X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Fdbsources%2FRfamFull.java;h=e1e9e9a9905f8b334dc5a79a038c536e082d5e54;hb=c926361b2442081210826ee47b6f223a9e19434a;hp=122a39fafede538aa769af4de96cd73be3867763;hpb=797df64fa2a0a30773d0f48f5494d4155e5a8be3;p=jalview.git diff --git a/src/jalview/ws/dbsources/RfamFull.java b/src/jalview/ws/dbsources/RfamFull.java index 122a39f..e1e9e9a 100644 --- a/src/jalview/ws/dbsources/RfamFull.java +++ b/src/jalview/ws/dbsources/RfamFull.java @@ -1,24 +1,25 @@ /* - * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7) - * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle + * 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. - * + * 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 . + * 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; -import jalview.ws.seqfetcher.DbSourceProxy; /** * Flyweight class specifying retrieval of Full family alignments from RFAM @@ -26,7 +27,7 @@ import jalview.ws.seqfetcher.DbSourceProxy; * @author Lauren Michelle Lui * */ -public class RfamFull extends Rfam implements DbSourceProxy +public class RfamFull extends Rfam { public RfamFull() { @@ -38,6 +39,7 @@ public class RfamFull extends Rfam implements DbSourceProxy * * @see jalview.ws.dbsources.Rfam#getXFAMURL() */ + @Override protected String getXFAMURL() { return "http://rfam.sanger.ac.uk/family/alignment/download/format?alnType=full&nseLabels=0&format=stockholm&acc="; @@ -48,16 +50,19 @@ public class RfamFull extends Rfam implements DbSourceProxy * * @see jalview.ws.seqfetcher.DbSourceProxy#getDbName() */ + @Override public String getDbName() { return "RFAM (Full)"; } + @Override public String getDbSource() { return getDbName(); // so we have unique DbSource string. } + @Override public String getTestQuery() { // Can be retrieved from http://rfam.janelia.org/cgi-bin/getdesc?acc=RF00014 @@ -66,9 +71,15 @@ public class RfamFull extends Rfam implements DbSourceProxy return "RF00014"; } + @Override public String getDbVersion() { return null; } + @Override + public int getTier() + { + return 0; + } }