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pppm_disp_tip4p.cpp
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rLAMMPS lammps
pppm_disp_tip4p.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.
------------------------------------------------------------------------- */
/* ----------------------------------------------------------------------
Contributing authors: Amalie Frischknecht and Ahmed Ismail (SNL)
Rolf Isele-Holder (Aachen University)
------------------------------------------------------------------------- */
#include <math.h>
#include "pppm_disp_tip4p.h"
#include "pppm_disp.h"
#include "atom.h"
#include "domain.h"
#include "force.h"
#include "memory.h"
#include "error.h"
#include "math_const.h"
using
namespace
LAMMPS_NS
;
using
namespace
MathConst
;
#define OFFSET 16384
#ifdef FFT_SINGLE
#define ZEROF 0.0f
#define ONEF 1.0f
#else
#define ZEROF 0.0
#define ONEF 1.0
#endif
/* ---------------------------------------------------------------------- */
PPPMDispTIP4P
::
PPPMDispTIP4P
(
LAMMPS
*
lmp
,
int
narg
,
char
**
arg
)
:
PPPMDisp
(
lmp
,
narg
,
arg
)
{
triclinic_support
=
0
;
tip4pflag
=
1
;
}
/* ---------------------------------------------------------------------- */
void
PPPMDispTIP4P
::
init
()
{
// TIP4P PPPM requires newton on, b/c it computes forces on ghost atoms
if
(
force
->
newton
==
0
)
error
->
all
(
FLERR
,
"Kspace style pppm/disp/tip4p requires newton on"
);
PPPMDisp
::
init
();
}
/* ----------------------------------------------------------------------
find center grid pt for each of my particles
check that full stencil for the particle will fit in my 3d brick
store central grid pt indices in part2grid array
------------------------------------------------------------------------- */
void
PPPMDispTIP4P
::
particle_map_c
(
double
delx
,
double
dely
,
double
delz
,
double
sft
,
int
**
p2g
,
int
nup
,
int
nlow
,
int
nxlo
,
int
nylo
,
int
nzlo
,
int
nxhi
,
int
nyhi
,
int
nzhi
)
{
int
nx
,
ny
,
nz
,
iH1
,
iH2
;
double
*
xi
,
xM
[
3
];
int
*
type
=
atom
->
type
;
double
**
x
=
atom
->
x
;
int
nlocal
=
atom
->
nlocal
;
if
(
!
ISFINITE
(
boxlo
[
0
])
||
!
ISFINITE
(
boxlo
[
1
])
||
!
ISFINITE
(
boxlo
[
2
]))
error
->
one
(
FLERR
,
"Non-numeric box dimensions - simulation unstable"
);
int
flag
=
0
;
for
(
int
i
=
0
;
i
<
nlocal
;
i
++
)
{
if
(
type
[
i
]
==
typeO
)
{
find_M
(
i
,
iH1
,
iH2
,
xM
);
xi
=
xM
;
}
else
xi
=
x
[
i
];
// (nx,ny,nz) = global coords of grid pt to "lower left" of charge
// current particle coord can be outside global and local box
// add/subtract OFFSET to avoid int(-0.75) = 0 when want it to be -1
nx
=
static_cast
<
int
>
((
xi
[
0
]
-
boxlo
[
0
])
*
delx
+
sft
)
-
OFFSET
;
ny
=
static_cast
<
int
>
((
xi
[
1
]
-
boxlo
[
1
])
*
dely
+
sft
)
-
OFFSET
;
nz
=
static_cast
<
int
>
((
xi
[
2
]
-
boxlo
[
2
])
*
delz
+
sft
)
-
OFFSET
;
p2g
[
i
][
0
]
=
nx
;
p2g
[
i
][
1
]
=
ny
;
p2g
[
i
][
2
]
=
nz
;
// check that entire stencil around nx,ny,nz will fit in my 3d brick
if
(
nx
+
nlow
<
nxlo
||
nx
+
nup
>
nxhi
||
ny
+
nlow
<
nylo
||
ny
+
nup
>
nyhi
||
nz
+
nlow
<
nzlo
||
nz
+
nup
>
nzhi
)
flag
=
1
;
}
if
(
flag
)
error
->
one
(
FLERR
,
"Out of range atoms - cannot compute PPPM"
);
}
/* ----------------------------------------------------------------------
create discretized "density" on section of global grid due to my particles
density(x,y,z) = charge "density" at grid points of my 3d brick
(nxlo:nxhi,nylo:nyhi,nzlo:nzhi) is extent of my brick (including ghosts)
in global grid
------------------------------------------------------------------------- */
void
PPPMDispTIP4P
::
make_rho_c
()
{
int
i
,
l
,
m
,
n
,
nx
,
ny
,
nz
,
mx
,
my
,
mz
,
iH1
,
iH2
;
FFT_SCALAR
dx
,
dy
,
dz
,
x0
,
y0
,
z0
;
double
*
xi
,
xM
[
3
];
// clear 3d density array
FFT_SCALAR
*
vec
=
&
density_brick
[
nzlo_out
][
nylo_out
][
nxlo_out
];
for
(
i
=
0
;
i
<
ngrid
;
i
++
)
vec
[
i
]
=
ZEROF
;
// loop over my charges, add their contribution to nearby grid points
// (nx,ny,nz) = global coords of grid pt to "lower left" of charge
// (dx,dy,dz) = distance to "lower left" grid pt
// (mx,my,mz) = global coords of moving stencil pt
int
*
type
=
atom
->
type
;
double
*
q
=
atom
->
q
;
double
**
x
=
atom
->
x
;
int
nlocal
=
atom
->
nlocal
;
for
(
int
i
=
0
;
i
<
nlocal
;
i
++
)
{
if
(
type
[
i
]
==
typeO
)
{
find_M
(
i
,
iH1
,
iH2
,
xM
);
xi
=
xM
;
}
else
xi
=
x
[
i
];
nx
=
part2grid
[
i
][
0
];
ny
=
part2grid
[
i
][
1
];
nz
=
part2grid
[
i
][
2
];
dx
=
nx
+
shiftone
-
(
xi
[
0
]
-
boxlo
[
0
])
*
delxinv
;
dy
=
ny
+
shiftone
-
(
xi
[
1
]
-
boxlo
[
1
])
*
delyinv
;
dz
=
nz
+
shiftone
-
(
xi
[
2
]
-
boxlo
[
2
])
*
delzinv
;
compute_rho1d
(
dx
,
dy
,
dz
,
order
,
rho_coeff
,
rho1d
);
z0
=
delvolinv
*
q
[
i
];
for
(
n
=
nlower
;
n
<=
nupper
;
n
++
)
{
mz
=
n
+
nz
;
y0
=
z0
*
rho1d
[
2
][
n
];
for
(
m
=
nlower
;
m
<=
nupper
;
m
++
)
{
my
=
m
+
ny
;
x0
=
y0
*
rho1d
[
1
][
m
];
for
(
l
=
nlower
;
l
<=
nupper
;
l
++
)
{
mx
=
l
+
nx
;
density_brick
[
mz
][
my
][
mx
]
+=
x0
*
rho1d
[
0
][
l
];
}
}
}
}
}
/* ----------------------------------------------------------------------
interpolate from grid to get electric field & force on my particles
for ik differentiation
------------------------------------------------------------------------- */
void
PPPMDispTIP4P
::
fieldforce_c_ik
()
{
int
i
,
l
,
m
,
n
,
nx
,
ny
,
nz
,
mx
,
my
,
mz
;
FFT_SCALAR
dx
,
dy
,
dz
,
x0
,
y0
,
z0
;
FFT_SCALAR
ekx
,
eky
,
ekz
;
double
*
xi
;
int
iH1
,
iH2
;
double
xM
[
3
];
double
fx
,
fy
,
fz
;
// loop over my charges, interpolate electric field from nearby grid points
// (nx,ny,nz) = global coords of grid pt to "lower left" of charge
// (dx,dy,dz) = distance to "lower left" grid pt
// (mx,my,mz) = global coords of moving stencil pt
// ek = 3 components of E-field on particle
double
*
q
=
atom
->
q
;
double
**
x
=
atom
->
x
;
double
**
f
=
atom
->
f
;
int
*
type
=
atom
->
type
;
int
nlocal
=
atom
->
nlocal
;
for
(
i
=
0
;
i
<
nlocal
;
i
++
)
{
if
(
type
[
i
]
==
typeO
)
{
find_M
(
i
,
iH1
,
iH2
,
xM
);
xi
=
xM
;
}
else
xi
=
x
[
i
];
nx
=
part2grid
[
i
][
0
];
ny
=
part2grid
[
i
][
1
];
nz
=
part2grid
[
i
][
2
];
dx
=
nx
+
shiftone
-
(
xi
[
0
]
-
boxlo
[
0
])
*
delxinv
;
dy
=
ny
+
shiftone
-
(
xi
[
1
]
-
boxlo
[
1
])
*
delyinv
;
dz
=
nz
+
shiftone
-
(
xi
[
2
]
-
boxlo
[
2
])
*
delzinv
;
compute_rho1d
(
dx
,
dy
,
dz
,
order
,
rho_coeff
,
rho1d
);
ekx
=
eky
=
ekz
=
ZEROF
;
for
(
n
=
nlower
;
n
<=
nupper
;
n
++
)
{
mz
=
n
+
nz
;
z0
=
rho1d
[
2
][
n
];
for
(
m
=
nlower
;
m
<=
nupper
;
m
++
)
{
my
=
m
+
ny
;
y0
=
z0
*
rho1d
[
1
][
m
];
for
(
l
=
nlower
;
l
<=
nupper
;
l
++
)
{
mx
=
l
+
nx
;
x0
=
y0
*
rho1d
[
0
][
l
];
ekx
-=
x0
*
vdx_brick
[
mz
][
my
][
mx
];
eky
-=
x0
*
vdy_brick
[
mz
][
my
][
mx
];
ekz
-=
x0
*
vdz_brick
[
mz
][
my
][
mx
];
}
}
}
// convert E-field to force
const
double
qfactor
=
force
->
qqrd2e
*
scale
*
q
[
i
];
if
(
type
[
i
]
!=
typeO
)
{
f
[
i
][
0
]
+=
qfactor
*
ekx
;
f
[
i
][
1
]
+=
qfactor
*
eky
;
if
(
slabflag
!=
2
)
f
[
i
][
2
]
+=
qfactor
*
ekz
;
}
else
{
fx
=
qfactor
*
ekx
;
fy
=
qfactor
*
eky
;
fz
=
qfactor
*
ekz
;
find_M
(
i
,
iH1
,
iH2
,
xM
);
f
[
i
][
0
]
+=
fx
*
(
1
-
alpha
);
f
[
i
][
1
]
+=
fy
*
(
1
-
alpha
);
if
(
slabflag
!=
2
)
f
[
i
][
2
]
+=
fz
*
(
1
-
alpha
);
f
[
iH1
][
0
]
+=
0.5
*
alpha
*
fx
;
f
[
iH1
][
1
]
+=
0.5
*
alpha
*
fy
;
if
(
slabflag
!=
2
)
f
[
iH1
][
2
]
+=
0.5
*
alpha
*
fz
;
f
[
iH2
][
0
]
+=
0.5
*
alpha
*
fx
;
f
[
iH2
][
1
]
+=
0.5
*
alpha
*
fy
;
if
(
slabflag
!=
2
)
f
[
iH2
][
2
]
+=
0.5
*
alpha
*
fz
;
}
}
}
/* ----------------------------------------------------------------------
interpolate from grid to get electric field & force on my particles
for ad scheme
------------------------------------------------------------------------- */
void
PPPMDispTIP4P
::
fieldforce_c_ad
()
{
int
i
,
l
,
m
,
n
,
nx
,
ny
,
nz
,
mx
,
my
,
mz
;
FFT_SCALAR
dx
,
dy
,
dz
;
FFT_SCALAR
ekx
,
eky
,
ekz
;
double
*
xi
;
int
iH1
,
iH2
;
double
xM
[
3
];
double
s1
,
s2
,
s3
;
double
*
prd
;
double
fx
,
fy
,
fz
;
double
sf
;
if
(
triclinic
==
0
)
prd
=
domain
->
prd
;
else
prd
=
domain
->
prd_lamda
;
double
xprd
=
prd
[
0
];
double
yprd
=
prd
[
1
];
double
zprd
=
prd
[
2
];
double
zprd_slab
=
zprd
*
slab_volfactor
;
double
hx_inv
=
nx_pppm
/
xprd
;
double
hy_inv
=
ny_pppm
/
yprd
;
double
hz_inv
=
nz_pppm
/
zprd_slab
;
// loop over my charges, interpolate electric field from nearby grid points
// (nx,ny,nz) = global coords of grid pt to "lower left" of charge
// (dx,dy,dz) = distance to "lower left" grid pt
// (mx,my,mz) = global coords of moving stencil pt
// ek = 3 components of E-field on particle
double
*
q
=
atom
->
q
;
double
**
x
=
atom
->
x
;
double
**
f
=
atom
->
f
;
int
*
type
=
atom
->
type
;
int
nlocal
=
atom
->
nlocal
;
for
(
i
=
0
;
i
<
nlocal
;
i
++
)
{
if
(
type
[
i
]
==
typeO
)
{
find_M
(
i
,
iH1
,
iH2
,
xM
);
xi
=
xM
;
}
else
xi
=
x
[
i
];
nx
=
part2grid
[
i
][
0
];
ny
=
part2grid
[
i
][
1
];
nz
=
part2grid
[
i
][
2
];
dx
=
nx
+
shiftone
-
(
xi
[
0
]
-
boxlo
[
0
])
*
delxinv
;
dy
=
ny
+
shiftone
-
(
xi
[
1
]
-
boxlo
[
1
])
*
delyinv
;
dz
=
nz
+
shiftone
-
(
xi
[
2
]
-
boxlo
[
2
])
*
delzinv
;
compute_rho1d
(
dx
,
dy
,
dz
,
order
,
rho_coeff
,
rho1d
);
compute_drho1d
(
dx
,
dy
,
dz
,
order
,
drho_coeff
,
drho1d
);
ekx
=
eky
=
ekz
=
ZEROF
;
for
(
n
=
nlower
;
n
<=
nupper
;
n
++
)
{
mz
=
n
+
nz
;
for
(
m
=
nlower
;
m
<=
nupper
;
m
++
)
{
my
=
m
+
ny
;
for
(
l
=
nlower
;
l
<=
nupper
;
l
++
)
{
mx
=
l
+
nx
;
ekx
+=
drho1d
[
0
][
l
]
*
rho1d
[
1
][
m
]
*
rho1d
[
2
][
n
]
*
u_brick
[
mz
][
my
][
mx
];
eky
+=
rho1d
[
0
][
l
]
*
drho1d
[
1
][
m
]
*
rho1d
[
2
][
n
]
*
u_brick
[
mz
][
my
][
mx
];
ekz
+=
rho1d
[
0
][
l
]
*
rho1d
[
1
][
m
]
*
drho1d
[
2
][
n
]
*
u_brick
[
mz
][
my
][
mx
];
}
}
}
ekx
*=
hx_inv
;
eky
*=
hy_inv
;
ekz
*=
hz_inv
;
// convert E-field to force and substract self forces
const
double
qfactor
=
force
->
qqrd2e
*
scale
;
s1
=
x
[
i
][
0
]
*
hx_inv
;
s2
=
x
[
i
][
1
]
*
hy_inv
;
s3
=
x
[
i
][
2
]
*
hz_inv
;
sf
=
sf_coeff
[
0
]
*
sin
(
2
*
MY_PI
*
s1
);
sf
+=
sf_coeff
[
1
]
*
sin
(
4
*
MY_PI
*
s1
);
sf
*=
2
*
q
[
i
]
*
q
[
i
];
fx
=
qfactor
*
(
ekx
*
q
[
i
]
-
sf
);
sf
=
sf_coeff
[
2
]
*
sin
(
2
*
MY_PI
*
s2
);
sf
+=
sf_coeff
[
3
]
*
sin
(
4
*
MY_PI
*
s2
);
sf
*=
2
*
q
[
i
]
*
q
[
i
];
fy
=
qfactor
*
(
eky
*
q
[
i
]
-
sf
);
sf
=
sf_coeff
[
4
]
*
sin
(
2
*
MY_PI
*
s3
);
sf
+=
sf_coeff
[
5
]
*
sin
(
4
*
MY_PI
*
s3
);
sf
*=
2
*
q
[
i
]
*
q
[
i
];
fz
=
qfactor
*
(
ekz
*
q
[
i
]
-
sf
);
if
(
type
[
i
]
!=
typeO
)
{
f
[
i
][
0
]
+=
fx
;
f
[
i
][
1
]
+=
fy
;
if
(
slabflag
!=
2
)
f
[
i
][
2
]
+=
fz
;
}
else
{
find_M
(
i
,
iH1
,
iH2
,
xM
);
f
[
i
][
0
]
+=
fx
*
(
1
-
alpha
);
f
[
i
][
1
]
+=
fy
*
(
1
-
alpha
);
if
(
slabflag
!=
2
)
f
[
i
][
2
]
+=
fz
*
(
1
-
alpha
);
f
[
iH1
][
0
]
+=
0.5
*
alpha
*
fx
;
f
[
iH1
][
1
]
+=
0.5
*
alpha
*
fy
;
if
(
slabflag
!=
2
)
f
[
iH1
][
2
]
+=
0.5
*
alpha
*
fz
;
f
[
iH2
][
0
]
+=
0.5
*
alpha
*
fx
;
f
[
iH2
][
1
]
+=
0.5
*
alpha
*
fy
;
if
(
slabflag
!=
2
)
f
[
iH2
][
2
]
+=
0.5
*
alpha
*
fz
;
}
}
}
/* ----------------------------------------------------------------------
interpolate from grid to get electric field & force on my particles
------------------------------------------------------------------------- */
void
PPPMDispTIP4P
::
fieldforce_c_peratom
()
{
int
i
,
l
,
m
,
n
,
nx
,
ny
,
nz
,
mx
,
my
,
mz
;
FFT_SCALAR
dx
,
dy
,
dz
,
x0
,
y0
,
z0
;
double
*
xi
;
int
iH1
,
iH2
;
double
xM
[
3
];
FFT_SCALAR
u_pa
,
v0
,
v1
,
v2
,
v3
,
v4
,
v5
;
// loop over my charges, interpolate electric field from nearby grid points
// (nx,ny,nz) = global coords of grid pt to "lower left" of charge
// (dx,dy,dz) = distance to "lower left" grid pt
// (mx,my,mz) = global coords of moving stencil pt
// ek = 3 components of E-field on particle
double
*
q
=
atom
->
q
;
double
**
x
=
atom
->
x
;
int
*
type
=
atom
->
type
;
int
nlocal
=
atom
->
nlocal
;
for
(
i
=
0
;
i
<
nlocal
;
i
++
)
{
if
(
type
[
i
]
==
typeO
)
{
find_M
(
i
,
iH1
,
iH2
,
xM
);
xi
=
xM
;
}
else
xi
=
x
[
i
];
nx
=
part2grid
[
i
][
0
];
ny
=
part2grid
[
i
][
1
];
nz
=
part2grid
[
i
][
2
];
dx
=
nx
+
shiftone
-
(
xi
[
0
]
-
boxlo
[
0
])
*
delxinv
;
dy
=
ny
+
shiftone
-
(
xi
[
1
]
-
boxlo
[
1
])
*
delyinv
;
dz
=
nz
+
shiftone
-
(
xi
[
2
]
-
boxlo
[
2
])
*
delzinv
;
compute_rho1d
(
dx
,
dy
,
dz
,
order
,
rho_coeff
,
rho1d
);
u_pa
=
v0
=
v1
=
v2
=
v3
=
v4
=
v5
=
ZEROF
;
for
(
n
=
nlower
;
n
<=
nupper
;
n
++
)
{
mz
=
n
+
nz
;
z0
=
rho1d
[
2
][
n
];
for
(
m
=
nlower
;
m
<=
nupper
;
m
++
)
{
my
=
m
+
ny
;
y0
=
z0
*
rho1d
[
1
][
m
];
for
(
l
=
nlower
;
l
<=
nupper
;
l
++
)
{
mx
=
l
+
nx
;
x0
=
y0
*
rho1d
[
0
][
l
];
if
(
eflag_atom
)
u_pa
+=
x0
*
u_brick
[
mz
][
my
][
mx
];
if
(
vflag_atom
)
{
v0
+=
x0
*
v0_brick
[
mz
][
my
][
mx
];
v1
+=
x0
*
v1_brick
[
mz
][
my
][
mx
];
v2
+=
x0
*
v2_brick
[
mz
][
my
][
mx
];
v3
+=
x0
*
v3_brick
[
mz
][
my
][
mx
];
v4
+=
x0
*
v4_brick
[
mz
][
my
][
mx
];
v5
+=
x0
*
v5_brick
[
mz
][
my
][
mx
];
}
}
}
}
const
double
qfactor
=
0.5
*
force
->
qqrd2e
*
scale
*
q
[
i
];
if
(
eflag_atom
)
{
if
(
type
[
i
]
!=
typeO
)
{
eatom
[
i
]
+=
qfactor
*
u_pa
;
}
else
{
eatom
[
i
]
+=
qfactor
*
u_pa
*
(
1
-
alpha
);
eatom
[
iH1
]
+=
qfactor
*
u_pa
*
alpha
*
0.5
;
eatom
[
iH2
]
+=
qfactor
*
u_pa
*
alpha
*
0.5
;
}
}
if
(
vflag_atom
)
{
if
(
type
[
i
]
!=
typeO
)
{
vatom
[
i
][
0
]
+=
v0
*
qfactor
;
vatom
[
i
][
1
]
+=
v1
*
qfactor
;
vatom
[
i
][
2
]
+=
v2
*
qfactor
;
vatom
[
i
][
3
]
+=
v3
*
qfactor
;
vatom
[
i
][
4
]
+=
v4
*
qfactor
;
vatom
[
i
][
5
]
+=
v5
*
qfactor
;
}
else
{
vatom
[
i
][
0
]
+=
v0
*
(
1
-
alpha
)
*
qfactor
;
vatom
[
i
][
1
]
+=
v1
*
(
1
-
alpha
)
*
qfactor
;
vatom
[
i
][
2
]
+=
v2
*
(
1
-
alpha
)
*
qfactor
;
vatom
[
i
][
3
]
+=
v3
*
(
1
-
alpha
)
*
qfactor
;
vatom
[
i
][
4
]
+=
v4
*
(
1
-
alpha
)
*
qfactor
;
vatom
[
i
][
5
]
+=
v5
*
(
1
-
alpha
)
*
qfactor
;
vatom
[
iH1
][
0
]
+=
v0
*
alpha
*
0.5
*
qfactor
;
vatom
[
iH1
][
1
]
+=
v1
*
alpha
*
0.5
*
qfactor
;
vatom
[
iH1
][
2
]
+=
v2
*
alpha
*
0.5
*
qfactor
;
vatom
[
iH1
][
3
]
+=
v3
*
alpha
*
0.5
*
qfactor
;
vatom
[
iH1
][
4
]
+=
v4
*
alpha
*
0.5
*
qfactor
;
vatom
[
iH1
][
5
]
+=
v5
*
alpha
*
0.5
*
qfactor
;
vatom
[
iH2
][
0
]
+=
v0
*
alpha
*
0.5
*
qfactor
;
vatom
[
iH2
][
1
]
+=
v1
*
alpha
*
0.5
*
qfactor
;
vatom
[
iH2
][
2
]
+=
v2
*
alpha
*
0.5
*
qfactor
;
vatom
[
iH2
][
3
]
+=
v3
*
alpha
*
0.5
*
qfactor
;
vatom
[
iH2
][
4
]
+=
v4
*
alpha
*
0.5
*
qfactor
;
vatom
[
iH2
][
5
]
+=
v5
*
alpha
*
0.5
*
qfactor
;
}
}
}
}
/* ----------------------------------------------------------------------
find 2 H atoms bonded to O atom i
compute position xM of fictitious charge site for O atom
also return local indices iH1,iH2 of H atoms
------------------------------------------------------------------------- */
void
PPPMDispTIP4P
::
find_M
(
int
i
,
int
&
iH1
,
int
&
iH2
,
double
*
xM
)
{
iH1
=
atom
->
map
(
atom
->
tag
[
i
]
+
1
);
iH2
=
atom
->
map
(
atom
->
tag
[
i
]
+
2
);
if
(
iH1
==
-
1
||
iH2
==
-
1
)
error
->
one
(
FLERR
,
"TIP4P hydrogen is missing"
);
if
(
atom
->
type
[
iH1
]
!=
typeH
||
atom
->
type
[
iH2
]
!=
typeH
)
error
->
one
(
FLERR
,
"TIP4P hydrogen has incorrect atom type"
);
double
**
x
=
atom
->
x
;
double
delx1
=
x
[
iH1
][
0
]
-
x
[
i
][
0
];
double
dely1
=
x
[
iH1
][
1
]
-
x
[
i
][
1
];
double
delz1
=
x
[
iH1
][
2
]
-
x
[
i
][
2
];
domain
->
minimum_image
(
delx1
,
dely1
,
delz1
);
double
delx2
=
x
[
iH2
][
0
]
-
x
[
i
][
0
];
double
dely2
=
x
[
iH2
][
1
]
-
x
[
i
][
1
];
double
delz2
=
x
[
iH2
][
2
]
-
x
[
i
][
2
];
domain
->
minimum_image
(
delx2
,
dely2
,
delz2
);
xM
[
0
]
=
x
[
i
][
0
]
+
alpha
*
0.5
*
(
delx1
+
delx2
);
xM
[
1
]
=
x
[
i
][
1
]
+
alpha
*
0.5
*
(
dely1
+
dely2
);
xM
[
2
]
=
x
[
i
][
2
]
+
alpha
*
0.5
*
(
delz1
+
delz2
);
}
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