JAL-1925 update source version in license

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

diff --git a/src/jalview/datamodel/UniprotEntry.java b/src/jalview/datamodel/UniprotEntry.java
index dcdaee9..43c742d 100755 (executable)
--- a/src/jalview/datamodel/UniprotEntry.java
+++ b/src/jalview/datamodel/UniprotEntry.java
@@ -1,93 +1,105 @@
-/*\r
- * Jalview - A Sequence Alignment Editor and Viewer\r
- * Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
- *\r
- * This program is free software; you can redistribute it and/or\r
- * modify it under the terms of the GNU General Public License\r
- * as published by the Free Software Foundation; either version 2\r
- * of the License, or (at your option) any later version.\r
- *\r
- * This program is distributed in the hope that it will be useful,\r
- * but WITHOUT ANY WARRANTY; without even the implied warranty of\r
- * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the\r
- * GNU General Public License for more details.\r
- *\r
- * You should have received a copy of the GNU General Public License\r
- * along with this program; if not, write to the Free Software\r
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA\r
- */\r
-package jalview.datamodel;\r
-\r
-import java.util.*;\r
-\r
-public class UniprotEntry\r
-{\r
-\r
-  UniprotSequence sequence;\r
-  Vector name;\r
-  Vector accession;\r
-  Vector feature;\r
-  Vector dbrefs;\r
-  UniprotProteinName protName;\r
-\r
-  public void setAccession(Vector items)\r
-  {\r
-    accession = items;\r
-  }\r
-\r
-  public void setFeature(Vector items)\r
-  {\r
-       feature = items;\r
-   }\r
-\r
-   public Vector getFeature() {\r
-       return feature;\r
-   }\r
-\r
-\r
-   public Vector getAccession()\r
-   {\r
-     return accession;\r
-   }\r
-\r
-   public void setProtein(UniprotProteinName names)\r
-   {\r
-     protName = names;\r
-   }\r
-\r
-\r
-   public UniprotProteinName getProtein()\r
-   {\r
-     return protName;\r
-   }\r
-\r
-  public void setName(Vector na)\r
-  {\r
-    name = na;\r
-  }\r
-  public Vector getName()\r
-  {\r
-    return name;\r
-  }\r
-\r
-  public UniprotSequence getUniprotSequence()\r
-  {\r
-    return sequence;\r
-  }\r
-\r
-  public void setUniprotSequence(UniprotSequence seq)\r
-  {\r
-    sequence = seq;\r
-  }\r
-\r
-  public Vector getDbReference()\r
-  {\r
-    return dbrefs;\r
-  }\r
-\r
-  public void setDbReference(Vector dbref)\r
-  {\r
-   this.dbrefs = dbref;\r
-  }\r
-\r
-}\r
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b2)
+ * 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;
+
+import java.util.Vector;
+
+/**
+ * Data model for an entry returned from a Uniprot query
+ * 
+ * @see uniprot_mapping.xml
+ */
+public class UniprotEntry
+{
+
+  UniprotSequence sequence;
+
+  Vector<String> name;
+
+  Vector<String> accession;
+
+  Vector<SequenceFeature> feature;
+
+  Vector<PDBEntry> dbrefs;
+
+  UniprotProteinName protName;
+
+  public void setAccession(Vector<String> items)
+  {
+    accession = items;
+  }
+
+  public void setFeature(Vector<SequenceFeature> items)
+  {
+    feature = items;
+  }
+
+  public Vector<SequenceFeature> getFeature()
+  {
+    return feature;
+  }
+
+  public Vector<String> getAccession()
+  {
+    return accession;
+  }
+
+  public void setProtein(UniprotProteinName names)
+  {
+    protName = names;
+  }
+
+  public UniprotProteinName getProtein()
+  {
+    return protName;
+  }
+
+  public void setName(Vector<String> na)
+  {
+    name = na;
+  }
+
+  public Vector<String> getName()
+  {
+    return name;
+  }
+
+  public UniprotSequence getUniprotSequence()
+  {
+    return sequence;
+  }
+
+  public void setUniprotSequence(UniprotSequence seq)
+  {
+    sequence = seq;
+  }
+
+  public Vector<PDBEntry> getDbReference()
+  {
+    return dbrefs;
+  }
+
+  public void setDbReference(Vector<PDBEntry> dbref)
+  {
+    this.dbrefs = dbref;
+  }
+
+}