JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensing glob

[jalview.git] / src / jalview / datamodel / SequenceDummy.java

diff --git a/src/jalview/datamodel/SequenceDummy.java b/src/jalview/datamodel/SequenceDummy.java
index 80b0072..e189f31 100644 (file)
--- a/src/jalview/datamodel/SequenceDummy.java
+++ b/src/jalview/datamodel/SequenceDummy.java
@@ -1,3 +1,23 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9)
+ * Copyright (C) 2015 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.datamodel;
 
 public class SequenceDummy extends Sequence implements SequenceI
@@ -6,4 +26,28 @@ public class SequenceDummy extends Sequence implements SequenceI
   {
     super(sequenceId, "THISAPLACEHOLDER");
   }
+
+  private boolean dummy = true;
+
+  /**
+   * become a proxy for mseq, merging any existing annotation on this sequence
+   * 
+   * @param mseq
+   */
+  public void become(SequenceI mseq)
+  {
+    initSeqFrom(mseq, null);
+    dummy = false;
+  }
+
+  /**
+   * Test if the SequenceDummy has been promoted to a real sequence via
+   * SequenceDummy.become
+   * 
+   * @return true if this is a placeholder and contains no actual sequence data
+   */
+  public boolean isDummy()
+  {
+    return dummy;
+  }
 }