KNIPCostCalculator.java

package org.knime.knip.tracking.nodes.laptracker;

import java.util.Map;

import org.knime.knip.tracking.data.TrackedNode;

import fiji.plugin.trackmate.tracking.oldlap.costfunction.CostCalculator;
import fiji.plugin.trackmate.util.FeatureHolderUtils;
import fiji.plugin.trackmate.util.TrackableObjectUtils;

@Deprecated
public class KNIPCostCalculator<L extends Comparable<L>>
        implements CostCalculator<TrackedNode<L>> {

    @Override
    public double computeLinkingCostFor(final TrackedNode<L> t0,
            final TrackedNode<L> t1, final double distanceCutOff,
            final double blockingValue,
            final Map<String, Double> featurePenalties) {

        final double d2 = TrackableObjectUtils.squareDistanceTo(t0, t1);

        // Distance threshold
        if (d2 > distanceCutOff * distanceCutOff) {
            return blockingValue;
        }

        double penalty = 1;
        for (final String feature : featurePenalties.keySet()) {
            final double ndiff =
                    FeatureHolderUtils.normalizeDiffTo(t0, t1, feature);
            if (Double.isNaN(ndiff))
                continue;
            final double factor = featurePenalties.get(feature);
            penalty += factor * 1.5 * ndiff;
        }

        // Set score
        return d2 * penalty * penalty;

    }

}