/* ----------------------------------------------------------------------
   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.
------------------------------------------------------------------------- */

/* ----------------------------------------------------------------------
   Contributing author: Naveen Michaud-Agrawal (Johns Hopkins University)
------------------------------------------------------------------------- */

#include "stdlib.h"
#include "string.h"
#include "fix_spring_self.h"
#include "atom.h"
#include "update.h"
#include "domain.h"
#include "respa.h"
#include "memory.h"
#include "error.h"

using namespace LAMMPS_NS;

/* ---------------------------------------------------------------------- */

FixSpringSelf::FixSpringSelf(LAMMPS *lmp, int narg, char **arg) :
  Fix(lmp, narg, arg)
{
  if (narg != 4) error->all("Illegal fix spring/self command");

  restart_peratom = 1;
  scalar_flag = 1;
  scalar_vector_freq = 1;
  extscalar = 1;

  k = atof(arg[3]);
  if (k <= 0.0) error->all("Illegal fix spring/self command");

  // perform initial allocation of atom-based array
  // register with Atom class

  xoriginal = NULL;
  grow_arrays(atom->nmax);
  atom->add_callback(0);
  atom->add_callback(1);

  // xoriginal = initial unwrapped positions of atoms
  
  double **x = atom->x;
  int *mask = atom->mask;
  int *image = atom->image;
  int nlocal = atom->nlocal;

  double xprd = domain->xprd;
  double yprd = domain->yprd;
  double zprd = domain->zprd;
  int xbox,ybox,zbox;

  for (int i = 0; i < nlocal; i++) {
    if (mask[i] & groupbit) {
      xbox = (image[i] & 1023) - 512;
      ybox = (image[i] >> 10 & 1023) - 512;
      zbox = (image[i] >> 20) - 512;
      xoriginal[i][0] = x[i][0] + xbox*xprd;
      xoriginal[i][1] = x[i][1] + ybox*yprd;
      xoriginal[i][2] = x[i][2] + zbox*zprd;
    } else xoriginal[i][0] = xoriginal[i][1] = xoriginal[i][2] = 0.0;
  }
}

/* ---------------------------------------------------------------------- */

FixSpringSelf::~FixSpringSelf()
{
  // unregister callbacks to this fix from Atom class

  atom->delete_callback(id,0);
  atom->delete_callback(id,1);

  // delete locally stored array

  memory->destroy_2d_double_array(xoriginal);
}

/* ---------------------------------------------------------------------- */

int FixSpringSelf::setmask()
{
  int mask = 0;
  mask |= POST_FORCE;
  mask |= POST_FORCE_RESPA;
  mask |= MIN_POST_FORCE;
  return mask;
}

/* ---------------------------------------------------------------------- */

void FixSpringSelf::init()
{
  if (strcmp(update->integrate_style,"respa") == 0)
    nlevels_respa = ((Respa *) update->integrate)->nlevels;
}

/* ---------------------------------------------------------------------- */

void FixSpringSelf::setup(int vflag)
{
  if (strcmp(update->integrate_style,"verlet") == 0)
    post_force(vflag);
  else {
    ((Respa *) update->integrate)->copy_flevel_f(nlevels_respa-1);
    post_force_respa(vflag,nlevels_respa-1,0);
    ((Respa *) update->integrate)->copy_f_flevel(nlevels_respa-1);
  }
}

/* ---------------------------------------------------------------------- */

void FixSpringSelf::post_force(int vflag)
{
  double **x = atom->x;
  double **f = atom->f;
  int *mask = atom->mask;
  int *image = atom->image;
  int nlocal = atom->nlocal;

  double xprd = domain->xprd;
  double yprd = domain->yprd;
  double zprd = domain->zprd;
  int xbox,ybox,zbox;
  double dx,dy,dz;
  double espring = 0.0;

  for (int i = 0; i < nlocal; i++)
    if (mask[i] & groupbit) {
      xbox = (image[i] & 1023) - 512;
      ybox = (image[i] >> 10 & 1023) - 512;
      zbox = (image[i] >> 20) - 512;
      dx = x[i][0] + xbox*xprd - xoriginal[i][0];
      dy = x[i][1] + ybox*yprd - xoriginal[i][1];
      dz = x[i][2] + zbox*zprd - xoriginal[i][2];
      f[i][0] -= k*dx;
      f[i][1] -= k*dy;
      f[i][2] -= k*dz;
      espring += k * (dx*dx + dy*dy + dz*dz);
    }
}

/* ---------------------------------------------------------------------- */

void FixSpringSelf::post_force_respa(int vflag, int ilevel, int iloop)
{
  if (ilevel == nlevels_respa-1) post_force(vflag);
}

/* ----------------------------------------------------------------------
   energy of stretched springs
------------------------------------------------------------------------- */

double FixSpringSelf::compute_scalar()
{
  double all;
  MPI_Allreduce(&espring,&all,1,MPI_DOUBLE,MPI_SUM,world);
  return all;
}

/* ---------------------------------------------------------------------- */

void FixSpringSelf::min_post_force(int vflag)
{
  post_force(vflag);
}

/* ----------------------------------------------------------------------
   memory usage of local atom-based array
------------------------------------------------------------------------- */

double FixSpringSelf::memory_usage()
{
  double bytes = atom->nmax*3 * sizeof(double);
  return bytes;
}

/* ----------------------------------------------------------------------
   allocate atom-based array
------------------------------------------------------------------------- */

void FixSpringSelf::grow_arrays(int nmax)
{
  xoriginal =
    memory->grow_2d_double_array(xoriginal,nmax,3,"fix_spring/self:xoriginal");
}

/* ----------------------------------------------------------------------
   copy values within local atom-based array
------------------------------------------------------------------------- */

void FixSpringSelf::copy_arrays(int i, int j)
{
  xoriginal[j][0] = xoriginal[i][0];
  xoriginal[j][1] = xoriginal[i][1];
  xoriginal[j][2] = xoriginal[i][2];
}

/* ----------------------------------------------------------------------
   pack values in local atom-based array for exchange with another proc
------------------------------------------------------------------------- */

int FixSpringSelf::pack_exchange(int i, double *buf)
{
  buf[0] = xoriginal[i][0];
  buf[1] = xoriginal[i][1];
  buf[2] = xoriginal[i][2];
  return 3;
}

/* ----------------------------------------------------------------------
   unpack values in local atom-based array from exchange with another proc
------------------------------------------------------------------------- */

int FixSpringSelf::unpack_exchange(int nlocal, double *buf)
{
  xoriginal[nlocal][0] = buf[0];
  xoriginal[nlocal][1] = buf[1];
  xoriginal[nlocal][2] = buf[2];
  return 3;
}

/* ----------------------------------------------------------------------
   pack values in local atom-based arrays for restart file
------------------------------------------------------------------------- */

int FixSpringSelf::pack_restart(int i, double *buf)
{
  buf[0] = 4;
  buf[1] = xoriginal[i][0];
  buf[2] = xoriginal[i][1];
  buf[3] = xoriginal[i][2];
  return 4;
}

/* ----------------------------------------------------------------------
   unpack values from atom->extra array to restart the fix
------------------------------------------------------------------------- */

void FixSpringSelf::unpack_restart(int nlocal, int nth)
{
  double **extra = atom->extra;

  // skip to Nth set of extra values

  int m = 0;
  for (int i = 0; i < nth; i++) m += static_cast<int> (extra[nlocal][m]);
  m++;

  xoriginal[nlocal][0] = extra[nlocal][m++];
  xoriginal[nlocal][1] = extra[nlocal][m++];
  xoriginal[nlocal][2] = extra[nlocal][m++];
}

/* ----------------------------------------------------------------------
   maxsize of any atom's restart data
------------------------------------------------------------------------- */

int FixSpringSelf::maxsize_restart()
{
  return 4;
}

/* ----------------------------------------------------------------------
   size of atom nlocal's restart data
------------------------------------------------------------------------- */

int FixSpringSelf::size_restart(int nlocal)
{
  return 4;
}