X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2FMCview%2FResidue.java;h=2b0159e6206994410b3fc92937c2643f32f6bea9;hb=17e77c3f2949a0729322b4a8d907f3f34b6a9914;hp=b01d982b94805ed8c4fe00c11e1bea77eeb462dd;hpb=588042b69abf8e60bcc950b24c283933c7dd422f;p=jalview.git

diff --git a/src/MCview/Residue.java b/src/MCview/Residue.java
index b01d982..2b0159e 100755
--- a/src/MCview/Residue.java
+++ b/src/MCview/Residue.java
@@ -1,45 +1,52 @@
-/*
-* 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 MCview;
-
-import java.util.*;
-
-
-public class Residue {
-    Vector atoms = new Vector();
-    int number;
-    int count;
-    int seqnumber;
-
-    public Residue(Vector atoms, int number, int count) {
-        this.atoms = atoms;
-        this.number = number;
-        this.count = count;
-    }
-
-    public myAtom findAtom(String name) {
-        for (int i = 0; i < atoms.size(); i++) {
-            if (((myAtom) atoms.elementAt(i)).name.equals(name)) {
-                return (myAtom) atoms.elementAt(i);
-            }
-        }
-
-        return null;
-    }
-}
+/*
+ * 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 MCview;
+
+import java.util.Vector;
+
+public class Residue
+{
+  Vector<Atom> atoms;
+
+  int number;
+
+  int count;
+
+  public Residue(Vector<Atom> resAtoms, int number, int count)
+  {
+    this.atoms = resAtoms;
+    this.number = number;
+    this.count = count;
+  }
+
+  public Atom findAtom(String name)
+  {
+    for (Atom atom : atoms)
+    {
+      if (atom.name.equals(name))
+      {
+        return atom;
+      }
+    }
+
+    return null;
+  }
+}