--- branches/development/src/nonbonded/EAM.cpp 2010/10/03 22:18:59 1505 +++ branches/development/src/nonbonded/EAM.cpp 2011/04/27 18:38:15 1549 @@ -347,37 +347,37 @@ namespace OpenMD { return; } - void EAM::calcDensity(DensityData ddat) { + void EAM::calcDensity(InteractionData &idat) { if (!initialized_) initialize(); - EAMAtomData data1 = EAMMap[ddat.atype1]; - EAMAtomData data2 = EAMMap[ddat.atype2]; + EAMAtomData data1 = EAMMap[idat.atypes.first]; + EAMAtomData data2 = EAMMap[idat.atypes.second]; - if (ddat.rij < data1.rcut) - ddat.rho_i_at_j = data1.rho->getValueAt(ddat.rij); + if (idat.rij < data1.rcut) + idat.rho_i_at_j = data1.rho->getValueAt(idat.rij); - if (ddat.rij < data2.rcut) - ddat.rho_j_at_i = data2.rho->getValueAt(ddat.rij); + if (idat.rij < data2.rcut) + idat.rho_j_at_i = data2.rho->getValueAt(idat.rij); return; } - void EAM::calcFunctional(FunctionalData fdat) { + void EAM::calcFunctional(SelfData &sdat) { if (!initialized_) initialize(); - EAMAtomData data1 = EAMMap[fdat.atype]; + EAMAtomData data1 = EAMMap[sdat.atype]; - pair result = data1.F->getValueAndDerivativeAt(fdat.rho); + pair result = data1.F->getValueAndDerivativeAt(sdat.rho); - fdat.frho = result.first; - fdat.dfrhodrho = result.second; + sdat.frho = result.first; + sdat.dfrhodrho = result.second; return; } - void EAM::calcForce(InteractionData idat) { + void EAM::calcForce(InteractionData &idat) { if (!initialized_) initialize(); @@ -385,8 +385,8 @@ namespace OpenMD { if (idat.rij < eamRcut_) { - EAMAtomData data1 = EAMMap[idat.atype1]; - EAMAtomData data2 = EAMMap[idat.atype2]; + EAMAtomData data1 = EAMMap[idat.atypes.first]; + EAMAtomData data2 = EAMMap[idat.atypes.second]; // get type-specific cutoff radii @@ -403,7 +403,7 @@ namespace OpenMD { rha = res.first; drha = res.second; - res = MixingMap[make_pair(idat.atype1, idat.atype1)].phi->getValueAndDerivativeAt(idat.rij); + res = MixingMap[make_pair(idat.atypes.first, idat.atypes.first)].phi->getValueAndDerivativeAt(idat.rij); pha = res.first; dpha = res.second; } @@ -413,7 +413,7 @@ namespace OpenMD { rhb = res.first; drhb = res.second; - res = MixingMap[make_pair(idat.atype2, idat.atype2)].phi->getValueAndDerivativeAt(idat.rij); + res = MixingMap[make_pair(idat.atypes.second, idat.atypes.second)].phi->getValueAndDerivativeAt(idat.rij); phb = res.first; dphb = res.second; } @@ -439,7 +439,7 @@ namespace OpenMD { break; case eamDaw: - res = MixingMap[make_pair(idat.atype1,idat.atype2)].phi->getValueAndDerivativeAt(idat.rij); + res = MixingMap[idat.atypes].phi->getValueAndDerivativeAt(idat.rij); phab = res.first; dvpdr = res.second; @@ -478,7 +478,7 @@ namespace OpenMD { idat.fshift1 = data1.F->getValueAt( idat.rho1 - rhb ); idat.fshift2 = data1.F->getValueAt( idat.rho2 - rha ); - idat.pot += phab; + idat.pot[3] += phab; idat.vpair += phab; } @@ -487,20 +487,20 @@ namespace OpenMD { } - RealType EAM::getSuggestedCutoffRadius(AtomType* at1, AtomType* at2) { + RealType EAM::getSuggestedCutoffRadius(pair atypes) { if (!initialized_) initialize(); RealType cut = 0.0; map::iterator it; - it = EAMMap.find(at1); + it = EAMMap.find(atypes.first); if (it != EAMMap.end()) { EAMAtomData data1 = (*it).second; cut = data1.rcut; } - it = EAMMap.find(at2); + it = EAMMap.find(atypes.second); if (it != EAMMap.end()) { EAMAtomData data2 = (*it).second; if (data2.rcut > cut)