2 * Copyright (c) Erik Lindahl, David van der Spoel 2003
4 * This file is generated automatically at compile time
5 * by the program mknb in the Gromacs distribution.
7 * Options used when generation this file:
11 * Software invsqrt: no
20 #ifdef GMX_THREAD_SHM_FDECOMP
21 #include<thread_mpi.h>
23 #define ALMOST_ZERO 1e-30
24 #define ALMOST_ONE 1-(1e-30)
27 #include "nb_kernel211_adress.h"
32 * Gromacs nonbonded kernel nb_kernel211_adress_cg
33 * Coulomb interaction: Reaction field
34 * VdW interaction: Lennard-Jones
35 * water optimization: SPC/TIP3P - other atoms
36 * Calculate forces: yes
38 void nb_kernel211_adress_cg(
72 int nri,ntype,nthreads;
73 real facel,krf,crf,tabscale,gbtabscale;
74 int n,ii,is3,ii3,k,nj0,nj1,jnr,j3,ggid;
75 int nn0,nn1,nouter,ninner;
87 real ix1,iy1,iz1,fix1,fiy1,fiz1;
88 real ix2,iy2,iz2,fix2,fiy2,fiz2;
89 real ix3,iy3,iz3,fix3,fiy3,fiz3;
90 real jx1,jy1,jz1,fjx1,fjy1,fjz1;
91 real dx11,dy11,dz11,rsq11,rinv11;
92 real dx21,dy21,dz21,rsq21,rinv21;
93 real dx31,dy31,dz31,rsq31,rinv31;
96 real weight_cg1, weight_cg2, weight_product;
101 nthreads = *p_nthreads;
105 tabscale = *p_tabscale;
107 qO = facel*charge[ii];
108 qH = facel*charge[ii+1];
109 nti = 2*ntype*type[ii];
116 #ifdef GMX_THREAD_SHM_FDECOMP
117 tMPI_Thread_mutex_lock((tMPI_Thread_mutex_t *)mtx);
119 nn1 = nn0+(nri-nn0)/(2*nthreads)+10;
121 tMPI_Thread_mutex_unlock((tMPI_Thread_mutex_t *)mtx);
128 for(n=nn0; (n<nn1); n++)
132 shY = shiftvec[is3+1];
133 shZ = shiftvec[is3+2];
138 ix1 = shX + pos[ii3+0];
139 iy1 = shY + pos[ii3+1];
140 iz1 = shZ + pos[ii3+2];
141 ix2 = shX + pos[ii3+3];
142 iy2 = shY + pos[ii3+4];
143 iz2 = shZ + pos[ii3+5];
144 ix3 = shX + pos[ii3+6];
145 iy3 = shY + pos[ii3+7];
146 iz3 = shZ + pos[ii3+8];
160 for(k=nj0; (k<nj1); k++)
163 weight_cg2 = wf[jnr];
164 weight_product = weight_cg1*weight_cg2;
165 if (weight_product < ALMOST_ZERO) {
168 else if (weight_product >= ALMOST_ONE)
170 /* force is zero, skip this molecule */
175 hybscal = 1.0 - weight_product;
184 rsq11 = dx11*dx11+dy11*dy11+dz11*dz11;
188 rsq21 = dx21*dx21+dy21*dy21+dz21*dz21;
192 rsq31 = dx31*dx31+dy31*dy31+dz31*dz31;
193 rinv11 = 1.0/sqrt(rsq11);
194 rinv21 = 1.0/sqrt(rsq21);
195 rinv31 = 1.0/sqrt(rsq31);
198 tj = nti+2*type[jnr];
200 c12 = vdwparam[tj+1];
201 rinvsq = rinv11*rinv11;
203 vcoul = qq*(rinv11+krsq-crf);
205 rinvsix = rinvsq*rinvsq*rinvsq;
207 Vvdw12 = c12*rinvsix*rinvsix;
208 Vvdwtot = Vvdwtot+Vvdw12-Vvdw6;
209 fscal = (qq*(rinv11-2.0*krsq)+12.0*Vvdw12-6.0*Vvdw6)*rinvsq;
217 fjx1 = faction[j3+0] - tx;
218 fjy1 = faction[j3+1] - ty;
219 fjz1 = faction[j3+2] - tz;
221 rinvsq = rinv21*rinv21;
223 vcoul = qq*(rinv21+krsq-crf);
225 fscal = (qq*(rinv21-2.0*krsq))*rinvsq;
236 rinvsq = rinv31*rinv31;
238 vcoul = qq*(rinv31+krsq-crf);
240 fscal = (qq*(rinv31-2.0*krsq))*rinvsq;
248 faction[j3+0] = fjx1 - tx;
249 faction[j3+1] = fjy1 - ty;
250 faction[j3+2] = fjz1 - tz;
253 faction[ii3+0] = faction[ii3+0] + fix1;
254 faction[ii3+1] = faction[ii3+1] + fiy1;
255 faction[ii3+2] = faction[ii3+2] + fiz1;
256 faction[ii3+3] = faction[ii3+3] + fix2;
257 faction[ii3+4] = faction[ii3+4] + fiy2;
258 faction[ii3+5] = faction[ii3+5] + fiz2;
259 faction[ii3+6] = faction[ii3+6] + fix3;
260 faction[ii3+7] = faction[ii3+7] + fiy3;
261 faction[ii3+8] = faction[ii3+8] + fiz3;
262 fshift[is3] = fshift[is3]+fix1+fix2+fix3;
263 fshift[is3+1] = fshift[is3+1]+fiy1+fiy2+fiy3;
264 fshift[is3+2] = fshift[is3+2]+fiz1+fiz2+fiz3;
266 Vc[ggid] = Vc[ggid] + vctot;
267 Vvdw[ggid] = Vvdw[ggid] + Vvdwtot;
268 ninner = ninner + nj1 - nj0;
271 nouter = nouter + nn1 - nn0;
284 * Gromacs nonbonded kernel nb_kernel211_adress_ex
285 * Coulomb interaction: Reaction field
286 * VdW interaction: Lennard-Jones
287 * water optimization: SPC/TIP3P - other atoms
288 * Calculate forces: yes
290 void nb_kernel211_adress_ex(
324 int nri,ntype,nthreads;
325 real facel,krf,crf,tabscale,gbtabscale;
326 int n,ii,is3,ii3,k,nj0,nj1,jnr,j3,ggid;
327 int nn0,nn1,nouter,ninner;
339 real ix1,iy1,iz1,fix1,fiy1,fiz1;
340 real ix2,iy2,iz2,fix2,fiy2,fiz2;
341 real ix3,iy3,iz3,fix3,fiy3,fiz3;
342 real jx1,jy1,jz1,fjx1,fjy1,fjz1;
343 real dx11,dy11,dz11,rsq11,rinv11;
344 real dx21,dy21,dz21,rsq21,rinv21;
345 real dx31,dy31,dz31,rsq31,rinv31;
348 real weight_cg1, weight_cg2, weight_product;
353 nthreads = *p_nthreads;
357 tabscale = *p_tabscale;
359 qO = facel*charge[ii];
360 qH = facel*charge[ii+1];
361 nti = 2*ntype*type[ii];
368 #ifdef GMX_THREAD_SHM_FDECOMP
369 tMPI_Thread_mutex_lock((tMPI_Thread_mutex_t *)mtx);
371 nn1 = nn0+(nri-nn0)/(2*nthreads)+10;
373 tMPI_Thread_mutex_unlock((tMPI_Thread_mutex_t *)mtx);
380 for(n=nn0; (n<nn1); n++)
384 shY = shiftvec[is3+1];
385 shZ = shiftvec[is3+2];
390 ix1 = shX + pos[ii3+0];
391 iy1 = shY + pos[ii3+1];
392 iz1 = shZ + pos[ii3+2];
393 ix2 = shX + pos[ii3+3];
394 iy2 = shY + pos[ii3+4];
395 iz2 = shZ + pos[ii3+5];
396 ix3 = shX + pos[ii3+6];
397 iy3 = shY + pos[ii3+7];
398 iz3 = shZ + pos[ii3+8];
412 for(k=nj0; (k<nj1); k++)
415 weight_cg2 = wf[jnr];
416 weight_product = weight_cg1*weight_cg2;
417 if (weight_product < ALMOST_ZERO) {
418 /* force is zero, skip this molecule */
421 else if (weight_product >= ALMOST_ONE)
427 hybscal = weight_product;
436 rsq11 = dx11*dx11+dy11*dy11+dz11*dz11;
440 rsq21 = dx21*dx21+dy21*dy21+dz21*dz21;
444 rsq31 = dx31*dx31+dy31*dy31+dz31*dz31;
445 rinv11 = 1.0/sqrt(rsq11);
446 rinv21 = 1.0/sqrt(rsq21);
447 rinv31 = 1.0/sqrt(rsq31);
450 tj = nti+2*type[jnr];
452 c12 = vdwparam[tj+1];
453 rinvsq = rinv11*rinv11;
455 vcoul = qq*(rinv11+krsq-crf);
457 rinvsix = rinvsq*rinvsq*rinvsq;
459 Vvdw12 = c12*rinvsix*rinvsix;
460 Vvdwtot = Vvdwtot+Vvdw12-Vvdw6;
461 fscal = (qq*(rinv11-2.0*krsq)+12.0*Vvdw12-6.0*Vvdw6)*rinvsq;
463 if(force_cap>0 && (fabs(fscal)> force_cap)){
464 fscal=force_cap*fscal/fabs(fscal);
472 fjx1 = faction[j3+0] - tx;
473 fjy1 = faction[j3+1] - ty;
474 fjz1 = faction[j3+2] - tz;
476 rinvsq = rinv21*rinv21;
478 vcoul = qq*(rinv21+krsq-crf);
480 fscal = (qq*(rinv21-2.0*krsq))*rinvsq;
482 if(force_cap>0 && (fabs(fscal)> force_cap)){
483 fscal=force_cap*fscal/fabs(fscal);
494 rinvsq = rinv31*rinv31;
496 vcoul = qq*(rinv31+krsq-crf);
498 fscal = (qq*(rinv31-2.0*krsq))*rinvsq;
500 if(force_cap>0 && (fabs(fscal)> force_cap)){
501 fscal=force_cap*fscal/fabs(fscal);
509 faction[j3+0] = fjx1 - tx;
510 faction[j3+1] = fjy1 - ty;
511 faction[j3+2] = fjz1 - tz;
514 faction[ii3+0] = faction[ii3+0] + fix1;
515 faction[ii3+1] = faction[ii3+1] + fiy1;
516 faction[ii3+2] = faction[ii3+2] + fiz1;
517 faction[ii3+3] = faction[ii3+3] + fix2;
518 faction[ii3+4] = faction[ii3+4] + fiy2;
519 faction[ii3+5] = faction[ii3+5] + fiz2;
520 faction[ii3+6] = faction[ii3+6] + fix3;
521 faction[ii3+7] = faction[ii3+7] + fiy3;
522 faction[ii3+8] = faction[ii3+8] + fiz3;
523 fshift[is3] = fshift[is3]+fix1+fix2+fix3;
524 fshift[is3+1] = fshift[is3+1]+fiy1+fiy2+fiy3;
525 fshift[is3+2] = fshift[is3+2]+fiz1+fiz2+fiz3;
527 Vc[ggid] = Vc[ggid] + vctot;
528 Vvdw[ggid] = Vvdw[ggid] + Vvdwtot;
529 ninner = ninner + nj1 - nj0;
532 nouter = nouter + nn1 - nn0;