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root/OpenMD/trunk/src/selection/NameFinder.cpp
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Comparing trunk/src/selection/NameFinder.cpp (file contents):
Revision 1878 by gezelter, Mon Oct 1 18:21:15 2012 UTC vs.
Revision 1879 by gezelter, Sun Jun 16 15:15:42 2013 UTC

# Line 35 | Line 35
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).          
38 > * [3]  Sun, Lin & Gezelter, J. Chem. Phys. 128, 234107 (2008).          
39   * [4]  Kuang & Gezelter,  J. Chem. Phys. 133, 164101 (2010).
40   * [5]  Vardeman, Stocker & Gezelter, J. Chem. Theory Comput. 7, 834 (2011).
41   */
# Line 65 | Line 65 | namespace OpenMD {
65  
66    void NameFinder::loadNames() {
67  
68 –    std::map<std::string, TreeNode*>::iterator foundIter;
68      SimInfo::MoleculeIterator mi;
69      Molecule* mol;
70      Molecule::AtomIterator ai;
# Line 229 | Line 228 | namespace OpenMD {
228  
229    void NameFinder::matchInternalIndex(const std::string& name, int internalIndex, OpenMDBitSet& bs){
230  
232 –    std::map<std::string, TreeNode*>::iterator foundIter;
231      SimInfo::MoleculeIterator mi;
232      Molecule* mol;
233  
# Line 251 | Line 249 | namespace OpenMD {
249      }
250    }
251  
252 <  bool NameFinder::isInteger(const std::string str) {
252 >  bool NameFinder::isInteger(const std::string &str) {
253      for(unsigned int i = 0; i < str.size(); ++i){
254        if (!std::isdigit(str[i])) {
255          return false;

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