X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2FMCview%2FResidue.java;h=edef5f1bcfe22cb7826fed42dce87bbbc873a5e8;hb=37de9310bec3501cbc6381e0c3dcb282fcaad812;hp=6e058f3abc255d252f8b780674b94e40938eaf45;hpb=9b22c11a0e12a9320e41eca2cbcbe30f81eb1cb4;p=jalview.git

diff --git a/src/MCview/Residue.java b/src/MCview/Residue.java
index 6e058f3..edef5f1 100755
--- a/src/MCview/Residue.java
+++ b/src/MCview/Residue.java
@@ -1,28 +1,57 @@
-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 ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ 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;
+  }
+
+  public Vector<Atom> getAtoms()
+  {
+    return this.atoms;
+  }
+}