001 /** 002 * Copyright (C) 2010 The Roslin Institute <contact andy.law@roslin.ed.ac.uk> 003 * 004 * This file is part of the Ensembl Java API demonstration project developed by the 005 * Bioinformatics Group at The Roslin Institute, The Royal (Dick) School of 006 * Veterinary Studies, University of Edinburgh. 007 * 008 * This is free software: you can redistribute it and/or modify 009 * it under the terms of the GNU General Public License (version 3) as published by 010 * the Free Software Foundation. 011 * 012 * This software is distributed in the hope that it will be useful, 013 * but WITHOUT ANY WARRANTY; without even the implied warranty of 014 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the 015 * GNU General Public License for more details. 016 * 017 * You should have received a copy of the GNU General Public License 018 * in this software distribution. If not, see <http://www.gnu.org/licenses/gpl-3.0.html/>. 019 */ 020 021 package uk.ac.roslin.ensembl.dao.database.coreaccess; 022 023 import java.util.HashMap; 024 import org.apache.ibatis.session.SqlSession; 025 import uk.ac.roslin.ensembl.dao.coreaccess.TranslationDAO; 026 import uk.ac.roslin.ensembl.datasourceaware.core.DATranslation; 027 import uk.ac.roslin.ensembl.dao.database.factory.DBDAOCollectionCoreFactory; 028 import uk.ac.roslin.ensembl.dao.database.factory.DBDAOSingleSpeciesCoreFactory; 029 import uk.ac.roslin.ensembl.dao.factory.DAOCollectionCoreFactory; 030 import uk.ac.roslin.ensembl.dao.factory.DAOSingleSpeciesCoreFactory; 031 import uk.ac.roslin.ensembl.mapper.core.TranslationMapper; 032 import uk.ac.roslin.ensembl.exception.DAOException; 033 import uk.ac.roslin.ensembl.model.core.Translation; 034 035 /** 036 * 037 * @author tpaterso 038 */ 039 public class DBTranslationDAO extends DBCoreObjectDAO implements TranslationDAO { 040 041 public DBTranslationDAO() { 042 super(); 043 } 044 045 public DBTranslationDAO(DAOSingleSpeciesCoreFactory factory) { 046 047 super(factory); 048 } 049 050 public DBTranslationDAO(DAOCollectionCoreFactory factory) { 051 super(factory); 052 053 } 054 055 @Override 056 public DATranslation getTranslationByTranscriptID(Integer id) throws DAOException { 057 058 if (id == null) { 059 return null; 060 } 061 062 DATranslation out = null; 063 064 065 HashMap parameters = new HashMap(); 066 parameters.put("transcriptID", id); 067 068 SqlSession session = null; 069 070 try { 071 session = this.getFactory().getNewSqlSession(); 072 TranslationMapper mapper = session.getMapper(TranslationMapper.class); 073 out = mapper.getTranslationByTranscriptID(parameters); 074 } catch (Exception e) { 075 throw new DAOException("Failed to call getTranslationByTranscriptID", e); 076 } finally { 077 if (session != null) { 078 session.close(); 079 } 080 } 081 082 if (out != null) { 083 out.setDaoFactory(daoFactory); 084 out.setSpecies(species); 085 } 086 087 return out; 088 } 089 090 }