git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@7146 f3b2605a-c512-4ea7-a41b-209d697bcdaa

This commit is contained in:
sjplimp
2011-10-20 14:56:49 +00:00
parent 83b55b844c
commit ca8dfd3d7c
11 changed files with 1688 additions and 568 deletions

View File

@ -19,6 +19,8 @@
#include "math_extra.h"
#include "atom.h"
#include "atom_vec_ellipsoid.h"
#include "atom_vec_line.h"
#include "atom_vec_tri.h"
#include "domain.h"
#include "update.h"
#include "respa.h"
@ -28,14 +30,20 @@
#include "random_mars.h"
#include "force.h"
#include "output.h"
#include "math_const.h"
#include "memory.h"
#include "error.h"
using namespace LAMMPS_NS;
using namespace MathConst;
#define TOLERANCE 1.0e-6
#define EPSILON 1.0e-7
#define SINERTIA 0.4 // moment of inertia prefactor for sphere
#define EINERTIA 0.4 // moment of inertia prefactor for ellipsoid
#define LINERTIA (1.0/12.0) // moment of inertia prefactor for line segment
/* ---------------------------------------------------------------------- */
FixRigid::FixRigid(LAMMPS *lmp, int narg, char **arg) :
@ -56,12 +64,12 @@ FixRigid::FixRigid(LAMMPS *lmp, int narg, char **arg) :
// perform initial allocation of atom-based arrays
// register with Atom class
extended = dorientflag = qorientflag = 0;
extended = orientflag = dorientflag = 0;
body = NULL;
displace = NULL;
eflags = NULL;
orient = NULL;
dorient = NULL;
qorient = NULL;
grow_arrays(atom->nmax);
atom->add_callback(0);
@ -278,7 +286,7 @@ FixRigid::FixRigid(LAMMPS *lmp, int narg, char **arg) :
else error->all(FLERR,"Illegal fix rigid command");
if (domain->dimension == 2 && (xflag == 1.0 || yflag == 1.0))
error->all(FLERR,"Fix rigid xy torque cannot be on for 2d simulation");
error->all(FLERR,"Fix rigid xy torque cannot be on for 2d simulation");
int count = 0;
for (int m = mlo; m <= mhi; m++) {
@ -384,18 +392,24 @@ FixRigid::FixRigid(LAMMPS *lmp, int narg, char **arg) :
// bitmasks for properties of extended particles
INERTIA_POINT = 1;
INERTIA_SPHERE = 2;
INERTIA_ELLIPSOID = 4;
ORIENT_DIPOLE = 8;
ORIENT_QUAT = 16;
OMEGA = 32;
ANGMOM = 64;
TORQUE = 128;
POINT = 1;
SPHERE = 2;
ELLIPSOID = 4;
LINE = 8;
TRIANGLE = 16;
DIPOLE = 32;
OMEGA = 64;
ANGMOM = 128;
TORQUE = 256;
MINUSPI = -MY_PI;
TWOPI = 2.0*MY_PI;
// atom style pointers to particles that store extra info
avec_ellipsoid = (AtomVecEllipsoid *) atom->style_match("ellipsoid");
avec_line = (AtomVecLine *) atom->style_match("line");
avec_tri = (AtomVecTri *) atom->style_match("tri");
// print statistics
@ -423,8 +437,8 @@ FixRigid::~FixRigid()
memory->destroy(body);
memory->destroy(displace);
memory->destroy(eflags);
memory->destroy(orient);
memory->destroy(dorient);
memory->destroy(qorient);
// delete nbody-length arrays
@ -469,7 +483,7 @@ int FixRigid::setmask()
void FixRigid::init()
{
int i,ibody;
int i,itype,ibody;
triclinic = domain->triclinic;
@ -504,24 +518,33 @@ void FixRigid::init()
// extended = 1 if any particle in a rigid body is finite size
// or has a dipole moment
extended = dorientflag = qorientflag = 0;
extended = orientflag = dorientflag = 0;
AtomVecEllipsoid::Bonus *ebonus;
if (avec_ellipsoid) ebonus = avec_ellipsoid->bonus;
AtomVecLine::Bonus *lbonus;
if (avec_line) lbonus = avec_line->bonus;
AtomVecTri::Bonus *tbonus;
if (avec_tri) tbonus = avec_tri->bonus;
double **mu = atom->mu;
double *radius = atom->radius;
double *rmass = atom->rmass;
double *mass = atom->mass;
int *ellipsoid = atom->ellipsoid;
int *line = atom->line;
int *tri = atom->tri;
int *type = atom->type;
int nlocal = atom->nlocal;
if (atom->radius_flag || atom->ellipsoid_flag || atom->mu_flag) {
if (atom->radius_flag || atom->ellipsoid_flag || atom->line_flag ||
atom->tri_flag || atom->mu_flag) {
int flag = 0;
for (i = 0; i < nlocal; i++) {
if (body[i] < 0) continue;
if (radius && radius[i] > 0.0) flag = 1;
if (ellipsoid && ellipsoid[i] >= 0) flag = 1;
if (line && line[i] >= 0) flag = 1;
if (tri && tri[i] >= 0) flag = 1;
if (mu && mu[i][3] > 0.0) flag = 1;
}
@ -529,35 +552,45 @@ void FixRigid::init()
}
// grow extended arrays and set extended flags for each particle
// qorientflag = 1 if any particle stores quat orientation
// orientflag = 4 if any particle stores ellipsoid or tri orientation
// orientflag = 1 if any particle stores line orientation
// dorientflag = 1 if any particle stores dipole orientation
if (extended) {
if (atom->ellipsoid_flag) orientflag = 4;
if (atom->line_flag) orientflag = 1;
if (atom->tri_flag) orientflag = 4;
if (atom->mu_flag) dorientflag = 1;
if (atom->ellipsoid_flag) qorientflag = 1;
grow_arrays(atom->nmax);
for (i = 0; i < nlocal; i++) {
eflags[i] = 0;
if (body[i] < 0) continue;
// set INERTIA to POINT or SPHERE or ELLIPSOID
// set to POINT or SPHERE or ELLIPSOID or LINE
if (radius && radius[i] > 0.0) {
eflags[i] |= INERTIA_SPHERE;
eflags[i] |= SPHERE;
eflags[i] |= OMEGA;
eflags[i] |= TORQUE;
} else if (ellipsoid && ellipsoid[i] >= 0) {
eflags[i] |= INERTIA_ELLIPSOID;
eflags[i] |= ORIENT_QUAT;
eflags[i] |= ELLIPSOID;
eflags[i] |= ANGMOM;
eflags[i] |= TORQUE;
} else eflags[i] |= INERTIA_POINT;
} else if (line && line[i] >= 0) {
eflags[i] |= LINE;
eflags[i] |= OMEGA;
eflags[i] |= TORQUE;
} else if (tri && tri[i] >= 0) {
eflags[i] |= TRIANGLE;
eflags[i] |= ANGMOM;
eflags[i] |= TORQUE;
} else eflags[i] |= POINT;
// set DIPOLE if atom->mu and mu[3] > 0.0
if (atom->mu_flag && mu[i][3] > 0.0)
eflags[i] |= ORIENT_DIPOLE;
eflags[i] |= DIPOLE;
}
}
@ -592,8 +625,8 @@ void FixRigid::init()
if ((xbox && !periodicity[0]) || (ybox && !periodicity[1]) ||
(zbox && !periodicity[2]))
error->one(FLERR,"Fix rigid atom has non-zero image flag "
"in a non-periodic dimension");
error->one(FLERR,"Fix rigid atom has non-zero image flag "
"in a non-periodic dimension");
if (triclinic == 0) {
xunwrap = x[i][0] + xbox*xprd;
@ -629,7 +662,7 @@ void FixRigid::init()
// dx,dy,dz = coords relative to center-of-mass
// symmetric 3x3 inertia tensor stored in Voigt notation as 6-vector
double dx,dy,dz;
double dx,dy,dz,rad;
for (ibody = 0; ibody < nbody; ibody++)
for (i = 0; i < 6; i++) sum[ibody][i] = 0.0;
@ -671,18 +704,19 @@ void FixRigid::init()
if (extended) {
double ivec[6];
double *shape,*quatatom;
double *shape,*quatatom,*inertiaatom;
double length,theta;
for (i = 0; i < nlocal; i++) {
if (body[i] < 0) continue;
ibody = body[i];
massone = rmass[i];
if (eflags[i] & INERTIA_SPHERE) {
sum[ibody][0] += 0.4 * massone * radius[i]*radius[i];
sum[ibody][1] += 0.4 * massone * radius[i]*radius[i];
sum[ibody][2] += 0.4 * massone * radius[i]*radius[i];
} else if (eflags[i] & INERTIA_ELLIPSOID) {
if (eflags[i] & SPHERE) {
sum[ibody][0] += SINERTIA*massone * radius[i]*radius[i];
sum[ibody][1] += SINERTIA*massone * radius[i]*radius[i];
sum[ibody][2] += SINERTIA*massone * radius[i]*radius[i];
} else if (eflags[i] & ELLIPSOID) {
shape = ebonus[ellipsoid[i]].shape;
quatatom = ebonus[ellipsoid[i]].quat;
MathExtra::inertia_ellipsoid(shape,quatatom,massone,ivec);
@ -692,6 +726,26 @@ void FixRigid::init()
sum[ibody][3] += ivec[3];
sum[ibody][4] += ivec[4];
sum[ibody][5] += ivec[5];
} else if (eflags[i] & LINE) {
length = lbonus[line[i]].length;
theta = lbonus[line[i]].theta;
MathExtra::inertia_line(length,theta,massone,ivec);
sum[ibody][0] += ivec[0];
sum[ibody][1] += ivec[1];
sum[ibody][2] += ivec[2];
sum[ibody][3] += ivec[3];
sum[ibody][4] += ivec[4];
sum[ibody][5] += ivec[5];
} else if (eflags[i] & TRIANGLE) {
inertiaatom = tbonus[tri[i]].inertia;
quatatom = tbonus[tri[i]].quat;
MathExtra::inertia_triangle(inertiaatom,quatatom,massone,ivec);
sum[ibody][0] += ivec[0];
sum[ibody][1] += ivec[1];
sum[ibody][2] += ivec[2];
sum[ibody][3] += ivec[3];
sum[ibody][4] += ivec[4];
sum[ibody][5] += ivec[5];
}
}
}
@ -715,7 +769,8 @@ void FixRigid::init()
tensor[0][1] = tensor[1][0] = all[ibody][5];
ierror = MathExtra::jacobi(tensor,inertia[ibody],evectors);
if (ierror) error->all(FLERR,"Insufficient Jacobi rotations for rigid body");
if (ierror) error->all(FLERR,
"Insufficient Jacobi rotations for rigid body");
ex_space[ibody][0] = evectors[0][0];
ex_space[ibody][1] = evectors[1][0];
@ -756,6 +811,7 @@ void FixRigid::init()
double qc[4],delta[3];
double *quatatom;
double theta_body;
for (i = 0; i < nlocal; i++) {
if (body[i] < 0) {
@ -786,20 +842,34 @@ void FixRigid::init()
ez_space[ibody],delta,displace[i]);
if (extended) {
if (eflags[i] & ORIENT_DIPOLE) {
if (eflags[i] & ELLIPSOID) {
quatatom = ebonus[ellipsoid[i]].quat;
MathExtra::qconjugate(quat[ibody],qc);
MathExtra::quatquat(qc,quatatom,orient[i]);
MathExtra::qnormalize(orient[i]);
} else if (eflags[i] & LINE) {
if (quat[ibody][3] >= 0.0) theta_body = 2.0*acos(quat[ibody][0]);
else theta_body = -2.0*acos(quat[ibody][0]);
orient[i][0] = lbonus[line[i]].theta - theta_body;
while (orient[i][0] <= MINUSPI) orient[i][0] += TWOPI;
while (orient[i][0] > MY_PI) orient[i][0] -= TWOPI;
if (orientflag == 4) orient[i][1] = orient[i][2] = orient[i][3] = 0.0;
} else if (eflags[i] & TRIANGLE) {
quatatom = tbonus[tri[i]].quat;
MathExtra::qconjugate(quat[ibody],qc);
MathExtra::quatquat(qc,quatatom,orient[i]);
MathExtra::qnormalize(orient[i]);
} else if (orientflag == 4) {
orient[i][0] = orient[i][1] = orient[i][2] = orient[i][3] = 0.0;
} else if (orientflag == 1)
orient[i][0] = 0.0;
if (eflags[i] & DIPOLE) {
MathExtra::transpose_matvec(ex_space[ibody],ey_space[ibody],
ez_space[ibody],mu[i],dorient[i]);
MathExtra::snormalize3(mu[i][3],dorient[i],dorient[i]);
} else if (dorientflag)
dorient[i][0] = dorient[i][1] = dorient[i][2] = 0.0;
if (eflags[i] & ORIENT_QUAT) {
quatatom = ebonus[ellipsoid[i]].quat;
MathExtra::qconjugate(quat[ibody],qc);
MathExtra::quatquat(qc,quatatom,qorient[i]);
MathExtra::qnormalize(qorient[i]);
} else if (qorientflag)
qorient[i][0] = qorient[i][1] = qorient[i][2] = qorient[i][3] = 0.0;
}
}
@ -831,20 +901,39 @@ void FixRigid::init()
if (extended) {
double ivec[6];
double *shape;
double *shape,*inertiaatom;
double length;
for (i = 0; i < nlocal; i++) {
if (body[i] < 0) continue;
ibody = body[i];
massone = rmass[i];
if (eflags[i] & INERTIA_SPHERE) {
sum[ibody][0] += 0.4 * massone * radius[i]*radius[i];
sum[ibody][1] += 0.4 * massone * radius[i]*radius[i];
sum[ibody][2] += 0.4 * massone * radius[i]*radius[i];
} else if (eflags[i] & INERTIA_ELLIPSOID) {
if (eflags[i] & SPHERE) {
sum[ibody][0] += SINERTIA*massone * radius[i]*radius[i];
sum[ibody][1] += SINERTIA*massone * radius[i]*radius[i];
sum[ibody][2] += SINERTIA*massone * radius[i]*radius[i];
} else if (eflags[i] & ELLIPSOID) {
shape = ebonus[ellipsoid[i]].shape;
MathExtra::inertia_ellipsoid(shape,qorient[i],massone,ivec);
MathExtra::inertia_ellipsoid(shape,orient[i],massone,ivec);
sum[ibody][0] += ivec[0];
sum[ibody][1] += ivec[1];
sum[ibody][2] += ivec[2];
sum[ibody][3] += ivec[3];
sum[ibody][4] += ivec[4];
sum[ibody][5] += ivec[5];
} else if (eflags[i] & LINE) {
length = lbonus[line[i]].length;
MathExtra::inertia_line(length,orient[i][0],massone,ivec);
sum[ibody][0] += ivec[0];
sum[ibody][1] += ivec[1];
sum[ibody][2] += ivec[2];
sum[ibody][3] += ivec[3];
sum[ibody][4] += ivec[4];
sum[ibody][5] += ivec[5];
} else if (eflags[i] & TRIANGLE) {
inertiaatom = tbonus[tri[i]].inertia;
MathExtra::inertia_triangle(inertiaatom,orient[i],massone,ivec);
sum[ibody][0] += ivec[0];
sum[ibody][1] += ivec[1];
sum[ibody][2] += ivec[2];
@ -894,7 +983,8 @@ void FixRigid::init()
ndof += fflag[ibody][0] + fflag[ibody][1] + fflag[ibody][2];
ndof += tflag[ibody][0] + tflag[ibody][1] + tflag[ibody][2];
}
tfactor = force->mvv2e / (ndof * force->boltz);
if (ndof > 0.0) tfactor = force->mvv2e / (ndof * force->boltz);
else tfactor = 0.0;
}
/* ---------------------------------------------------------------------- */
@ -996,24 +1086,29 @@ void FixRigid::setup(int vflag)
// extended particles add their rotation/torque to angmom/torque of body
if (extended) {
AtomVecLine::Bonus *lbonus;
if (avec_line) lbonus = avec_line->bonus;
double **omega_one = atom->omega;
double **angmom_one = atom->angmom;
double **torque_one = atom->torque;
double *radius = atom->radius;
int *line = atom->line;
for (i = 0; i < nlocal; i++) {
if (body[i] < 0) continue;
ibody = body[i];
if (eflags[i] & OMEGA) {
if (rmass) massone = rmass[i];
else massone = mass[type[i]];
radone = radius[i];
sum[ibody][0] += 0.4 * massone * radone*radone * omega_one[i][0];
sum[ibody][1] += 0.4 * massone * radone*radone * omega_one[i][1];
sum[ibody][2] += 0.4 * massone * radone*radone * omega_one[i][2];
if (eflags[i] & SPHERE) {
radone = radius[i];
sum[ibody][0] += SINERTIA*rmass[i] * radone*radone * omega_one[i][0];
sum[ibody][1] += SINERTIA*rmass[i] * radone*radone * omega_one[i][1];
sum[ibody][2] += SINERTIA*rmass[i] * radone*radone * omega_one[i][2];
} else if (eflags[i] & LINE) {
radone = lbonus[line[i]].length;
sum[ibody][2] += LINERTIA*rmass[i] * radone*radone * omega_one[i][2];
}
}
if (eflags[i] & ANGMOM) {
sum[ibody][0] += angmom_one[i][0];
sum[ibody][1] += angmom_one[i][1];
@ -1516,7 +1611,7 @@ void FixRigid::deform(int flag)
void FixRigid::set_xv()
{
int ibody;
int ibody,itype;
int xbox,ybox,zbox;
double x0,x1,x2,v0,v1,v2,fc0,fc1,fc2,massone;
double xy,xz,yz;
@ -1622,43 +1717,64 @@ void FixRigid::set_xv()
// set orientation, omega, angmom of each extended particle
if (extended) {
double *shape,*quatatom;
double theta_body,theta;
double *shape,*quatatom,*inertiaatom;
AtomVecEllipsoid::Bonus *ebonus;
if (avec_ellipsoid) ebonus = avec_ellipsoid->bonus;
AtomVecLine::Bonus *lbonus;
if (avec_line) lbonus = avec_line->bonus;
AtomVecTri::Bonus *tbonus;
if (avec_tri) tbonus = avec_tri->bonus;
double **omega_one = atom->omega;
double **angmom_one = atom->angmom;
double **mu = atom->mu;
int *ellipsoid = atom->ellipsoid;
int *line = atom->line;
int *tri = atom->tri;
for (int i = 0; i < nlocal; i++) {
if (body[i] < 0) continue;
ibody = body[i];
if (eflags[i] & ORIENT_DIPOLE) {
MathExtra::quat_to_mat(quat[ibody],p);
MathExtra::matvec(p,dorient[i],mu[i]);
MathExtra::snormalize3(mu[i][3],mu[i],mu[i]);
}
if (eflags[i] & ORIENT_QUAT) {
quatatom = ebonus[ellipsoid[i]].quat;
MathExtra::quatquat(quat[ibody],qorient[i],quatatom);
MathExtra::qnormalize(quatatom);
}
if (eflags[i] & OMEGA) {
if (eflags[i] & SPHERE) {
omega_one[i][0] = omega[ibody][0];
omega_one[i][1] = omega[ibody][1];
omega_one[i][2] = omega[ibody][2];
}
if (eflags[i] & ANGMOM) {
} else if (eflags[i] & ELLIPSOID) {
shape = ebonus[ellipsoid[i]].shape;
quatatom = ebonus[ellipsoid[i]].quat;
ione[0] = 0.2*rmass[i] * (shape[1]*shape[1] + shape[2]*shape[2]);
ione[1] = 0.2*rmass[i] * (shape[0]*shape[0] + shape[2]*shape[2]);
ione[2] = 0.2*rmass[i] * (shape[0]*shape[0] + shape[1]*shape[1]);
MathExtra::quatquat(quat[ibody],orient[i],quatatom);
MathExtra::qnormalize(quatatom);
ione[0] = EINERTIA*rmass[i] * (shape[1]*shape[1] + shape[2]*shape[2]);
ione[1] = EINERTIA*rmass[i] * (shape[0]*shape[0] + shape[2]*shape[2]);
ione[2] = EINERTIA*rmass[i] * (shape[0]*shape[0] + shape[1]*shape[1]);
MathExtra::q_to_exyz(quatatom,exone,eyone,ezone);
MathExtra::omega_to_angmom(omega[ibody],exone,eyone,ezone,ione,
angmom_one[i]);
} else if (eflags[i] & LINE) {
if (quat[ibody][3] >= 0.0) theta_body = 2.0*acos(quat[ibody][0]);
else theta_body = -2.0*acos(quat[ibody][0]);
theta = orient[i][0] + theta_body;
while (theta <= MINUSPI) theta += TWOPI;
while (theta > MY_PI) theta -= TWOPI;
lbonus[line[i]].theta = theta;
omega_one[i][0] = omega[ibody][0];
omega_one[i][1] = omega[ibody][1];
omega_one[i][2] = omega[ibody][2];
} else if (eflags[i] & TRIANGLE) {
inertiaatom = tbonus[tri[i]].inertia;
quatatom = tbonus[tri[i]].quat;
MathExtra::quatquat(quat[ibody],orient[i],quatatom);
MathExtra::qnormalize(quatatom);
MathExtra::q_to_exyz(quatatom,exone,eyone,ezone);
MathExtra::omega_to_angmom(omega[ibody],exone,eyone,ezone,
inertiaatom,angmom_one[i]);
}
if (eflags[i] & DIPOLE) {
MathExtra::quat_to_mat(quat[ibody],p);
MathExtra::matvec(p,dorient[i],mu[i]);
MathExtra::snormalize3(mu[i][3],mu[i],mu[i]);
}
}
}
@ -1672,8 +1788,9 @@ void FixRigid::set_xv()
void FixRigid::set_v()
{
int ibody;
int ibody,itype;
int xbox,ybox,zbox;
double dx,dy,dz;
double x0,x1,x2,v0,v1,v2,fc0,fc1,fc2,massone;
double xy,xz,yz;
double ione[3],exone[3],eyone[3],ezone[3],delta[3],vr[6];
@ -1761,32 +1878,44 @@ void FixRigid::set_v()
// set omega, angmom of each extended particle
if (extended) {
double *shape,*quatatom;
double *shape,*quatatom,*inertiaatom;
AtomVecEllipsoid::Bonus *ebonus;
if (avec_ellipsoid) ebonus = avec_ellipsoid->bonus;
AtomVecTri::Bonus *tbonus;
if (avec_tri) tbonus = avec_tri->bonus;
double **omega_one = atom->omega;
double **angmom_one = atom->angmom;
int *ellipsoid = atom->ellipsoid;
int *tri = atom->tri;
for (int i = 0; i < nlocal; i++) {
if (body[i] < 0) continue;
ibody = body[i];
if (eflags[i] & OMEGA) {
if (eflags[i] & SPHERE) {
omega_one[i][0] = omega[ibody][0];
omega_one[i][1] = omega[ibody][1];
omega_one[i][2] = omega[ibody][2];
}
if (eflags[i] & ANGMOM) {
} else if (eflags[i] & ELLIPSOID) {
shape = ebonus[ellipsoid[i]].shape;
quatatom = ebonus[ellipsoid[i]].quat;
ione[0] = 0.2*rmass[i] * (shape[1]*shape[1] + shape[2]*shape[2]);
ione[1] = 0.2*rmass[i] * (shape[0]*shape[0] + shape[2]*shape[2]);
ione[2] = 0.2*rmass[i] * (shape[0]*shape[0] + shape[1]*shape[1]);
ione[0] = EINERTIA*rmass[i] * (shape[1]*shape[1] + shape[2]*shape[2]);
ione[1] = EINERTIA*rmass[i] * (shape[0]*shape[0] + shape[2]*shape[2]);
ione[2] = EINERTIA*rmass[i] * (shape[0]*shape[0] + shape[1]*shape[1]);
MathExtra::q_to_exyz(quatatom,exone,eyone,ezone);
MathExtra::omega_to_angmom(omega[ibody],exone,eyone,ezone,ione,
angmom_one[i]);
} else if (eflags[i] & LINE) {
omega_one[i][0] = omega[ibody][0];
omega_one[i][1] = omega[ibody][1];
omega_one[i][2] = omega[ibody][2];
} else if (eflags[i] & TRIANGLE) {
inertiaatom = tbonus[tri[i]].inertia;
quatatom = tbonus[tri[i]].quat;
MathExtra::q_to_exyz(quatatom,exone,eyone,ezone);
MathExtra::omega_to_angmom(omega[ibody],exone,eyone,ezone,
inertiaatom,angmom_one[i]);
}
}
}
@ -1804,8 +1933,8 @@ double FixRigid::memory_usage()
bytes += maxvatom*6 * sizeof(double);
if (extended) {
bytes += nmax * sizeof(int);
if (orientflag) bytes = nmax*orientflag * sizeof(double);
if (dorientflag) bytes = nmax*3 * sizeof(double);
if (qorientflag) bytes = nmax*4 * sizeof(double);
}
return bytes;
}
@ -1820,8 +1949,8 @@ void FixRigid::grow_arrays(int nmax)
memory->grow(displace,nmax,3,"rigid:displace");
if (extended) {
memory->grow(eflags,nmax,"rigid:eflags");
if (orientflag) memory->grow(orient,nmax,orientflag,"rigid:orient");
if (dorientflag) memory->grow(dorient,nmax,3,"rigid:dorient");
if (qorientflag) memory->grow(qorient,nmax,4,"rigid:qorient");
}
}
@ -1837,17 +1966,13 @@ void FixRigid::copy_arrays(int i, int j)
displace[j][2] = displace[i][2];
if (extended) {
eflags[j] = eflags[i];
for (int k = 0; k < orientflag; k++)
orient[j][k] = orient[i][k];
if (dorientflag) {
dorient[j][0] = dorient[i][0];
dorient[j][1] = dorient[i][1];
dorient[j][2] = dorient[i][2];
}
if (qorientflag) {
qorient[j][0] = qorient[i][0];
qorient[j][1] = qorient[i][1];
qorient[j][2] = qorient[i][2];
qorient[j][3] = qorient[i][3];
}
}
}
@ -1877,17 +2002,13 @@ int FixRigid::pack_exchange(int i, double *buf)
int m = 4;
buf[m++] = eflags[i];
for (int j = 0; j < orientflag; j++)
buf[m++] = orient[i][j];
if (dorientflag) {
buf[m++] = dorient[i][0];
buf[m++] = dorient[i][1];
buf[m++] = dorient[i][2];
}
if (qorientflag) {
buf[m++] = qorient[i][0];
buf[m++] = qorient[i][1];
buf[m++] = qorient[i][2];
buf[m++] = qorient[i][3];
}
return m;
}
@ -1905,17 +2026,13 @@ int FixRigid::unpack_exchange(int nlocal, double *buf)
int m = 4;
eflags[nlocal] = static_cast<int> (buf[m++]);
for (int j = 0; j < orientflag; j++)
orient[nlocal][j] = buf[m++];
if (dorientflag) {
dorient[nlocal][0] = buf[m++];
dorient[nlocal][1] = buf[m++];
dorient[nlocal][2] = buf[m++];
}
if (qorientflag) {
qorient[nlocal][0] = buf[m++];
qorient[nlocal][1] = buf[m++];
qorient[nlocal][2] = buf[m++];
qorient[nlocal][3] = buf[m++];
}
return m;
}