X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Fdbsources%2FPfamFull.java;h=3c5373d5f5c8ad22197a2e058adecdba8749828b;hb=37de9310bec3501cbc6381e0c3dcb282fcaad812;hp=3d3ab53d0f53e4f1bf5cbcd4b6c019aae23f0a4c;hpb=2de36153a84ca246643cd28b2ce05e9f4159dd89;p=jalview.git

diff --git a/src/jalview/ws/dbsources/PfamFull.java b/src/jalview/ws/dbsources/PfamFull.java
index 3d3ab53..3c5373d 100644
--- a/src/jalview/ws/dbsources/PfamFull.java
+++ b/src/jalview/ws/dbsources/PfamFull.java
@@ -1,43 +1,79 @@
-/**
- * 
- */
-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 PfamFull()
-  {
-    super();
-  }
-
-  /* (non-Javadoc)
-   * @see jalview.ws.dbsources.Pfam#getPFAMURL()
-   */
-  protected String getPFAMURL()
-  {
-    return "http://pfam.sanger.ac.uk/family/alignment/download/format?alnType=full&format=stockholm&order=t&case=l&gaps=default&entry=";
-  }
-
-  /* (non-Javadoc)
-   * @see jalview.ws.seqfetcher.DbSourceProxy#getDbName()
-   */
-  public String getDbName()
-  {
-    return "PFAM (Full)";
-  }
-  public String getDbSource()
-  {
-    return getDbName(); // so we have unique DbSource string.
-  }
-  public String getTestQuery()
-  {
-    return "PF00535"; // TODO: Pick a better full alignment to retrieve.
-  }
-
-}
+/*
+ * 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 <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
+package jalview.ws.dbsources;
+
+/**
+ * flyweight class specifying retrieval of Full family alignments from PFAM
+ * 
+ */
+public class PfamFull extends Pfam
+{
+  public PfamFull()
+  {
+    super();
+  }
+
+  /*
+   * (non-Javadoc)
+   * 
+   * @see jalview.ws.dbsources.Pfam#getPFAMURL()
+   */
+  @Override
+  protected String getXFAMURL()
+  {
+    return "http://pfam.xfam.org/family/alignment/download/format?alnType=full&format=stockholm&order=t&case=l&gaps=default&entry=";
+  }
+
+  /*
+   * (non-Javadoc)
+   * 
+   * @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
+  public int getTier()
+  {
+    return 0;
+  }
+}