X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2FUniprotEntry.java;h=43c742d5bb808ffdf40368fd690b272290d2da40;hb=c19d2a91ca05e052e3408bf5852d88eb5d0608f1;hp=dcdaee988c409a0b62837b80b3aa50a75a652b67;hpb=e651bfd6da43bae19e157d6fdf1efbb484acda76;p=jalview.git

diff --git a/src/jalview/datamodel/UniprotEntry.java b/src/jalview/datamodel/UniprotEntry.java
index dcdaee9..43c742d 100755
--- a/src/jalview/datamodel/UniprotEntry.java
+++ b/src/jalview/datamodel/UniprotEntry.java
@@ -1,93 +1,105 @@
-/*
- * Jalview - A Sequence Alignment Editor and Viewer
- * Copyright (C) 2005 AM Waterhouse, J Procter, 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 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.
- *
- * 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
- */
-package jalview.datamodel;
-
-import java.util.*;
-
-public class UniprotEntry
-{
-
-  UniprotSequence sequence;
-  Vector name;
-  Vector accession;
-  Vector feature;
-  Vector dbrefs;
-  UniprotProteinName protName;
-
-  public void setAccession(Vector items)
-  {
-    accession = items;
-  }
-
-  public void setFeature(Vector items)
-  {
-       feature = items;
-   }
-
-   public Vector getFeature() {
-       return feature;
-   }
-
-
-   public Vector getAccession()
-   {
-     return accession;
-   }
-
-   public void setProtein(UniprotProteinName names)
-   {
-     protName = names;
-   }
-
-
-   public UniprotProteinName getProtein()
-   {
-     return protName;
-   }
-
-  public void setName(Vector na)
-  {
-    name = na;
-  }
-  public Vector getName()
-  {
-    return name;
-  }
-
-  public UniprotSequence getUniprotSequence()
-  {
-    return sequence;
-  }
-
-  public void setUniprotSequence(UniprotSequence seq)
-  {
-    sequence = seq;
-  }
-
-  public Vector getDbReference()
-  {
-    return dbrefs;
-  }
-
-  public void setDbReference(Vector dbref)
-  {
-   this.dbrefs = dbref;
-  }
-
-}
+/*
+ * 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;
+  }
+
+}