alignment) CellBean(eu.esdihumboldt.hale.common.align.io.impl.internal.CellBean) NamedEntityBean(eu.esdihumboldt.hale.common.align.io.impl.internal.NamedEntityBean) AlignmentBean(eu.esdihumboldt.hale.common.align.io.impl.internal.AlignmentBean) PathUpdate(eu.esdihumboldt.hale.common.core.io.PathUpdate) OmlRdfReader(eu.esdihumboldt.hale.io.oml.internal.goml.oml.io.OmlRdfReader)

Aggregations

AlignmentBean (eu.esdihumboldt.hale.common.align.io.impl.internal.AlignmentBean)1 CellBean (eu.esdihumboldt.hale.common.align.io.impl.internal.CellBean)1 NamedEntityBean (eu.esdihumboldt.hale.common.align.io.impl.internal.NamedEntityBean)1 MutableAlignment (eu.esdihumboldt.hale.common.align.model.MutableAlignment)1 PathUpdate (eu.esdihumboldt.hale.common.core.io.PathUpdate)1 Alignment (eu.esdihumboldt.hale.io.oml.internal.goml.align.Alignment)1 OmlRdfReader (eu.esdihumboldt.hale.io.oml.internal.goml.oml.io.OmlRdfReader)1 ICell (eu.esdihumboldt.hale.io.oml.internal.model.align.ICell)1 IEntity (eu.esdihumboldt.hale.io.oml.internal.model.align.IEntity)1 ArrayList (java.util.ArrayList)1