formatting

[jalview.git] / src / jalview / ws / dbsources / Pfam.java

diff --git a/src/jalview/ws/dbsources/Pfam.java b/src/jalview/ws/dbsources/Pfam.java
index 1ae72fb..576509c 100644 (file)
--- a/src/jalview/ws/dbsources/Pfam.java
+++ b/src/jalview/ws/dbsources/Pfam.java
@@ -1,6 +1,6 @@
 /*\r
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)\r
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle\r
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)\r
+ * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle\r
  * \r
  * This file is part of Jalview.\r
  * \r
@@ -37,8 +37,7 @@ import jalview.ws.seqfetcher.DbSourceProxyImpl;
  * @author JimP\r
  * \r
  */\r
-abstract public class Pfam extends Xfam implements\r
-        DbSourceProxy\r
+abstract public class Pfam extends Xfam implements DbSourceProxy\r
 {\r
 \r
   public Pfam()\r
@@ -96,18 +95,19 @@ abstract public class Pfam extends Xfam implements
    * @see jalview.ws.DbSourceProxy#getDbVersion()\r
    */\r
   @Override\r
-public String getDbVersion()\r
+  public String getDbVersion()\r
   {\r
     // TODO Auto-generated method stub\r
     return null;\r
   }\r
 \r
-  /**Returns base URL for selected Pfam alignment type\r
+  /**\r
+   * Returns base URL for selected Pfam alignment type\r
    * \r
    * @return PFAM URL stub for this DbSource\r
    */\r
   @Override\r
-protected abstract String getXFAMURL();\r
+  protected abstract String getXFAMURL();\r
 \r
   /*\r
    * (non-Javadoc)\r
@@ -120,7 +120,7 @@ protected abstract String getXFAMURL();
     // individual references to each sequence in each family alignment that's\r
     // retrieved.\r
     startQuery();\r
-    AlignmentI rcds = new jalview.io.FormatAdapter().readFile(getPFAMURL()\r
+    AlignmentI rcds = new jalview.io.FormatAdapter().readFile(getXFAMURL()\r
             + queries.trim().toUpperCase(), jalview.io.FormatAdapter.URL,\r
             "STH");\r
     for (int s = 0, sNum = rcds.getHeight(); s < sNum; s++)\r
@@ -153,9 +153,10 @@ protected abstract String getXFAMURL();
   /*\r
    * public String getDbName() { return "PFAM"; // getDbSource(); }\r
    */\r
-  \r
-  \r
-  public String getXfamSource() { return jalview.datamodel.DBRefSource.PFAM; }\r
-  \r
-  \r
+\r
+  public String getXfamSource()\r
+  {\r
+    return jalview.datamodel.DBRefSource.PFAM;\r
+  }\r
+\r
 }\r