Exemple #1
0
/* solve natural mobility problem with fixed particles in FT version
 * without HI
 * for both periodic and non-periodic boundary conditions
 * INPUT
 *  sys : system parameters
 *  f [nm * 3] :
 *  t [nm * 3] :
 *  uf [nf * 3] :
 *  of [nf * 3] :
 * OUTPUT
 *  u [nm * 3] :
 *  o [nm * 3] :
 *  ff [nf * 3] :
 *  tf [nf * 3] :
 */
void
solve_mix_3ft_noHI (struct stokes *sys,
		    const double *f, const double *t,
		    const double *uf, const double *of,
		    double *u, double *o,
		    double *ff, double *tf)
{
  if (sys->version != 1)
    {
      fprintf (stderr, "libstokes solve_mix_3ft_noHI :"
	       " the version is wrong. reset to FT\n");
      sys->version = 1;
    }

  int np = sys->np;
  int nm = sys->nm;
  int i;

  // for fixed particles
  int nf = np - nm;
  if (nf > 0)
    {
      double *uf0 = (double *) malloc (sizeof (double) * nf * 3);
      double *of0 = (double *) malloc (sizeof (double) * nf * 3);
      CHECK_MALLOC (uf0, "solve_mix_3ft_noHI");
      CHECK_MALLOC (of0, "solve_mix_3ft_noHI");

      shift_labo_to_rest_U (sys, nf, uf, uf0);
      shift_labo_to_rest_O (sys, nf, of, of0);
      /* the main calculation is done in the the fluid-rest frame;
       * u(x)=0 as |x|-> infty */
      for (i = 0; i < nf * 3; i ++)
	{
	  ff[i] = uf0[i];
	  tf[i] = of0[i] / 0.75;
	}
      free (uf0);
      free (of0);
    }

  // for mobile particles
  for (i = 0; i < nm * 3; i ++)
    {
      u[i] = f[i];
      o[i] = t[i] * 0.75;
    }
  /* for the interface, we are in the labo frame, that is
   * u(x) is given by the imposed flow field as |x|-> infty */
  shift_rest_to_labo_U (sys, nm, u);
  shift_rest_to_labo_O (sys, nm, o);
}
Exemple #2
0
/* solve natural mobility problem in FT version
 * for both periodic and non-periodic boundary conditions
 * INPUT
 *  sys : system parameters
 *   f [np * 3] :
 *   t [np * 3] :
 * OUTPUT
 *   u [np * 3] :
 *   o [np * 3] :
 */
void
solve_mob_3ft_matrix (struct stokes * sys,
		      const double *f, const double *t,
		      double *u, double *o)
{
  if (sys->version != 1)
    {
      fprintf (stderr, "libstokes solve_mob_3ft_matrix :"
	       " the version is wrong. reset to FT\n");
      sys->version = 1;
    }

  int np = sys->np;
  int n6 = np * 6;

  double *mat = (double *)malloc (sizeof (double) * n6 * n6);
  double *b = (double *)malloc (sizeof (double) * n6);
  double *x = (double *)malloc (sizeof (double) * n6);
  CHECK_MALLOC (mat, "solve_mob_3ft_matrix");
  CHECK_MALLOC (b, "solve_mob_3ft_matrix");
  CHECK_MALLOC (x, "solve_mob_3ft_matrix");

  /* the main calculation is done in the the fluid-rest frame;
   * u(x)=0 as |x|-> infty */

  /* b := (FTE) */
  set_ft_by_FT (np, b, f, t);

  // M
  make_matrix_mob_3all (sys, mat); // sys->version is 1 (FT)
  // x = M.b
  dot_prod_matrix (mat, n6, n6, b, x);

  set_FT_by_ft (np, u, o, x);

  free (mat);
  free (b);
  free (x);

  /* for the interface, we are in the labo frame, that is
   * u(x) is given by the imposed flow field as |x|-> infty */
  shift_rest_to_labo_U (sys, sys->np, u);
  shift_rest_to_labo_O (sys, sys->np, o);
}
Exemple #3
0
/* solve natural mobility problem with lubrication
 * with fixed particles in FT version
 * for both periodic and non-periodic boundary conditions
 * INPUT
 *  sys : system parameters
 *   f [nm * 3] :
 *   t [nm * 3] :
 *   uf [nf * 3] :
 *   of [nf * 3] :
 * OUTPUT
 *   u [nm * 3] :
 *   o [nm * 3] :
 *   ff [nf * 3] :
 *   tf [nf * 3] :
 */
void
solve_mix_lub_3ft_matrix (struct stokes * sys,
			  const double *f, const double *t,
			  const double *uf, const double *of,
			  double *u, double *o,
			  double *ff, double *tf)
{
  if (sys->version != 1)
    {
      fprintf (stderr, "libstokes solve_mix_lub_3ft_matrix :"
	       " the version is wrong. reset to FT\n");
      sys->version = 1;
    }

  int np = sys->np;
  int nm = sys->nm;
  if (np == nm)
    {
      solve_mob_lub_3ft_matrix (sys, f, t,
				u, o);
      return;
    }

  int n6 = np * 6;
  int nf = np - nm;
  int nm6 = nm * 6;
  int nl = nm * 6;
  int nh = n6 - nl;

  double *uf0 = (double *) malloc (sizeof (double) * nf * 3);
  double *of0 = (double *) malloc (sizeof (double) * nf * 3);
  double *mat = (double *) malloc (sizeof (double) * n6 * n6);
  double *lub = (double *) malloc (sizeof (double) * n6 * n6);
  double *tmp = (double *) malloc (sizeof (double) * n6 * n6);
  double *mat_ll = (double *) malloc (sizeof (double) * nl * nl);
  double *mat_lh = (double *) malloc (sizeof (double) * nl * nh);
  double *mat_hl = (double *) malloc (sizeof (double) * nh * nl);
  double *mat_hh = (double *) malloc (sizeof (double) * nh * nh);
  double *mob_ll = (double *) malloc (sizeof (double) * nl * nl);
  double *mob_lh = (double *) malloc (sizeof (double) * nl * nh);
  double *mob_hl = (double *) malloc (sizeof (double) * nh * nl);
  double *mob_hh = (double *) malloc (sizeof (double) * nh * nh);
  double *b = (double *) malloc (sizeof (double) * n6);
  double *x = (double *) malloc (sizeof (double) * n6);
  CHECK_MALLOC (uf0, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (of0, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (mat, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (lub, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (tmp, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (mat_ll, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (mat_lh, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (mat_hl, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (mat_hh, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (mob_ll, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (mob_lh, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (mob_hl, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (mob_hh, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (b, "solve_mix_lub_3ft_matrix");
  CHECK_MALLOC (x, "solve_mix_lub_3ft_matrix");

  shift_labo_to_rest_U (sys, nf, uf, uf0);
  shift_labo_to_rest_O (sys, nf, of, of0);
  /* the main calculation is done in the the fluid-rest frame;
   * u(x)=0 as |x|-> infty */

  /* b := (FT,UfOf) */
  set_ft_by_FT (nm, b, f, t);
  set_ft_by_FT (nf, b + nm6, uf0, of0);
  free (uf0);
  free (of0);

  /* mob */
  make_matrix_mob_3all (sys, mat); // sys->version is 1 (FT)
  split_matrix_fix_3ft (np, nm, mat, mat_ll, mat_lh, mat_hl, mat_hh);

  /* lub */
  make_matrix_lub_3ft (sys, lub);
  /* tmp := M.L */
  mul_matrices (mat, n6, n6, lub, n6, n6, tmp);
  /* note: at this point, lub[] is free to use.
   * so that I_?? use lub [] */
  double *I_ll = lub;
  double *I_lh = I_ll + nl * nl;
  double *I_hl = I_lh + nl * nh;
  double *I_hh = I_hl + nh * nl;

  /* tmp := I + (M.T).(L.T) */
  int i;
  for (i = 0; i < n6; ++i)
    {
      tmp [i * n6 + i] += 1.0;
    }
  split_matrix_fix_3ft (np, nm, tmp, I_ll, I_lh, I_hl, I_hh);
  free (tmp);

  solve_gen_linear (nl, nh,
		    I_ll, I_lh, I_hl, I_hh,
		    mat_ll, mat_lh, mat_hl, mat_hh,
		    mob_ll, mob_lh, mob_hl, mob_hh);
  /* note: at this point, I_??, therefore lub[], is free to use. */
  free (lub);

  merge_matrix_fix_3ft (np, nm, mob_ll, mob_lh, mob_hl, mob_hh, mat);
  dot_prod_matrix (mat, n6, n6,
		   b, x);

  set_FT_by_ft (nm, u, o, x);
  set_FT_by_ft (nf, ff, tf, x + nm6);

  free (mat);
  free (mat_ll);
  free (mat_lh);
  free (mat_hl);
  free (mat_hh);
  free (mob_ll);
  free (mob_lh);
  free (mob_hl);
  free (mob_hh);
  free (b);
  free (x);

  /* for the interface, we are in the labo frame, that is
   * u(x) is given by the imposed flow field as |x|-> infty */
  shift_rest_to_labo_U (sys, nm, u);
  shift_rest_to_labo_O (sys, nm, o);
}
Exemple #4
0
/* solve natural mobility problem with lubrication
 * with fixed particles in FT version
 * for both periodic and non-periodic boundary conditions
 * INPUT
 *  sys : system parameters
 *   f [nm * 3] :
 *   t [nm * 3] :
 *   uf [nf * 3] :
 *   of [nf * 3] :
 * OUTPUT
 *   u [nm * 3] :
 *   o [nm * 3] :
 *   ff [nf * 3] :
 *   tf [nf * 3] :
 */
void
solve_mix_3ft_matrix (struct stokes * sys,
		      const double *f, const double *t,
		      const double *uf, const double *of,
		      double *u, double *o,
		      double *ff, double *tf)
{
  if (sys->version != 1)
    {
      fprintf (stderr, "libstokes solve_mix_3ft_matrix :"
	       " the version is wrong. reset to FT\n");
      sys->version = 1;
    }

  int np = sys->np;
  int nm = sys->nm;
  if (np == nm)
    {
      solve_mob_3ft_matrix (sys, f, t,
			    u, o);
      return;
    }

  int n6 = np * 6;
  int nf = np - nm;
  int nm6 = nm * 6;
  int nl = nm * 6;
  int nh = n6 - nl;

  double *uf0 = (double *) malloc (sizeof (double) * nf * 3);
  double *of0 = (double *) malloc (sizeof (double) * nf * 3);
  double *mat    = (double *) malloc (sizeof (double) * n6 * n6);
  double *mat_ll = (double *) malloc (sizeof (double) * nl * nl);
  double *mat_lh = (double *) malloc (sizeof (double) * nl * nh);
  double *mat_hl = (double *) malloc (sizeof (double) * nh * nl);
  double *mat_hh = (double *) malloc (sizeof (double) * nh * nh);
  double *mob_ll = (double *) malloc (sizeof (double) * nl * nl);
  double *mob_lh = (double *) malloc (sizeof (double) * nl * nh);
  double *mob_hl = (double *) malloc (sizeof (double) * nh * nl);
  double *mob_hh = (double *) malloc (sizeof (double) * nh * nh);
  double *b = (double *) malloc (sizeof (double) * n6);
  double *x = (double *) malloc (sizeof (double) * n6);
  CHECK_MALLOC (uf0, "solve_mix_3ft_matrix");
  CHECK_MALLOC (of0, "solve_mix_3ft_matrix");
  CHECK_MALLOC (mat, "solve_mix_3ft_matrix");
  CHECK_MALLOC (mat_ll, "solve_mix_3ft_matrix");
  CHECK_MALLOC (mat_lh, "solve_mix_3ft_matrix");
  CHECK_MALLOC (mat_hl, "solve_mix_3ft_matrix");
  CHECK_MALLOC (mat_hh, "solve_mix_3ft_matrix");
  CHECK_MALLOC (mob_ll, "solve_mix_3ft_matrix");
  CHECK_MALLOC (mob_lh, "solve_mix_3ft_matrix");
  CHECK_MALLOC (mob_hl, "solve_mix_3ft_matrix");
  CHECK_MALLOC (mob_hh, "solve_mix_3ft_matrix");
  CHECK_MALLOC (b, "solve_mix_3ft_matrix");
  CHECK_MALLOC (x, "solve_mix_3ft_matrix");

  shift_labo_to_rest_U (sys, nf, uf, uf0);
  shift_labo_to_rest_O (sys, nf, of, of0);
  /* the main calculation is done in the the fluid-rest frame;
   * u(x)=0 as |x|-> infty */

  /* b := (FT,UfOf) */
  set_ft_by_FT (nm, b, f, t);
  //set_ft_by_FT (nf, b + nm6, uf, of);
  set_ft_by_FT (nf, b + nm6, uf0, of0);
  free (uf0);
  free (of0);

  /* mobility matrix in EXTRACTED form */
  make_matrix_mob_3all (sys, mat); // sys->version is 1 (FT)
  split_matrix_fix_3ft (np, nm, mat, mat_ll, mat_lh, mat_hl, mat_hh);

  solve_linear (nh, nl,
		mat_hh, mat_hl, mat_lh, mat_ll,
		mob_hh, mob_hl, mob_lh, mob_ll);

  merge_matrix_fix_3ft (np, nm, mob_ll, mob_lh, mob_hl, mob_hh, mat);
  dot_prod_matrix (mat, n6, n6,
		   b, x);

  set_FT_by_ft (nm, u, o, x);
  set_FT_by_ft (nf, ff, tf, x + nm6);

  free (mat);
  free (mat_ll);
  free (mat_lh);
  free (mat_hl);
  free (mat_hh);
  free (mob_ll);
  free (mob_lh);
  free (mob_hl);
  free (mob_hh);
  free (b);
  free (x);

  /* for the interface, we are in the labo frame, that is
   * u(x) is given by the imposed flow field as |x|-> infty */
  shift_rest_to_labo_U (sys, nm, u);
  shift_rest_to_labo_O (sys, nm, o);
}
Exemple #5
0
/* solve natural mobility problem in FT version
 * for both periodic and non-periodic boundary conditions
 * INPUT
 *  sys : system parameters
 *   f [np * 3] :
 *   t [np * 3] :
 * OUTPUT
 *   u [np * 3] :
 *   o [np * 3] :
 */
void
solve_mob_lub_3ft_matrix (struct stokes * sys,
			  const double *f, const double *t,
			  double *u, double *o)
{
  if (sys->version != 1)
    {
      fprintf (stderr, "libstokes solve_mob_lub_3ft_matrix :"
	       " the version is wrong. reset to FT\n");
      sys->version = 1;
    }

  int np = sys->np;
  int n6 = np * 6;

  double *mat = (double *) malloc (sizeof (double) * n6 * n6);
  double *lub = (double *) malloc (sizeof (double) * n6 * n6);
  double *iml = (double *) malloc (sizeof (double) * n6 * n6);
  double *b = (double *) malloc (sizeof (double) * n6);
  double *x = (double *) malloc (sizeof (double) * n6);
  CHECK_MALLOC (mat, "solve_mob_lub_3ft_matrix");
  CHECK_MALLOC (lub, "solve_mob_lub_3ft_matrix");
  CHECK_MALLOC (iml, "solve_mob_lub_3ft_matrix");
  CHECK_MALLOC (b, "solve_mob_lub_3ft_matrix");
  CHECK_MALLOC (x, "solve_mob_lub_3ft_matrix");

  /* the main calculation is done in the the fluid-rest frame;
   * u(x)=0 as |x|-> infty */

  // M
  make_matrix_mob_3all (sys, mat); // sys->version is 1 (FT)
  // L
  make_matrix_lub_3ft (sys, lub);
  // IML := M.L
  mul_matrices (mat, n6, n6,
		lub, n6, n6,
		iml);
  free (lub);

  /* b := (FT) */
  set_ft_by_FT (np, b, f, t);
  // x := M.(FT)
  dot_prod_matrix (mat, n6, n6, b, x);

  // IML = I + M.L
  int i;
  for (i = 0; i < n6; ++i)
    {
      iml [i * n6 + i] += 1.0;
    }
  // b := (I+M.L)^-1.M.(FT)
  /*
  // IML^-1
  lapack_inv_ (n6, iml);
  dot_prod_matrix (iml, n6, n6, x, b);
  */
  lapack_solve_lin (n6, iml, x, b);

  set_FT_by_ft (np, u, o, b);

  free (mat);
  free (iml);
  free (b);
  free (x);

  /* for the interface, we are in the labo frame, that is
   * u(x) is given by the imposed flow field as |x|-> infty */
  shift_rest_to_labo_U (sys, sys->np, u);
  shift_rest_to_labo_O (sys, sys->np, o);
}