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compute_tdpd_cc_atom.cpp
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Tue, Sep 24, 22:26

compute_tdpd_cc_atom.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 <string.h>
#include "compute_tdpd_cc_atom.h"
#include "atom.h"
#include "update.h"
#include "modify.h"
#include "comm.h"
#include "force.h"
#include "memory.h"
#include "error.h"
using namespace LAMMPS_NS;
/* ---------------------------------------------------------------------- */
ComputeTDPDCCAtom::ComputeTDPDCCAtom(LAMMPS *lmp, int narg, char **arg) :
Compute(lmp, narg, arg)
{
if (narg != 4) error->all(FLERR,"Number of arguments for compute tdpd/cc/atom command != 4");
if (atom->tdpd_flag != 1) error->all(FLERR,"compute tdpd/cc/atom command requires atom_style with concentration (e.g. tdpd)");
index = force->inumeric(FLERR,arg[3]);
peratom_flag = 1;
size_peratom_cols = 0;
nmax = 0;
cc_vector = NULL;
}
/* ---------------------------------------------------------------------- */
ComputeTDPDCCAtom::~ComputeTDPDCCAtom()
{
memory->sfree(cc_vector);
}
/* ---------------------------------------------------------------------- */
void ComputeTDPDCCAtom::init()
{
int count = 0;
for (int i = 0; i < modify->ncompute; i++)
if (strcmp(modify->compute[i]->style,"cc_vector/atom") == 0) count++;
if (count > 1 && comm->me == 0)
error->warning(FLERR,"More than one compute cc_vector/atom");
}
/* ---------------------------------------------------------------------- */
void ComputeTDPDCCAtom::compute_peratom()
{
invoked_peratom = update->ntimestep;
// grow cc_vector array if necessary
if (atom->nmax > nmax) {
memory->sfree(cc_vector);
nmax = atom->nmax;
cc_vector = (double *) memory->smalloc(nmax*sizeof(double),"cc_vector/atom:cc_vector");
vector_atom = cc_vector;
}
double **cc = atom->cc;
int *mask = atom->mask;
int nlocal = atom->nlocal;
for (int i = 0; i < nlocal; i++) {
if (mask[i] & groupbit) {
cc_vector[i] = cc[i][index-1];
}
else
cc_vector[i] = 0.0;
}
}
/* ----------------------------------------------------------------------
memory usage of local atom-based array
------------------------------------------------------------------------- */
double ComputeTDPDCCAtom::memory_usage()
{
double bytes = nmax * sizeof(double);
return bytes;
}

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