X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Fdbsources%2FRfamFull.java;h=b2ca31a03a7166c69944fdc2cef18a429795ce0e;hb=7e441a4a9594821ec56539b29cb3b8a13bfa3c65;hp=a214d511a63ba3929c568ae5977b5cc3967976cc;hpb=c19d2a91ca05e052e3408bf5852d88eb5d0608f1;p=jalview.git diff --git a/src/jalview/ws/dbsources/RfamFull.java b/src/jalview/ws/dbsources/RfamFull.java index a214d51..b2ca31a 100644 --- a/src/jalview/ws/dbsources/RfamFull.java +++ b/src/jalview/ws/dbsources/RfamFull.java @@ -1,6 +1,6 @@ /* - * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b2) - * Copyright (C) 2015 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. * @@ -20,15 +20,13 @@ */ package jalview.ws.dbsources; -import jalview.ws.seqfetcher.DbSourceProxy; - /** * Flyweight class specifying retrieval of Full family alignments from RFAM * * @author Lauren Michelle Lui * */ -public class RfamFull extends Rfam implements DbSourceProxy +public class RfamFull extends Rfam { public RfamFull() { @@ -40,9 +38,17 @@ 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="; + return "http://rfam.xfam.org/family/"; + + } + + @Override + public String getXFAMURLSUFFIX() + { + return "/alignment/full"; } /* @@ -50,16 +56,19 @@ 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 @@ -68,6 +77,7 @@ public class RfamFull extends Rfam implements DbSourceProxy return "RF00014"; } + @Override public String getDbVersion() { return null;