/**
* Copyright (C) 2012-2013 Selventa, Inc.
*
* This file is part of the OpenBEL Framework.
*
* This program 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 3 of the License, or
* (at your option) any later version.
*
* The OpenBEL Framework 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 the OpenBEL Framework. If not, see <http://www.gnu.org/licenses/>.
*
* Additional Terms under LGPL v3:
*
* This license does not authorize you and you are prohibited from using the
* name, trademarks, service marks, logos or similar indicia of Selventa, Inc.,
* or, in the discretion of other licensors or authors of the program, the
* name, trademarks, service marks, logos or similar indicia of such authors or
* licensors, in any marketing or advertising materials relating to your
* distribution of the program or any covered product. This restriction does
* not waive or limit your obligation to keep intact all copyright notices set
* forth in the program as delivered to you.
*
* If you distribute the program in whole or in part, or any modified version
* of the program, and you assume contractual liability to the recipient with
* respect to the program or modified version, then you will indemnify the
* authors and licensors of the program for any liabilities that these
* contractual assumptions directly impose on those licensors and authors.
*/
package org.openbel.framework.core.equivalence;
import java.util.HashMap;
import java.util.List;
import java.util.Map;
import java.util.Set;
import org.openbel.framework.common.protonetwork.model.ProtoEdgeTable;
import org.openbel.framework.common.protonetwork.model.ProtoEdgeTable.TableProtoEdge;
import org.openbel.framework.common.protonetwork.model.ProtoNetwork;
import org.openbel.framework.common.protonetwork.model.ProtoNodeTable;
/**
* StatementEquivalencer equivalences {@link ProtoNetwork} statements by
* comparing statement signatures based on global term ids.
*
* This algorithm has O(n log(n)) complexity.
*
* @author Anthony Bargnesi {@code <abargnesi@selventa.com>}
*/
public class StatementEquivalencer extends Equivalencer {
/**
* Constructs the statement equivalencer with a {@link ProtoNetwork} to
* equivalence.
*
* @param pn {@link ProtoNetwork} the proto network to equivalence
*/
public StatementEquivalencer(ProtoNetwork pn) {
super(pn);
}
/**
* {@inheritDoc}
*/
@Override
public int equivalence() {
ProtoNodeTable pnt = network.getProtoNodeTable();
ProtoEdgeTable pet = network.getProtoEdgeTable();
List<TableProtoEdge> edges = pet.getProtoEdges();
Map<Integer, Set<Integer>> edgeStmts = pet.getEdgeStatements();
Map<Integer, Integer> eqn = pnt.getEquivalences();
Map<Integer, Integer> eqe = pet.getEquivalences();
return equivalenceInternal(edges, edgeStmts, eqn, eqe);
}
protected static int equivalenceInternal(List<TableProtoEdge> edges,
Map<Integer, Set<Integer>> edgeStmts, Map<Integer, Integer> eqn,
Map<Integer, Integer> eqe) {
eqe.clear();
int eqct = 0;
final Map<TableProtoEdge, Integer> edgeCache =
new HashMap<ProtoEdgeTable.TableProtoEdge, Integer>();
final Map<Integer, Integer> revEq = new HashMap<Integer, Integer>();
int eq = 0;
for (int i = 0, n = edges.size(); i < n; i++) {
final TableProtoEdge edge = edges.get(i);
// translate into a proto node equivalent edge
final Integer eqs = eqn.get(edge.getSource());
final Integer eqt = eqn.get(edge.getTarget());
final TableProtoEdge eqEdge =
new TableProtoEdge(eqs, edge.getRel(), eqt);
// we have seen this proto edge so equivalence
Integer cachedEdge = edgeCache.get(eqEdge);
if (cachedEdge != null) {
// reassign equivalence index to previously seen equivalent edge
eqe.put(i, cachedEdge);
// add the current edge's statements to the equivalenced one
final Set<Integer> curEdgeStmts = edgeStmts.get(i);
final Set<Integer> eqEdgeStmts =
edgeStmts.get(revEq.get(cachedEdge));
eqEdgeStmts.addAll(curEdgeStmts);
eqct++;
continue;
}
edgeCache.put(eqEdge, eq);
eqe.put(i, eq);
revEq.put(eq, i);
eq++;
}
return eqct;
}
}