src/brains/PairList.cpp

/*
 * Copyright (c) 2005 The University of Notre Dame. All Rights Reserved.
 *
 * The University of Notre Dame grants you ("Licensee") a
 * non-exclusive, royalty free, license to use, modify and
 * redistribute this software in source and binary code form, provided
 * that the following conditions are met:
 *
 * 1. Redistributions of source code must retain the above copyright
 *    notice, this list of conditions and the following disclaimer.
 *
 * 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.
 *
 * This software is provided "AS IS," without a warranty of any
 * kind. All express or implied conditions, representations and
 * warranties, including any implied warranty of merchantability,
 * fitness for a particular purpose or non-infringement, are hereby
 * excluded.  The University of Notre Dame and its licensors shall not
 * be liable for any damages suffered by licensee as a result of
 * using, modifying or distributing the software or its
 * derivatives. In no event will the University of Notre Dame or its
 * licensors be liable for any lost revenue, profit or data, or for
 * direct, indirect, special, consequential, incidental or punitive
 * damages, however caused and regardless of the theory of liability,
 * arising out of the use of or inability to use software, even if the
 * University of Notre Dame has been advised of the possibility of
 * such damages.
 *
 * 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]  Vardeman & Gezelter, in progress (2009).                        
 */
 
#include <functional>
#include <iterator>
#include <utility>

#include "brains/PairList.hpp"

namespace OpenMD {
  
  int *PairList::getPairList() {

    if (modified_) {
      pairList_.clear();
      
      for (std::set<std::pair<int,int> >::iterator i = pairSet_.begin();
           i != pairSet_.end(); ++i) {
        pairList_.push_back(i->first + 1);
        pairList_.push_back(i->second + 1);            
      }
      modified_ = false;
    } 
    
    return pairList_.size() > 0 ? &(pairList_[0]) : NULL;    
  }
  
  void PairList::addPair(int i, int j) {
    
    if (i == j) {
      return;
    } else if (i > j) {
      std::swap(i, j);
    }
    
    std::set<std::pair<int, int> >::iterator iter = pairSet_.find(std::make_pair(i, j));
    
    if (iter == pairSet_.end()) {
      pairSet_.insert(std::make_pair(i, j));
      modified_ = true;
    }
  }
  
  void PairList::addPairs(std::set<int>& set1, std::set<int>& set2) {
    for (std::set<int>::iterator iter1 = set1.begin(); 
         iter1 !=  set1.end(); ++ iter1) {
      for(std::set<int>::iterator iter2 = set2.begin(); 
          iter2 != set2.end(); ++ iter2) {
        this->addPair(*iter1, *iter2);
      }
    }    
  }

  template<typename IterType1, typename IterType2>
  void PairList::addPairs(IterType1 iter1_first, IterType1 iter1_last, IterType2 iter2_first, IterType2 iter2_last) {
    for (IterType1 iter1 = iter1_first; iter1 != iter1_last; ++ iter1) {
      for(IterType2 iter2 = iter2_first; iter2 != iter2_last; ++ iter2) {
        this->addPair(*iter1, * iter2);
      }
    }
  }

  void PairList::removePair(int i, int j) {    
    if (i == j) {
      return;
    } else if (i > j) {
      std::swap(i, j);
    }


    std::set<std::pair<int, int> >::iterator iter = pairSet_.find(std::make_pair(i, j));
    
    if (iter != pairSet_.end()) {
      pairSet_.erase(iter);
      modified_ = true;
    }
  }

  void PairList::removePairs(std::set<int>& set1, std::set<int>& set2) {
    for (std::set<int>::iterator iter1 = set1.begin(); 
         iter1 !=  set1.end(); ++ iter1) {
      for(std::set<int>::iterator iter2 = set2.begin(); 
          iter2 != set2.end(); ++ iter2) {
        this->removePair(*iter1, * iter2);
      }
    }    
  }

  template<typename IterType1, typename IterType2>
  void PairList::removePairs(IterType1 iter1_first, IterType1 iter1_last, IterType2 iter2_first, IterType2 iter2_last) {
    for (IterType1 iter1 = iter1_first; iter1 != iter1_last; ++ iter1) {
      for(IterType2 iter2 = iter2_first; iter2 != iter2_last; ++ iter2) {
        this->removePair(*iter1, * iter2);
      }
    }
  }

  bool PairList::hasPair(int i, int j) {
    
    if (i == j) {
      return false;
    } else if (i > j) {
      std::swap(i, j);
    }
    
    std::set<std::pair<int, int> >::iterator  iter = pairSet_.find(std::make_pair(i, j));
    return iter == pairSet_.end() ? false : true; 
  }
  
  int PairList::getSize() {
    return pairSet_.size();
  }

  std::ostream& operator <<(std::ostream& o, PairList& e) {
    std::set<std::pair<int, int> >::iterator i;
    
    int index;
    
    index = 0;
    
    for(i = e.pairSet_.begin(); i != e.pairSet_.end(); ++i) {
      o << "pairList[" << index << "] i, j: " << (*i).first << " - "
        << (*i).second << "\n";
      index++;
    }
    
    return o;
  }
  
}

  
Revision:	1465
Committed:	Fri Jul 9 23:08:25 2010 UTC (14 years, 9 months ago) by chuckv
File size:	5441 byte(s)
Log Message:	Creating busticated version of OpenMD
#	User	Rev	Content
1	gezelter	1288	/*
2			* Copyright (c) 2005 The University of Notre Dame. All Rights Reserved.
3			*
4			* The University of Notre Dame grants you ("Licensee") a
5			* non-exclusive, royalty free, license to use, modify and
6			* redistribute this software in source and binary code form, provided
7			* that the following conditions are met:
8			*
9	gezelter	1390	* 1. Redistributions of source code must retain the above copyright
10	gezelter	1288	* notice, this list of conditions and the following disclaimer.
11			*
12	gezelter	1390	* 2. Redistributions in binary form must reproduce the above copyright
13	gezelter	1288	* notice, this list of conditions and the following disclaimer in the
14			* documentation and/or other materials provided with the
15			* distribution.
16			*
17			* This software is provided "AS IS," without a warranty of any
18			* kind. All express or implied conditions, representations and
19			* warranties, including any implied warranty of merchantability,
20			* fitness for a particular purpose or non-infringement, are hereby
21			* excluded. The University of Notre Dame and its licensors shall not
22			* be liable for any damages suffered by licensee as a result of
23			* using, modifying or distributing the software or its
24			* derivatives. In no event will the University of Notre Dame or its
25			* licensors be liable for any lost revenue, profit or data, or for
26			* direct, indirect, special, consequential, incidental or punitive
27			* damages, however caused and regardless of the theory of liability,
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	gezelter	1390	*
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	gezelter	1288	*/
41
42			#include <functional>
43			#include <iterator>
44			#include <utility>
45
46			#include "brains/PairList.hpp"
47
48	gezelter	1390	namespace OpenMD {
49	gezelter	1288
50			int *PairList::getPairList() {
51
52			if (modified_) {
53			pairList_.clear();
54
55			for (std::set<std::pair<int,int> >::iterator i = pairSet_.begin();
56			i != pairSet_.end(); ++i) {
57			pairList_.push_back(i->first + 1);
58			pairList_.push_back(i->second + 1);
59			}
60			modified_ = false;
61			}
62
63			return pairList_.size() > 0 ? &(pairList_[0]) : NULL;
64			}
65
66			void PairList::addPair(int i, int j) {
67
68			if (i == j) {
69			return;
70			} else if (i > j) {
71			std::swap(i, j);
72			}
73
74			std::set<std::pair<int, int> >::iterator iter = pairSet_.find(std::make_pair(i, j));
75
76			if (iter == pairSet_.end()) {
77			pairSet_.insert(std::make_pair(i, j));
78			modified_ = true;
79			}
80			}
81
82			void PairList::addPairs(std::set<int>& set1, std::set<int>& set2) {
83			for (std::set<int>::iterator iter1 = set1.begin();
84			iter1 != set1.end(); ++ iter1) {
85			for(std::set<int>::iterator iter2 = set2.begin();
86			iter2 != set2.end(); ++ iter2) {
87			this->addPair(iter1, iter2);
88			}
89			}
90			}
91
92			template<typename IterType1, typename IterType2>
93			void PairList::addPairs(IterType1 iter1_first, IterType1 iter1_last, IterType2 iter2_first, IterType2 iter2_last) {
94			for (IterType1 iter1 = iter1_first; iter1 != iter1_last; ++ iter1) {
95			for(IterType2 iter2 = iter2_first; iter2 != iter2_last; ++ iter2) {
96			this->addPair(iter1, iter2);
97			}
98			}
99			}
100
101			void PairList::removePair(int i, int j) {
102			if (i == j) {
103			return;
104			} else if (i > j) {
105			std::swap(i, j);
106			}
107
108
109			std::set<std::pair<int, int> >::iterator iter = pairSet_.find(std::make_pair(i, j));
110
111			if (iter != pairSet_.end()) {
112			pairSet_.erase(iter);
113			modified_ = true;
114			}
115			}
116
117			void PairList::removePairs(std::set<int>& set1, std::set<int>& set2) {
118			for (std::set<int>::iterator iter1 = set1.begin();
119			iter1 != set1.end(); ++ iter1) {
120			for(std::set<int>::iterator iter2 = set2.begin();
121			iter2 != set2.end(); ++ iter2) {
122			this->removePair(iter1, iter2);
123			}
124			}
125			}
126
127			template<typename IterType1, typename IterType2>
128			void PairList::removePairs(IterType1 iter1_first, IterType1 iter1_last, IterType2 iter2_first, IterType2 iter2_last) {
129			for (IterType1 iter1 = iter1_first; iter1 != iter1_last; ++ iter1) {
130			for(IterType2 iter2 = iter2_first; iter2 != iter2_last; ++ iter2) {
131			this->removePair(iter1, iter2);
132			}
133			}
134			}
135
136			bool PairList::hasPair(int i, int j) {
137
138			if (i == j) {
139			return false;
140			} else if (i > j) {
141			std::swap(i, j);
142			}
143
144			std::set<std::pair<int, int> >::iterator iter = pairSet_.find(std::make_pair(i, j));
145			return iter == pairSet_.end() ? false : true;
146			}
147
148			int PairList::getSize() {
149			return pairSet_.size();
150			}
151
152			std::ostream& operator <<(std::ostream& o, PairList& e) {
153			std::set<std::pair<int, int> >::iterator i;
154
155			int index;
156
157			index = 0;
158
159			for(i = e.pairSet_.begin(); i != e.pairSet_.end(); ++i) {
160			o << "pairList[" << index << "] i, j: " << (*i).first << " - "
161			<< (*i).second << "\n";
162			index++;
163			}
164
165			return o;
166			}
167
168			}
169
170