X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Fdbsources%2FRfamSeed.java;h=77fb841ad1b1fb2899b70c86769f4da121f810a3;hb=36dceb54710feb97a81f4bd69ad051f316141dc3;hp=dd2b12ff937575aeaae5953b00e435e241d21fa9;hpb=ad15cff29620f960119f80176f1fd443da9f6763;p=jalview.git diff --git a/src/jalview/ws/dbsources/RfamSeed.java b/src/jalview/ws/dbsources/RfamSeed.java index dd2b12f..77fb841 100644 --- a/src/jalview/ws/dbsources/RfamSeed.java +++ b/src/jalview/ws/dbsources/RfamSeed.java @@ -20,7 +20,6 @@ */ package jalview.ws.dbsources; -import jalview.ws.seqfetcher.DbSourceProxy; /** * Flyweight class specifying retrieval of Seed family alignments from RFAM @@ -28,7 +27,7 @@ import jalview.ws.seqfetcher.DbSourceProxy; * @author Lauren Michelle Lui * */ -public class RfamSeed extends Rfam implements DbSourceProxy +public class RfamSeed extends Rfam { public RfamSeed() { @@ -40,33 +39,43 @@ public class RfamSeed extends Rfam implements DbSourceProxy * * @see jalview.ws.dbsources.Rfam#getRFAMURL() */ + @Override protected String getXFAMURL() { - return "http://rfam.sanger.ac.uk/family/alignment/download/format?alnType=seed&nseLabels=0&format=stockholm&acc="; + 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;