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meam_dens_init.cpp
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Thu, Jul 17, 21:01

meam_dens_init.cpp
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#include "meam.h"
#include "math_special.h"
using namespace LAMMPS_NS;
void
MEAM::meam_dens_setup(int atom_nmax, int nall, int n_neigh)
{
int i, j;
// grow local arrays if necessary
if (atom_nmax > nmax) {
memory->destroy(rho);
memory->destroy(rho0);
memory->destroy(rho1);
memory->destroy(rho2);
memory->destroy(rho3);
memory->destroy(frhop);
memory->destroy(gamma);
memory->destroy(dgamma1);
memory->destroy(dgamma2);
memory->destroy(dgamma3);
memory->destroy(arho2b);
memory->destroy(arho1);
memory->destroy(arho2);
memory->destroy(arho3);
memory->destroy(arho3b);
memory->destroy(t_ave);
memory->destroy(tsq_ave);
nmax = atom_nmax;
memory->create(rho, nmax, "pair:rho");
memory->create(rho0, nmax, "pair:rho0");
memory->create(rho1, nmax, "pair:rho1");
memory->create(rho2, nmax, "pair:rho2");
memory->create(rho3, nmax, "pair:rho3");
memory->create(frhop, nmax, "pair:frhop");
memory->create(gamma, nmax, "pair:gamma");
memory->create(dgamma1, nmax, "pair:dgamma1");
memory->create(dgamma2, nmax, "pair:dgamma2");
memory->create(dgamma3, nmax, "pair:dgamma3");
memory->create(arho2b, nmax, "pair:arho2b");
memory->create(arho1, nmax, 3, "pair:arho1");
memory->create(arho2, nmax, 6, "pair:arho2");
memory->create(arho3, nmax, 10, "pair:arho3");
memory->create(arho3b, nmax, 3, "pair:arho3b");
memory->create(t_ave, nmax, 3, "pair:t_ave");
memory->create(tsq_ave, nmax, 3, "pair:tsq_ave");
}
if (n_neigh > maxneigh) {
memory->destroy(scrfcn);
memory->destroy(dscrfcn);
memory->destroy(fcpair);
maxneigh = n_neigh;
memory->create(scrfcn, maxneigh, "pair:scrfcn");
memory->create(dscrfcn, maxneigh, "pair:dscrfcn");
memory->create(fcpair, maxneigh, "pair:fcpair");
}
// zero out local arrays
for (i = 0; i < nall; i++) {
rho0[i] = 0.0;
arho2b[i] = 0.0;
arho1[i][0] = arho1[i][1] = arho1[i][2] = 0.0;
for (j = 0; j < 6; j++)
arho2[i][j] = 0.0;
for (j = 0; j < 10; j++)
arho3[i][j] = 0.0;
arho3b[i][0] = arho3b[i][1] = arho3b[i][2] = 0.0;
t_ave[i][0] = t_ave[i][1] = t_ave[i][2] = 0.0;
tsq_ave[i][0] = tsq_ave[i][1] = tsq_ave[i][2] = 0.0;
}
}
void
MEAM::meam_dens_init(int i, int ntype, int* type, int* fmap, double** x, int numneigh, int* firstneigh,
int numneigh_full, int* firstneigh_full, int fnoffset, int* errorflag)
{
*errorflag = 0;
// Compute screening function and derivatives
getscreen(i, &scrfcn[fnoffset], &dscrfcn[fnoffset], &fcpair[fnoffset], x, numneigh, firstneigh,
numneigh_full, firstneigh_full, ntype, type, fmap);
// Calculate intermediate density terms to be communicated
calc_rho1(i, ntype, type, fmap, x, numneigh, firstneigh, &scrfcn[fnoffset], &fcpair[fnoffset]);
}
// ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
void
MEAM::getscreen(int i, double* scrfcn, double* dscrfcn, double* fcpair, double** x, int numneigh,
int* firstneigh, int numneigh_full, int* firstneigh_full, int ntype, int* type, int* fmap)
{
int jn, j, kn, k;
int elti, eltj, eltk;
double xitmp, yitmp, zitmp, delxij, delyij, delzij, rij2, rij;
double xjtmp, yjtmp, zjtmp, delxik, delyik, delzik, rik2 /*,rik*/;
double xktmp, yktmp, zktmp, delxjk, delyjk, delzjk, rjk2 /*,rjk*/;
double xik, xjk, sij, fcij, sfcij, dfcij, sikj, dfikj, cikj;
double Cmin, Cmax, delc, /*ebound,*/ rbound, a, coef1, coef2;
double dCikj;
double rnorm, fc, dfc, drinv;
drinv = 1.0 / this->delr_meam;
elti = fmap[type[i]];
if (elti < 0) return;
xitmp = x[i][0];
yitmp = x[i][1];
zitmp = x[i][2];
for (jn = 0; jn < numneigh; jn++) {
j = firstneigh[jn];
eltj = fmap[type[j]];
if (eltj < 0) continue;
// First compute screening function itself, sij
xjtmp = x[j][0];
yjtmp = x[j][1];
zjtmp = x[j][2];
delxij = xjtmp - xitmp;
delyij = yjtmp - yitmp;
delzij = zjtmp - zitmp;
rij2 = delxij * delxij + delyij * delyij + delzij * delzij;
rij = sqrt(rij2);
if (rij > this->rc_meam) {
fcij = 0.0;
dfcij = 0.0;
sij = 0.0;
} else {
rnorm = (this->rc_meam - rij) * drinv;
sij = 1.0;
// if rjk2 > ebound*rijsq, atom k is definitely outside the ellipse
const double rbound = this->ebound_meam[elti][eltj] * rij2;
for (kn = 0; kn < numneigh_full; kn++) {
k = firstneigh_full[kn];
eltk = fmap[type[k]];
if (eltk < 0) continue;
if (k == j) continue;
delxjk = x[k][0] - xjtmp;
delyjk = x[k][1] - yjtmp;
delzjk = x[k][2] - zjtmp;
rjk2 = delxjk * delxjk + delyjk * delyjk + delzjk * delzjk;
if (rjk2 > rbound) continue;
delxik = x[k][0] - xitmp;
delyik = x[k][1] - yitmp;
delzik = x[k][2] - zitmp;
rik2 = delxik * delxik + delyik * delyik + delzik * delzik;
if (rik2 > rbound) continue;
xik = rik2 / rij2;
xjk = rjk2 / rij2;
a = 1 - (xik - xjk) * (xik - xjk);
// if a < 0, then ellipse equation doesn't describe this case and
// atom k can't possibly screen i-j
if (a <= 0.0) continue;
cikj = (2.0 * (xik + xjk) + a - 2.0) / a;
Cmax = this->Cmax_meam[elti][eltj][eltk];
Cmin = this->Cmin_meam[elti][eltj][eltk];
if (cikj >= Cmax) continue;
// note that cikj may be slightly negative (within numerical
// tolerance) if atoms are colinear, so don't reject that case here
// (other negative cikj cases were handled by the test on "a" above)
else if (cikj <= Cmin) {
sij = 0.0;
break;
} else {
delc = Cmax - Cmin;
cikj = (cikj - Cmin) / delc;
sikj = fcut(cikj);
}
sij *= sikj;
}
fc = dfcut(rnorm, dfc);
fcij = fc;
dfcij = dfc * drinv;
}
// Now compute derivatives
dscrfcn[jn] = 0.0;
sfcij = sij * fcij;
if (iszero(sfcij) || iszero(sfcij - 1.0))
goto LABEL_100;
rbound = this->ebound_meam[elti][eltj] * rij2;
for (kn = 0; kn < numneigh_full; kn++) {
k = firstneigh_full[kn];
if (k == j) continue;
eltk = fmap[type[k]];
if (eltk < 0) continue;
xktmp = x[k][0];
yktmp = x[k][1];
zktmp = x[k][2];
delxjk = xktmp - xjtmp;
delyjk = yktmp - yjtmp;
delzjk = zktmp - zjtmp;
rjk2 = delxjk * delxjk + delyjk * delyjk + delzjk * delzjk;
if (rjk2 > rbound) continue;
delxik = xktmp - xitmp;
delyik = yktmp - yitmp;
delzik = zktmp - zitmp;
rik2 = delxik * delxik + delyik * delyik + delzik * delzik;
if (rik2 > rbound) continue;
xik = rik2 / rij2;
xjk = rjk2 / rij2;
a = 1 - (xik - xjk) * (xik - xjk);
// if a < 0, then ellipse equation doesn't describe this case and
// atom k can't possibly screen i-j
if (a <= 0.0) continue;
cikj = (2.0 * (xik + xjk) + a - 2.0) / a;
Cmax = this->Cmax_meam[elti][eltj][eltk];
Cmin = this->Cmin_meam[elti][eltj][eltk];
if (cikj >= Cmax) {
continue;
// Note that cikj may be slightly negative (within numerical
// tolerance) if atoms are colinear, so don't reject that case
// here
// (other negative cikj cases were handled by the test on "a"
// above)
// Note that we never have 0<cikj<Cmin here, else sij=0
// (rejected above)
} else {
delc = Cmax - Cmin;
cikj = (cikj - Cmin) / delc;
sikj = dfcut(cikj, dfikj);
coef1 = dfikj / (delc * sikj);
dCikj = dCfunc(rij2, rik2, rjk2);
dscrfcn[jn] = dscrfcn[jn] + coef1 * dCikj;
}
}
coef1 = sfcij;
coef2 = sij * dfcij / rij;
dscrfcn[jn] = dscrfcn[jn] * coef1 - coef2;
LABEL_100:
scrfcn[jn] = sij;
fcpair[jn] = fcij;
}
}
// ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
void
MEAM::calc_rho1(int i, int ntype, int* type, int* fmap, double** x, int numneigh, int* firstneigh,
double* scrfcn, double* fcpair)
{
int jn, j, m, n, p, elti, eltj;
int nv2, nv3;
double xtmp, ytmp, ztmp, delij[3], rij2, rij, sij;
double ai, aj, rhoa0j, rhoa1j, rhoa2j, rhoa3j, A1j, A2j, A3j;
// double G,Gbar,gam,shp[3+1];
double ro0i, ro0j;
double rhoa0i, rhoa1i, rhoa2i, rhoa3i, A1i, A2i, A3i;
elti = fmap[type[i]];
xtmp = x[i][0];
ytmp = x[i][1];
ztmp = x[i][2];
for (jn = 0; jn < numneigh; jn++) {
if (!iszero(scrfcn[jn])) {
j = firstneigh[jn];
sij = scrfcn[jn] * fcpair[jn];
delij[0] = x[j][0] - xtmp;
delij[1] = x[j][1] - ytmp;
delij[2] = x[j][2] - ztmp;
rij2 = delij[0] * delij[0] + delij[1] * delij[1] + delij[2] * delij[2];
if (rij2 < this->cutforcesq) {
eltj = fmap[type[j]];
rij = sqrt(rij2);
ai = rij / this->re_meam[elti][elti] - 1.0;
aj = rij / this->re_meam[eltj][eltj] - 1.0;
ro0i = this->rho0_meam[elti];
ro0j = this->rho0_meam[eltj];
rhoa0j = ro0j * MathSpecial::fm_exp(-this->beta0_meam[eltj] * aj) * sij;
rhoa1j = ro0j * MathSpecial::fm_exp(-this->beta1_meam[eltj] * aj) * sij;
rhoa2j = ro0j * MathSpecial::fm_exp(-this->beta2_meam[eltj] * aj) * sij;
rhoa3j = ro0j * MathSpecial::fm_exp(-this->beta3_meam[eltj] * aj) * sij;
rhoa0i = ro0i * MathSpecial::fm_exp(-this->beta0_meam[elti] * ai) * sij;
rhoa1i = ro0i * MathSpecial::fm_exp(-this->beta1_meam[elti] * ai) * sij;
rhoa2i = ro0i * MathSpecial::fm_exp(-this->beta2_meam[elti] * ai) * sij;
rhoa3i = ro0i * MathSpecial::fm_exp(-this->beta3_meam[elti] * ai) * sij;
if (this->ialloy == 1) {
rhoa1j = rhoa1j * this->t1_meam[eltj];
rhoa2j = rhoa2j * this->t2_meam[eltj];
rhoa3j = rhoa3j * this->t3_meam[eltj];
rhoa1i = rhoa1i * this->t1_meam[elti];
rhoa2i = rhoa2i * this->t2_meam[elti];
rhoa3i = rhoa3i * this->t3_meam[elti];
}
rho0[i] = rho0[i] + rhoa0j;
rho0[j] = rho0[j] + rhoa0i;
// For ialloy = 2, use single-element value (not average)
if (this->ialloy != 2) {
t_ave[i][0] = t_ave[i][0] + this->t1_meam[eltj] * rhoa0j;
t_ave[i][1] = t_ave[i][1] + this->t2_meam[eltj] * rhoa0j;
t_ave[i][2] = t_ave[i][2] + this->t3_meam[eltj] * rhoa0j;
t_ave[j][0] = t_ave[j][0] + this->t1_meam[elti] * rhoa0i;
t_ave[j][1] = t_ave[j][1] + this->t2_meam[elti] * rhoa0i;
t_ave[j][2] = t_ave[j][2] + this->t3_meam[elti] * rhoa0i;
}
if (this->ialloy == 1) {
tsq_ave[i][0] = tsq_ave[i][0] + this->t1_meam[eltj] * this->t1_meam[eltj] * rhoa0j;
tsq_ave[i][1] = tsq_ave[i][1] + this->t2_meam[eltj] * this->t2_meam[eltj] * rhoa0j;
tsq_ave[i][2] = tsq_ave[i][2] + this->t3_meam[eltj] * this->t3_meam[eltj] * rhoa0j;
tsq_ave[j][0] = tsq_ave[j][0] + this->t1_meam[elti] * this->t1_meam[elti] * rhoa0i;
tsq_ave[j][1] = tsq_ave[j][1] + this->t2_meam[elti] * this->t2_meam[elti] * rhoa0i;
tsq_ave[j][2] = tsq_ave[j][2] + this->t3_meam[elti] * this->t3_meam[elti] * rhoa0i;
}
arho2b[i] = arho2b[i] + rhoa2j;
arho2b[j] = arho2b[j] + rhoa2i;
A1j = rhoa1j / rij;
A2j = rhoa2j / rij2;
A3j = rhoa3j / (rij2 * rij);
A1i = rhoa1i / rij;
A2i = rhoa2i / rij2;
A3i = rhoa3i / (rij2 * rij);
nv2 = 0;
nv3 = 0;
for (m = 0; m < 3; m++) {
arho1[i][m] = arho1[i][m] + A1j * delij[m];
arho1[j][m] = arho1[j][m] - A1i * delij[m];
arho3b[i][m] = arho3b[i][m] + rhoa3j * delij[m] / rij;
arho3b[j][m] = arho3b[j][m] - rhoa3i * delij[m] / rij;
for (n = m; n < 3; n++) {
arho2[i][nv2] = arho2[i][nv2] + A2j * delij[m] * delij[n];
arho2[j][nv2] = arho2[j][nv2] + A2i * delij[m] * delij[n];
nv2 = nv2 + 1;
for (p = n; p < 3; p++) {
arho3[i][nv3] = arho3[i][nv3] + A3j * delij[m] * delij[n] * delij[p];
arho3[j][nv3] = arho3[j][nv3] - A3i * delij[m] * delij[n] * delij[p];
nv3 = nv3 + 1;
}
}
}
}
}
}
}
// ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
void
MEAM::dsij(int i, int j, int k, int jn, int numneigh, double rij2, double* dsij1, double* dsij2, int ntype,
int* type, int* fmap, double** x, double* scrfcn, double* fcpair)
{
// Inputs: i,j,k = id's of 3 atom triplet
// jn = id of i-j pair
// rij2 = squared distance between i and j
// Outputs: dsij1 = deriv. of sij w.r.t. rik
// dsij2 = deriv. of sij w.r.t. rjk
int elti, eltj, eltk;
double rik2, rjk2;
double dxik, dyik, dzik;
double dxjk, dyjk, dzjk;
double rbound, delc, sij, xik, xjk, cikj, sikj, dfc, a;
double Cmax, Cmin, dCikj1, dCikj2;
sij = scrfcn[jn] * fcpair[jn];
elti = fmap[type[i]];
eltj = fmap[type[j]];
eltk = fmap[type[k]];
Cmax = this->Cmax_meam[elti][eltj][eltk];
Cmin = this->Cmin_meam[elti][eltj][eltk];
*dsij1 = 0.0;
*dsij2 = 0.0;
if (!iszero(sij) && !iszero(sij - 1.0)) {
rbound = rij2 * this->ebound_meam[elti][eltj];
delc = Cmax - Cmin;
dxjk = x[k][0] - x[j][0];
dyjk = x[k][1] - x[j][1];
dzjk = x[k][2] - x[j][2];
rjk2 = dxjk * dxjk + dyjk * dyjk + dzjk * dzjk;
if (rjk2 <= rbound) {
dxik = x[k][0] - x[i][0];
dyik = x[k][1] - x[i][1];
dzik = x[k][2] - x[i][2];
rik2 = dxik * dxik + dyik * dyik + dzik * dzik;
if (rik2 <= rbound) {
xik = rik2 / rij2;
xjk = rjk2 / rij2;
a = 1 - (xik - xjk) * (xik - xjk);
if (!iszero(a)) {
cikj = (2.0 * (xik + xjk) + a - 2.0) / a;
if (cikj >= Cmin && cikj <= Cmax) {
cikj = (cikj - Cmin) / delc;
sikj = dfcut(cikj, dfc);
dCfunc2(rij2, rik2, rjk2, dCikj1, dCikj2);
a = sij / delc * dfc / sikj;
*dsij1 = a * dCikj1;
*dsij2 = a * dCikj2;
}
}
}
}
}
}

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