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Comparing:
trunk/src/selection/IndexFinder.hpp (file contents), Revision 416 by tim, Wed Mar 9 18:48:14 2005 UTC vs.
branches/development/src/selection/IndexFinder.hpp (file contents), Revision 1465 by chuckv, Fri Jul 9 23:08:25 2010 UTC

# Line 6 | Line 6
6   * redistribute this software in source and binary code form, provided
7   * that the following conditions are met:
8   *
9 < * 1. Acknowledgement of the program authors must be made in any
10 < *    publication of scientific results based in part on use of the
11 < *    program.  An acceptable form of acknowledgement is citation of
12 < *    the article in which the program was described (Matthew
13 < *    A. Meineke, Charles F. Vardeman II, Teng Lin, Christopher
14 < *    J. Fennell and J. Daniel Gezelter, "OOPSE: An Object-Oriented
15 < *    Parallel Simulation Engine for Molecular Dynamics,"
16 < *    J. Comput. Chem. 26, pp. 252-271 (2005))
17 < *
18 < * 2. Redistributions of source code must retain the above copyright
9 > * 1. Redistributions of source code must retain the above copyright
10   *    notice, this list of conditions and the following disclaimer.
11   *
12 < * 3. Redistributions in binary form must reproduce the above copyright
12 > * 2. Redistributions in binary form must reproduce the above copyright
13   *    notice, this list of conditions and the following disclaimer in the
14   *    documentation and/or other materials provided with the
15   *    distribution.
# Line 37 | Line 28
28   * arising out of the use of or inability to use software, even if the
29   * University of Notre Dame has been advised of the possibility of
30   * such damages.
31 + *
32 + * SUPPORT OPEN SCIENCE!  If you use OpenMD or its source code in your
33 + * research, please cite the appropriate papers when you publish your
34 + * work.  Good starting points are:
35 + *                                                                      
36 + * [1]  Meineke, et al., J. Comp. Chem. 26, 252-271 (2005).            
37 + * [2]  Fennell & Gezelter, J. Chem. Phys. 124, 234104 (2006).          
38 + * [3]  Sun, Lin & Gezelter, J. Chem. Phys. 128, 24107 (2008).          
39 + * [4]  Vardeman & Gezelter, in progress (2009).                        
40   */
41   #ifndef SELECTION_INDEXFINDER_HPP
42   #define SELECTION_INDEXFINDER_HPP
43   #include "brains/SimInfo.hpp"
44 < #include "utils/BitSet.hpp"
44 > #include "utils/OpenMDBitSet.hpp"
45   #include "primitives/StuntDouble.hpp"
46 < namespace oopse {
46 > namespace OpenMD {
47  
48 < class IndexFinder {
49 <    public:
50 <        IndexFinder(SimInfo* si);
48 >  class IndexFinder {
49 >  public:
50 >    IndexFinder(SimInfo* si);
51  
52 <        BitSet find(int molIndex);
53 <        BitSet find(int begMolIndex, int endMolIndex);
52 >    OpenMDBitSet find(int molIndex);
53 >    OpenMDBitSet find(int begMolIndex, int endMolIndex);
54  
55 <    private:
55 >  private:
56  
57 <        void init();
57 >    void init();
58          
59 <        SimInfo* info_;
60 <        std::vector<BitSet> bitSets_;
61 <        int nStuntDoubles_;
59 >    SimInfo* info_;
60 >    std::vector<OpenMDBitSet> bitSets_;
61 >    int nStuntDoubles_;
62          
63 < };
63 >  };
64  
65   }
66   #endif

Comparing:
trunk/src/selection/IndexFinder.hpp (property svn:keywords), Revision 416 by tim, Wed Mar 9 18:48:14 2005 UTC vs.
branches/development/src/selection/IndexFinder.hpp (property svn:keywords), Revision 1465 by chuckv, Fri Jul 9 23:08:25 2010 UTC

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1 + Author Id Revision Date

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