/* * BioJava development code * * This code may be freely distributed and modified under the * terms of the GNU Lesser General Public Licence. This should * be distributed with the code. If you do not have a copy, * see: * * http://www.gnu.org/copyleft/lesser.html * * Copyright for this code is held jointly by the individual * authors. These should be listed in @author doc comments. * * For more information on the BioJava project and its aims, * or to join the biojava-l mailing list, visit the home page * at: * * http://www.biojava.org/ * */ package org.biojava.bio.seq.db.biosql; import java.util.Map; import org.biojava.bio.BioException; import org.biojava.bio.seq.db.SequenceDBLite; import org.biojava.directory.RegistryException; import org.biojava.directory.SequenceDBProvider; /** * @author Thomas Down * @deprecated Use hibernate and org.biojavax.bio.db.* */ public class BioSQLSequenceDBProvider implements SequenceDBProvider { public String getName() { return "biosql"; } public SequenceDBLite getSequenceDB(Map config) throws RegistryException, BioException { String location = (String) config.get("location"); if (location == null) { throw new RegistryException("BioSQL provider requires" + " a 'location' parameter"); } String dbName = (String) config.get("dbname"); if (dbName == null) { throw new RegistryException("BioSQL provider requires" + " a 'dbname' parameter"); } String biodatabase = (String) config.get("biodbname"); if (biodatabase == null) { throw new RegistryException("BioSQL provider requires" + " a 'biodbname' parameter"); } String userName = (String) config.get("user"); if (userName == null) { throw new RegistryException("BioSQL provider requires" + " a 'user' parameter"); } String password = (String) config.get("passwd"); if (password == null) { throw new RegistryException("BioSQL provider requires" + " a 'passwd' parameter"); } String driver = (String) config.get("driver"); if (driver== null) { throw new RegistryException("BioSQL provider requires" + " a 'driver' parameter"); } return new BioSQLSequenceDB(driver, location, userName, password, biodatabase, false); } }