X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Fdbsources%2FPfamFull.java;h=3c5373d5f5c8ad22197a2e058adecdba8749828b;hb=37de9310bec3501cbc6381e0c3dcb282fcaad812;hp=a0526e233ad9c09ec57366644676f4d96270c675;hpb=a8f483d04205bb8273ee311c12968b7e86d205fa;p=jalview.git diff --git a/src/jalview/ws/dbsources/PfamFull.java b/src/jalview/ws/dbsources/PfamFull.java index a0526e2..3c5373d 100644 --- a/src/jalview/ws/dbsources/PfamFull.java +++ b/src/jalview/ws/dbsources/PfamFull.java @@ -1,30 +1,30 @@ /* - * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2) - * Copyright (C) 2014 The Jalview Authors + * 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 PFAM * */ -public class PfamFull extends Pfam implements DbSourceProxy +public class PfamFull extends Pfam { public PfamFull() { @@ -36,9 +36,10 @@ public class PfamFull extends Pfam implements DbSourceProxy * * @see jalview.ws.dbsources.Pfam#getPFAMURL() */ + @Override protected String getXFAMURL() { - return "http://pfam.sanger.ac.uk/family/alignment/download/format?alnType=full&format=stockholm&order=t&case=l&gaps=default&entry="; + return "http://pfam.xfam.org/family/alignment/download/format?alnType=full&format=stockholm&order=t&case=l&gaps=default&entry="; } /* @@ -46,27 +47,31 @@ public class PfamFull extends Pfam implements DbSourceProxy * * @see jalview.ws.seqfetcher.DbSourceProxy#getDbName() */ + @Override public String getDbName() { return "PFAM (Full)"; } + @Override public String getDbSource() { return getDbName(); // so we have unique DbSource string. } + @Override public String getTestQuery() { return "PF03760"; } + @Override public String getDbVersion() { return null; } - @Override + @Override public int getTier() { return 0;