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pair_lj_sdk_kokkos.cpp
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Mon, Jun 24, 20:54

pair_lj_sdk_kokkos.cpp
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/* ----------------------------------------------------------------------
LAMMPS - Large-scale Atomic/Molecular Massively Parallel Simulator
http://lammps.sandia.gov, Sandia National Laboratories
Steve Plimpton, sjplimp@sandia.gov
Copyright (2003) Sandia Corporation. Under the terms of Contract
DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government retains
certain rights in this software. This software is distributed under
the GNU General Public License.
See the README file in the top-level LAMMPS directory.
------------------------------------------------------------------------- */
#include <math.h>
#include <stdio.h>
#include <stdlib.h>
#include <string.h>
#include "pair_lj_sdk_kokkos.h"
#include "kokkos.h"
#include "atom_kokkos.h"
#include "comm.h"
#include "force.h"
#include "neighbor.h"
#include "neigh_list.h"
#include "neigh_request.h"
#include "update.h"
#include "integrate.h"
#include "respa.h"
#include "math_const.h"
#include "memory.h"
#include "error.h"
#include "atom_masks.h"
#include "lj_sdk_common.h"
using namespace LAMMPS_NS;
using namespace MathConst;
using namespace LJSDKParms;
#define KOKKOS_CUDA_MAX_THREADS 256
#define KOKKOS_CUDA_MIN_BLOCKS 8
/* ---------------------------------------------------------------------- */
template<class DeviceType>
PairLJSDKKokkos<DeviceType>::PairLJSDKKokkos(LAMMPS *lmp) : PairLJSDK(lmp)
{
respa_enable = 0;
atomKK = (AtomKokkos *) atom;
execution_space = ExecutionSpaceFromDevice<DeviceType>::space;
datamask_read = X_MASK | F_MASK | TYPE_MASK | ENERGY_MASK | VIRIAL_MASK;
datamask_modify = F_MASK | ENERGY_MASK | VIRIAL_MASK;
cutsq = NULL;
}
/* ---------------------------------------------------------------------- */
template<class DeviceType>
PairLJSDKKokkos<DeviceType>::~PairLJSDKKokkos()
{
if (allocated) {
k_cutsq = DAT::tdual_ffloat_2d();
memory->sfree(cutsq);
cutsq = NULL;
}
}
/* ---------------------------------------------------------------------- */
template<class DeviceType>
void PairLJSDKKokkos<DeviceType>::cleanup_copy() {
// WHY needed: this prevents parent copy from deallocating any arrays
allocated = 0;
cutsq = NULL;
eatom = NULL;
vatom = NULL;
}
/* ---------------------------------------------------------------------- */
template<class DeviceType>
void PairLJSDKKokkos<DeviceType>::compute(int eflag_in, int vflag_in)
{
eflag = eflag_in;
vflag = vflag_in;
if (neighflag == FULL) no_virial_fdotr_compute = 1;
if (eflag || vflag) ev_setup(eflag,vflag,0);
else evflag = vflag_fdotr = 0;
// reallocate per-atom arrays if necessary
if (eflag_atom) {
memory->destroy_kokkos(k_eatom,eatom);
memory->create_kokkos(k_eatom,eatom,maxeatom,"pair:eatom");
d_eatom = k_eatom.view<DeviceType>();
}
if (vflag_atom) {
memory->destroy_kokkos(k_vatom,vatom);
memory->create_kokkos(k_vatom,vatom,maxvatom,6,"pair:vatom");
d_vatom = k_vatom.view<DeviceType>();
}
atomKK->sync(execution_space,datamask_read);
k_cutsq.template sync<DeviceType>();
k_params.template sync<DeviceType>();
if (eflag || vflag) atomKK->modified(execution_space,datamask_modify);
else atomKK->modified(execution_space,F_MASK);
x = atomKK->k_x.view<DeviceType>();
c_x = atomKK->k_x.view<DeviceType>();
f = atomKK->k_f.view<DeviceType>();
type = atomKK->k_type.view<DeviceType>();
tag = atomKK->k_tag.view<DeviceType>();
nlocal = atom->nlocal;
nall = atom->nlocal + atom->nghost;
newton_pair = force->newton_pair;
special_lj[0] = force->special_lj[0];
special_lj[1] = force->special_lj[1];
special_lj[2] = force->special_lj[2];
special_lj[3] = force->special_lj[3];
// loop over neighbors of my atoms
EV_FLOAT ev = pair_compute<PairLJSDKKokkos<DeviceType>,void >(this,(NeighListKokkos<DeviceType>*)list);
if (eflag) eng_vdwl += ev.evdwl;
if (vflag_global) {
virial[0] += ev.v[0];
virial[1] += ev.v[1];
virial[2] += ev.v[2];
virial[3] += ev.v[3];
virial[4] += ev.v[4];
virial[5] += ev.v[5];
}
if (eflag_atom) {
k_eatom.template modify<DeviceType>();
k_eatom.template sync<LMPHostType>();
}
if (vflag_atom) {
k_vatom.template modify<DeviceType>();
k_vatom.template sync<LMPHostType>();
}
if (vflag_fdotr) pair_virial_fdotr_compute(this);
}
template<class DeviceType>
template<bool STACKPARAMS, class Specialisation>
KOKKOS_INLINE_FUNCTION
F_FLOAT PairLJSDKKokkos<DeviceType>::
compute_fpair(const F_FLOAT& rsq, const int& i, const int&j, const int& itype, const int& jtype) const {
(void) i;
(void) j;
const F_FLOAT r2inv = 1.0/rsq;
const int ljt = (STACKPARAMS?m_params[itype][jtype].lj_type:params(itype,jtype).lj_type);
const F_FLOAT lj_1 = (STACKPARAMS?m_params[itype][jtype].lj1:params(itype,jtype).lj1);
const F_FLOAT lj_2 = (STACKPARAMS?m_params[itype][jtype].lj2:params(itype,jtype).lj2);
/*if (ljt == LJ12_4) {
const F_FLOAT r4inv=r2inv*r2inv;
return r4inv*(lj_1*r4inv*r4inv - lj_2) * r2inv;
} else if (ljt == LJ9_6) {
const F_FLOAT r3inv = r2inv*sqrt(r2inv);
const F_FLOAT r6inv = r3inv*r3inv;
return r6inv*(lj_1*r3inv - lj_2) * r2inv;
} else if (ljt == LJ12_6) {
const double r6inv = r2inv*r2inv*r2inv;
return r6inv*(lj_1*r6inv - lj_2) * r2inv;
}
if(ljt!=LJ12_4 && ljt!=LJ9_6 && ljt!=LJ12_6) return 0.0;*/
const F_FLOAT r4inv=r2inv*r2inv;
const F_FLOAT r6inv=r2inv*r4inv;
const F_FLOAT a = ljt==LJ12_4?r4inv:r6inv;
const F_FLOAT b = ljt==LJ12_4?r4inv:(ljt==LJ9_6?1.0/sqrt(r2inv):r2inv);
return a* ( lj_1*r6inv*b - lj_2 * r2inv);
}
template<class DeviceType>
template<bool STACKPARAMS, class Specialisation>
KOKKOS_INLINE_FUNCTION
F_FLOAT PairLJSDKKokkos<DeviceType>::
compute_evdwl(const F_FLOAT& rsq, const int& i, const int&j, const int& itype, const int& jtype) const {
(void) i;
(void) j;
const F_FLOAT r2inv = 1.0/rsq;
const int ljt = (STACKPARAMS?m_params[itype][jtype].lj_type:params(itype,jtype).lj_type);
const F_FLOAT lj_3 = (STACKPARAMS?m_params[itype][jtype].lj3:params(itype,jtype).lj3);
const F_FLOAT lj_4 = (STACKPARAMS?m_params[itype][jtype].lj4:params(itype,jtype).lj4);
const F_FLOAT offset = (STACKPARAMS?m_params[itype][jtype].offset:params(itype,jtype).offset);
if (ljt == LJ12_4) {
const F_FLOAT r4inv=r2inv*r2inv;
return r4inv*(lj_3*r4inv*r4inv - lj_4) - offset;
} else if (ljt == LJ9_6) {
const F_FLOAT r3inv = r2inv*sqrt(r2inv);
const F_FLOAT r6inv = r3inv*r3inv;
return r6inv*(lj_3*r3inv - lj_4) - offset;
} else if (ljt == LJ12_6) {
const double r6inv = r2inv*r2inv*r2inv;
return r6inv*(lj_3*r6inv - lj_4) - offset;
} else
return 0.0;
}
/* ----------------------------------------------------------------------
allocate all arrays
------------------------------------------------------------------------- */
template<class DeviceType>
void PairLJSDKKokkos<DeviceType>::allocate()
{
PairLJSDK::allocate();
int n = atom->ntypes;
memory->destroy(cutsq);
memory->create_kokkos(k_cutsq,cutsq,n+1,n+1,"pair:cutsq");
d_cutsq = k_cutsq.template view<DeviceType>();
k_params = Kokkos::DualView<params_lj**,Kokkos::LayoutRight,DeviceType>("PairLJSDK::params",n+1,n+1);
params = k_params.d_view;
}
/* ----------------------------------------------------------------------
global settings
------------------------------------------------------------------------- */
template<class DeviceType>
void PairLJSDKKokkos<DeviceType>::settings(int narg, char **arg)
{
if (narg > 2) error->all(FLERR,"Illegal pair_style command");
PairLJSDK::settings(1,arg);
}
/* ----------------------------------------------------------------------
init specific to this pair style
------------------------------------------------------------------------- */
template<class DeviceType>
void PairLJSDKKokkos<DeviceType>::init_style()
{
PairLJSDK::init_style();
// error if rRESPA with inner levels
if (update->whichflag == 1 && strstr(update->integrate_style,"respa")) {
int respa = 0;
if (((Respa *) update->integrate)->level_inner >= 0) respa = 1;
if (((Respa *) update->integrate)->level_middle >= 0) respa = 2;
if (respa)
error->all(FLERR,"Cannot use Kokkos pair style with rRESPA inner/middle");
}
// irequest = neigh request made by parent class
neighflag = lmp->kokkos->neighflag;
int irequest = neighbor->nrequest - 1;
neighbor->requests[irequest]->
kokkos_host = Kokkos::Impl::is_same<DeviceType,LMPHostType>::value &&
!Kokkos::Impl::is_same<DeviceType,LMPDeviceType>::value;
neighbor->requests[irequest]->
kokkos_device = Kokkos::Impl::is_same<DeviceType,LMPDeviceType>::value;
if (neighflag == FULL) {
neighbor->requests[irequest]->full = 1;
neighbor->requests[irequest]->half = 0;
} else if (neighflag == HALF || neighflag == HALFTHREAD) {
neighbor->requests[irequest]->full = 0;
neighbor->requests[irequest]->half = 1;
} else if (neighflag == N2) {
neighbor->requests[irequest]->full = 0;
neighbor->requests[irequest]->half = 0;
} else {
error->all(FLERR,"Cannot use chosen neighbor list style with lj/sdk/kk");
}
}
/* ----------------------------------------------------------------------
init for one type pair i,j and corresponding j,i
------------------------------------------------------------------------- */
template<class DeviceType>
double PairLJSDKKokkos<DeviceType>::init_one(int i, int j)
{
double cutone = PairLJSDK::init_one(i,j);
k_params.h_view(i,j).lj1 = lj1[i][j];
k_params.h_view(i,j).lj2 = lj2[i][j];
k_params.h_view(i,j).lj3 = lj3[i][j];
k_params.h_view(i,j).lj4 = lj4[i][j];
k_params.h_view(i,j).offset = offset[i][j];
k_params.h_view(i,j).cutsq = cutone*cutone;
k_params.h_view(i,j).lj_type = lj_type[i][j];
k_params.h_view(j,i) = k_params.h_view(i,j);
if(i<MAX_TYPES_STACKPARAMS+1 && j<MAX_TYPES_STACKPARAMS+1) {
m_params[i][j] = m_params[j][i] = k_params.h_view(i,j);
m_cutsq[j][i] = m_cutsq[i][j] = cutone*cutone;
}
k_cutsq.h_view(i,j) = k_cutsq.h_view(j,i) = cutone*cutone;
k_cutsq.template modify<LMPHostType>();
k_params.template modify<LMPHostType>();
return cutone;
}
namespace LAMMPS_NS {
template class PairLJSDKKokkos<LMPDeviceType>;
#ifdef KOKKOS_HAVE_CUDA
template class PairLJSDKKokkos<LMPHostType>;
#endif
}

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