SelectionCorrFunc.cpp

/*
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 * 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, 234107 (2008).
 * [4] Vardeman, Stocker & Gezelter, J. Chem. Theory Comput. 7, 834 (2011).
 * [5] Kuang & Gezelter, Mol. Phys., 110, 691-701 (2012).
 * [6] Lamichhane, Gezelter & Newman, J. Chem. Phys. 141, 134109 (2014).
 * [7] Lamichhane, Newman & Gezelter, J. Chem. Phys. 141, 134110 (2014).
 * [8] Bhattarai, Newman & Gezelter, Phys. Rev. B 99, 094106 (2019).
 */
 
#include "applications/dynamicProps/SelectionCorrFunc.hpp"
 
namespace OpenMD {
  SelectionCorrFunc::SelectionCorrFunc(SimInfo* info,
                                       const std::string& filename,
                                       const std::string& sele1,
                                       const std::string& sele2) :
      ObjectCCF<int>(info, filename, sele1, sele2) {
    setCorrFuncType("SelectionCorrFunc");
    setOutputName(getPrefix(dumpFilename_) + ".selecorr");
 
    selected1_.resize(nFrames_);
    selected2_.resize(nFrames_);
  }
 
  int SelectionCorrFunc::computeProperty1(int frame, StuntDouble* sd) {
    selected1_[frame].push_back(sd->getGlobalIndex());
    return selected1_[frame].size() - 1;
  }
 
  int SelectionCorrFunc::computeProperty2(int frame, StuntDouble* sd) {
    selected2_[frame].push_back(sd->getGlobalIndex());
    return selected2_[frame].size() - 1;
  }
 
  int SelectionCorrFunc::calcCorrVal(int frame1, int frame2, int id1, int id2) {
    if (selected1_[frame1][id1] == selected2_[frame2][id2]) return 1;
    return 0;
  }
 
}  // namespace OpenMD