X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2FDBRefSource.java;h=fbd11adb54d7020203208e3df5384be3d20c18dd;hb=797df64fa2a0a30773d0f48f5494d4155e5a8be3;hp=6dca74fe9dd8739cbcbb35071d283d5a042d01c7;hpb=506d60f0e188723ddc91c26824b41ac7034df3fe;p=jalview.git

diff --git a/src/jalview/datamodel/DBRefSource.java b/src/jalview/datamodel/DBRefSource.java
index 6dca74f..fbd11ad 100755
--- a/src/jalview/datamodel/DBRefSource.java
+++ b/src/jalview/datamodel/DBRefSource.java
@@ -1,20 +1,19 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.4)
- * Copyright (C) 2008 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
+ * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle
  * 
- * This program 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 2
- * of the License, or (at your option) any later version.
+ * This file is part of Jalview.
  * 
- * This program 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.
+ * 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.
  * 
- * You should have received a copy of the GNU General Public License
- * along with this program; if not, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA
+ * 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/>.
  */
 package jalview.datamodel;
 
@@ -62,6 +61,11 @@ public class DBRefSource
    * PFAM ID
    */
   public static String PFAM = "PFAM";
+  
+  /**
+   * RFAM ID
+   */
+  public static String RFAM = "RFAM";
 
   /**
    * GeneDB ID
@@ -87,7 +91,7 @@ public class DBRefSource
   { PDB };
 
   public static final String[] DOMAINDBS =
-  { PFAM };
+  { PFAM, RFAM };
 
   /**
    * set of unique DBRefSource property constants. These could be used to
@@ -116,7 +120,7 @@ public class DBRefSource
   public static final Object DNACODINGSEQDB = "XONCODING";
 
   /**
-   * DB returns several sequences associated with a protein domain
+   * DB returns several sequences associated with a protein/nucleotide domain
    */
   public static final Object DOMAINDB = "DOMAIN";
 
@@ -126,4 +130,9 @@ public class DBRefSource
    * time.
    */
   public static final Object MULTIACC = "MULTIACC";
+
+  /**
+   * DB query returns an alignment for each accession provided.
+   */
+  public static final Object ALIGNMENTDB = "ALIGNMENTS";
 }