--- trunk/src/applications/staticProps/BondAngleDistribution.cpp	2007/09/17 20:05:51	1180
+++ trunk/src/applications/staticProps/BondAngleDistribution.cpp	2012/08/22 18:43:27	1785
@@ -6,19 +6,10 @@
  * redistribute this software in source and binary code form, provided
  * that the following conditions are met:
  *
- * 1. Acknowledgement of the program authors must be made in any
- *    publication of scientific results based in part on use of the
- *    program.  An acceptable form of acknowledgement is citation of
- *    the article in which the program was described (Matthew
- *    A. Meineke, Charles F. Vardeman II, Teng Lin, Christopher
- *    J. Fennell and J. Daniel Gezelter, "OOPSE: An Object-Oriented
- *    Parallel Simulation Engine for Molecular Dynamics,"
- *    J. Comput. Chem. 26, pp. 252-271 (2005))
- *
- * 2. Redistributions of source code must retain the above copyright
+ * 1. Redistributions of source code must retain the above copyright
  *    notice, this list of conditions and the following disclaimer.
  *
- * 3. Redistributions in binary form must reproduce the above copyright
+ * 2. Redistributions in binary form must reproduce the above copyright
  *    notice, this list of conditions and the following disclaimer in the
  *    documentation and/or other materials provided with the
  *    distribution.
@@ -38,12 +29,18 @@
  * University of Notre Dame has been advised of the possibility of
  * such damages.
  *
- *  BondAngleDistribution.cpp
- *  OOPSE-4
- *
+ * SUPPORT OPEN SCIENCE!  If you use OpenMD or its source code in your
+ * research, please cite the appropriate papers when you publish your
+ * work.  Good starting points are:
+ *                                                                      
+ * [1]  Meineke, et al., J. Comp. Chem. 26, 252-271 (2005).             
+ * [2]  Fennell & Gezelter, J. Chem. Phys. 124, 234104 (2006).          
+ * [3]  Sun, Lin & Gezelter, J. Chem. Phys. 128, 24107 (2008).          
+ * [4] Kuang & Gezelter,  J. Chem. Phys. 133, 164101 (2010).
+ * [4] , Stocker & Gezelter, J. Chem. Theory Comput. 7, 834 (2011). *
  *  Created by J. Daniel Gezelter on 07/27/07.
  *  @author  J. Daniel Gezelter
- *  @version $Id: BondAngleDistribution.cpp,v 1.1 2007-09-17 20:05:51 chuckv Exp $
+ *  @version $Id$
  *
  */
  
@@ -53,7 +50,7 @@
 #include "primitives/Molecule.hpp"
 #include "utils/NumericConstant.hpp"
 
-namespace oopse {
+namespace OpenMD {
 
   BondAngleDistribution::BondAngleDistribution(SimInfo* info, 
                                               const std::string& filename, 
@@ -84,7 +81,7 @@ namespace oopse {
     histogram_.clear();
   }
   
-  void BondAngleDistribution::initalizeHistogram() {
+  void BondAngleDistribution::initializeHistogram() {
     for (int bin = 0; bin < nBins_; bin++) {      
       histogram_[bin] = 0;
     }
@@ -102,14 +99,10 @@ namespace oopse {
     Vector3d vec;
     std::vector<Vector3d> bondvec;
     std::vector<RealType> bonddist;
-    RealType costheta;
-    RealType r;
-    RealType dist;
+    RealType r;    
+    int nBonds;    
+    int i;
     
-    int nBonds;
-    
-    int i, j;
-    
     DumpReader reader(info_, dumpFilename_);    
     int nFrames = reader.getNFrames();
     frameCounter_ = 0;