/* * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) * Copyright (C) $$Year-Rel$$ The Jalview Authors * * This file is part of Jalview. * * Jalview is free software: you can redistribute it and/or * modify it under the terms of the GNU General Public License * as published by the Free Software Foundation, either version 3 * of the License, or (at your option) any later version. * * Jalview 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 General Public License for more details. * * You should have received a copy of the GNU General Public License * along with Jalview. If not, see . * The Jalview Authors are detailed in the 'AUTHORS' file. */ package jalview.ws.dbsources; /** * Flyweight class specifying retrieval of Seed family alignments from RFAM * * @author Lauren Michelle Lui * */ public class RfamSeed extends Rfam { public RfamSeed() { super(); } /* * (non-Javadoc) * * @see jalview.ws.dbsources.Rfam#getRFAMURL() */ @Override protected String getXFAMURL() { return "http://rfam.xfam.org/family/"; // Janelia Farms url // "http://rfam.janelia.org/cgi-bin/getalignment?type=seed&fmt=stockholm&acc="; } @Override public String getXFAMURLSUFFIX() { return "/alignment"; } /* * (non-Javadoc) * * @see jalview.ws.seqfetcher.DbSourceProxy#getDbName() */ @Override public String getDbName() { return "RFAM (Seed)"; } @Override public String getDbSource() { return getDbName(); // so we have unique DbSource string. } @Override public String getTestQuery() { return "RF00014"; } // http://rfam.janelia.org/cgi-bin/getdesc?acc=RF00014 @Override public String getDbVersion() { return null; } @Override public int getTier() { return 0; } }