/* * The MIT License (MIT) * * Copyright (c) 2007-2015 Broad Institute * * Permission is hereby granted, free of charge, to any person obtaining a copy * of this software and associated documentation files (the "Software"), to deal * in the Software without restriction, including without limitation the rights * to use, copy, modify, merge, publish, distribute, sublicense, and/or sell * copies of the Software, and to permit persons to whom the Software is * furnished to do so, subject to the following conditions: * * The above copyright notice and this permission notice shall be included in * all copies or substantial portions of the Software. * * * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN * THE SOFTWARE. */ package org.broad.igv.dev.db; import org.apache.log4j.Logger; import java.sql.PreparedStatement; import java.sql.ResultSet; import java.sql.SQLException; import java.util.ArrayList; import java.util.Iterator; import java.util.List; /** * Class for reading only portions of a table (queries) repeatedly. * The connection is NOT closed between queries. * * @author Jacob Silterra * @date 2012/05/30 */ public abstract class DBQueryReader<T> extends DBReader { private static Logger log = Logger.getLogger(DBQueryReader.class); protected DBProfile.DBTable table; public DBQueryReader(DBProfile.DBTable table) { super(table); this.table = table; } protected Iterator loadIterator(PreparedStatement st) { try { ResultSet rs = st.executeQuery(); return loadIterator(rs); } catch (SQLException e) { log.error("Database error", e); throw new RuntimeException("Database error", e); } } /** * Load all results from the provided {@code ResultSet} * so we can close it quickly * @param rs * @return */ protected Iterator loadIterator(ResultSet rs) { List<T> results = new ArrayList<T>(); try { while (rs.next()) { results.add(processResult(rs)); } } catch (SQLException e) { log.error("Database error", e); throw new RuntimeException("Database error", e); } finally { DBManager.closeAll(rs); } return results.iterator(); } /** * Read a single line from the {@code ResultSet} and return the object * based on it. * @param rs * @return * @throws SQLException */ protected abstract T processResult(ResultSet rs) throws SQLException; }