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package de.lmu.ifi.dbs.elki.distance.distancefunction.external;
/*
This file is part of ELKI:
Environment for Developing KDD-Applications Supported by Index-Structures
Copyright (C) 2012
Ludwig-Maximilians-Universität München
Lehr- und Forschungseinheit für Datenbanksysteme
ELKI Development Team
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU Affero General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program 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 Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*/
import java.io.File;
import java.io.IOException;
import de.lmu.ifi.dbs.elki.database.ids.DBIDRef;
import de.lmu.ifi.dbs.elki.distance.distancefunction.AbstractDBIDDistanceFunction;
import de.lmu.ifi.dbs.elki.distance.distancevalue.DoubleDistance;
import de.lmu.ifi.dbs.elki.persistent.OnDiskUpperTriangleMatrix;
import de.lmu.ifi.dbs.elki.utilities.documentation.Description;
import de.lmu.ifi.dbs.elki.utilities.documentation.Title;
import de.lmu.ifi.dbs.elki.utilities.exceptions.AbortException;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.AbstractParameterizer;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.OptionID;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.WrongParameterValueException;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameterization.Parameterization;
import de.lmu.ifi.dbs.elki.utilities.optionhandling.parameters.FileParameter;
/**
* Provides a DistanceFunction that is based on double distances given by a
* distance matrix of an external file.
*
* @author Erich Schubert
*/
@Title("File based double distance for database objects.")
@Description("Loads double distance values from an external matrix.")
public class DiskCacheBasedDoubleDistanceFunction extends AbstractDBIDDistanceFunction<DoubleDistance> {
// TODO: constructor with file.
/**
* Parameter that specifies the name of the distance matrix file.
* <p>
* Key: {@code -distance.matrix}
* </p>
*/
public static final OptionID MATRIX_ID = OptionID.getOrCreateOptionID("distance.matrix", "The name of the file containing the distance matrix.");
/**
* Magic to identify double cache matrices
*/
public static final int DOUBLE_CACHE_MAGIC = 50902811;
/**
* Storage required for a double value.
*/
private static final int DOUBLE_SIZE = 8;
/**
* The distance matrix
*/
private OnDiskUpperTriangleMatrix cache;
/**
* Constructor.
*
* @param cache Distance matrix
*/
public DiskCacheBasedDoubleDistanceFunction(OnDiskUpperTriangleMatrix cache) {
super();
this.cache = cache;
}
/**
* Returns the distance between the two objects specified by their objects
* ids. If a cache is used, the distance value is looked up in the cache. If
* the distance does not yet exists in cache, it will be computed an put to
* cache. If no cache is used, the distance is computed.
*
* @param id1 first object id
* @param id2 second object id
* @return the distance between the two objects specified by their objects ids
*/
@Override
public DoubleDistance distance(DBIDRef id1, DBIDRef id2) {
if(id1 == null) {
return getDistanceFactory().undefinedDistance();
}
if(id2 == null) {
return getDistanceFactory().undefinedDistance();
}
if(id1.getIntegerID() < 0 || id2.getIntegerID() < 0) {
throw new AbortException("Negative DBIDs not supported in OnDiskCache");
}
// the smaller id is the first key
if(id1.getIntegerID() > id2.getIntegerID()) {
return distance(id2, id1);
}
double distance;
try {
distance = cache.getRecordBuffer(id1.getIntegerID(), id2.getIntegerID()).getDouble();
}
catch(IOException e) {
throw new RuntimeException("Read error when loading distance " + id1 + "," + id2 + " from cache file.", e);
}
return new DoubleDistance(distance);
}
@Override
public DoubleDistance getDistanceFactory() {
return DoubleDistance.FACTORY;
}
@Override
public boolean equals(Object obj) {
if(obj == null) {
return false;
}
if(getClass() != obj.getClass()) {
return false;
}
DiskCacheBasedDoubleDistanceFunction other = (DiskCacheBasedDoubleDistanceFunction) obj;
return this.cache.equals(other.cache);
}
/**
* Parameterization class.
*
* @author Erich Schubert
*
* @apiviz.exclude
*/
public static class Parameterizer extends AbstractParameterizer {
protected OnDiskUpperTriangleMatrix cache = null;
@Override
protected void makeOptions(Parameterization config) {
super.makeOptions(config);
final FileParameter param = new FileParameter(MATRIX_ID, FileParameter.FileType.INPUT_FILE);
if(config.grab(param)) {
File matrixfile = param.getValue();
try {
cache = new OnDiskUpperTriangleMatrix(matrixfile, DOUBLE_CACHE_MAGIC, 0, DOUBLE_SIZE, false);
}
catch(IOException e) {
config.reportError(new WrongParameterValueException(param, matrixfile.toString(), e));
}
}
}
@Override
protected DiskCacheBasedDoubleDistanceFunction makeInstance() {
return new DiskCacheBasedDoubleDistanceFunction(cache);
}
}
}
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