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36 * Note: this file was generated by the GROMACS c kernel generator.
44 #include "../nb_kernel.h"
45 #include "gromacs/gmxlib/nrnb.h"
48 * Gromacs nonbonded kernel: nb_kernel_ElecRF_VdwLJ_GeomW4P1_VF_c
49 * Electrostatics interaction: ReactionField
50 * VdW interaction: LennardJones
51 * Geometry: Water4-Particle
52 * Calculate force/pot: PotentialAndForce
55 nb_kernel_ElecRF_VdwLJ_GeomW4P1_VF_c
56 (t_nblist
* gmx_restrict nlist
,
57 rvec
* gmx_restrict xx
,
58 rvec
* gmx_restrict ff
,
59 struct t_forcerec
* gmx_restrict fr
,
60 t_mdatoms
* gmx_restrict mdatoms
,
61 nb_kernel_data_t gmx_unused
* gmx_restrict kernel_data
,
62 t_nrnb
* gmx_restrict nrnb
)
64 int i_shift_offset
,i_coord_offset
,j_coord_offset
;
65 int j_index_start
,j_index_end
;
66 int nri
,inr
,ggid
,iidx
,jidx
,jnr
,outeriter
,inneriter
;
67 real shX
,shY
,shZ
,tx
,ty
,tz
,fscal
,rcutoff
,rcutoff2
;
68 int *iinr
,*jindex
,*jjnr
,*shiftidx
,*gid
;
69 real
*shiftvec
,*fshift
,*x
,*f
;
71 real ix0
,iy0
,iz0
,fix0
,fiy0
,fiz0
,iq0
,isai0
;
73 real ix1
,iy1
,iz1
,fix1
,fiy1
,fiz1
,iq1
,isai1
;
75 real ix2
,iy2
,iz2
,fix2
,fiy2
,fiz2
,iq2
,isai2
;
77 real ix3
,iy3
,iz3
,fix3
,fiy3
,fiz3
,iq3
,isai3
;
79 real jx0
,jy0
,jz0
,fjx0
,fjy0
,fjz0
,jq0
,isaj0
;
80 real dx00
,dy00
,dz00
,rsq00
,rinv00
,rinvsq00
,r00
,qq00
,c6_00
,c12_00
,cexp1_00
,cexp2_00
;
81 real dx10
,dy10
,dz10
,rsq10
,rinv10
,rinvsq10
,r10
,qq10
,c6_10
,c12_10
,cexp1_10
,cexp2_10
;
82 real dx20
,dy20
,dz20
,rsq20
,rinv20
,rinvsq20
,r20
,qq20
,c6_20
,c12_20
,cexp1_20
,cexp2_20
;
83 real dx30
,dy30
,dz30
,rsq30
,rinv30
,rinvsq30
,r30
,qq30
,c6_30
,c12_30
,cexp1_30
,cexp2_30
;
84 real velec
,felec
,velecsum
,facel
,crf
,krf
,krf2
;
87 real rinvsix
,rvdw
,vvdw
,vvdw6
,vvdw12
,fvdw
,fvdw6
,fvdw12
,vvdwsum
,br
,vvdwexp
,sh_vdw_invrcut6
;
96 jindex
= nlist
->jindex
;
98 shiftidx
= nlist
->shift
;
100 shiftvec
= fr
->shift_vec
[0];
101 fshift
= fr
->fshift
[0];
102 facel
= fr
->ic
->epsfac
;
103 charge
= mdatoms
->chargeA
;
107 nvdwtype
= fr
->ntype
;
109 vdwtype
= mdatoms
->typeA
;
111 /* Setup water-specific parameters */
112 inr
= nlist
->iinr
[0];
113 iq1
= facel
*charge
[inr
+1];
114 iq2
= facel
*charge
[inr
+2];
115 iq3
= facel
*charge
[inr
+3];
116 vdwioffset0
= 2*nvdwtype
*vdwtype
[inr
+0];
121 /* Start outer loop over neighborlists */
122 for(iidx
=0; iidx
<nri
; iidx
++)
124 /* Load shift vector for this list */
125 i_shift_offset
= DIM
*shiftidx
[iidx
];
126 shX
= shiftvec
[i_shift_offset
+XX
];
127 shY
= shiftvec
[i_shift_offset
+YY
];
128 shZ
= shiftvec
[i_shift_offset
+ZZ
];
130 /* Load limits for loop over neighbors */
131 j_index_start
= jindex
[iidx
];
132 j_index_end
= jindex
[iidx
+1];
134 /* Get outer coordinate index */
136 i_coord_offset
= DIM
*inr
;
138 /* Load i particle coords and add shift vector */
139 ix0
= shX
+ x
[i_coord_offset
+DIM
*0+XX
];
140 iy0
= shY
+ x
[i_coord_offset
+DIM
*0+YY
];
141 iz0
= shZ
+ x
[i_coord_offset
+DIM
*0+ZZ
];
142 ix1
= shX
+ x
[i_coord_offset
+DIM
*1+XX
];
143 iy1
= shY
+ x
[i_coord_offset
+DIM
*1+YY
];
144 iz1
= shZ
+ x
[i_coord_offset
+DIM
*1+ZZ
];
145 ix2
= shX
+ x
[i_coord_offset
+DIM
*2+XX
];
146 iy2
= shY
+ x
[i_coord_offset
+DIM
*2+YY
];
147 iz2
= shZ
+ x
[i_coord_offset
+DIM
*2+ZZ
];
148 ix3
= shX
+ x
[i_coord_offset
+DIM
*3+XX
];
149 iy3
= shY
+ x
[i_coord_offset
+DIM
*3+YY
];
150 iz3
= shZ
+ x
[i_coord_offset
+DIM
*3+ZZ
];
165 /* Reset potential sums */
169 /* Start inner kernel loop */
170 for(jidx
=j_index_start
; jidx
<j_index_end
; jidx
++)
172 /* Get j neighbor index, and coordinate index */
174 j_coord_offset
= DIM
*jnr
;
176 /* load j atom coordinates */
177 jx0
= x
[j_coord_offset
+DIM
*0+XX
];
178 jy0
= x
[j_coord_offset
+DIM
*0+YY
];
179 jz0
= x
[j_coord_offset
+DIM
*0+ZZ
];
181 /* Calculate displacement vector */
195 /* Calculate squared distance and things based on it */
196 rsq00
= dx00
*dx00
+dy00
*dy00
+dz00
*dz00
;
197 rsq10
= dx10
*dx10
+dy10
*dy10
+dz10
*dz10
;
198 rsq20
= dx20
*dx20
+dy20
*dy20
+dz20
*dz20
;
199 rsq30
= dx30
*dx30
+dy30
*dy30
+dz30
*dz30
;
201 rinv10
= 1.0/sqrt(rsq10
);
202 rinv20
= 1.0/sqrt(rsq20
);
203 rinv30
= 1.0/sqrt(rsq30
);
205 rinvsq00
= 1.0/rsq00
;
206 rinvsq10
= rinv10
*rinv10
;
207 rinvsq20
= rinv20
*rinv20
;
208 rinvsq30
= rinv30
*rinv30
;
210 /* Load parameters for j particles */
212 vdwjidx0
= 2*vdwtype
[jnr
+0];
214 /**************************
215 * CALCULATE INTERACTIONS *
216 **************************/
218 c6_00
= vdwparam
[vdwioffset0
+vdwjidx0
];
219 c12_00
= vdwparam
[vdwioffset0
+vdwjidx0
+1];
221 /* LENNARD-JONES DISPERSION/REPULSION */
223 rinvsix
= rinvsq00
*rinvsq00
*rinvsq00
;
224 vvdw6
= c6_00
*rinvsix
;
225 vvdw12
= c12_00
*rinvsix
*rinvsix
;
226 vvdw
= vvdw12
*(1.0/12.0) - vvdw6
*(1.0/6.0);
227 fvdw
= (vvdw12
-vvdw6
)*rinvsq00
;
229 /* Update potential sums from outer loop */
234 /* Calculate temporary vectorial force */
239 /* Update vectorial force */
243 f
[j_coord_offset
+DIM
*0+XX
] -= tx
;
244 f
[j_coord_offset
+DIM
*0+YY
] -= ty
;
245 f
[j_coord_offset
+DIM
*0+ZZ
] -= tz
;
247 /**************************
248 * CALCULATE INTERACTIONS *
249 **************************/
253 /* REACTION-FIELD ELECTROSTATICS */
254 velec
= qq10
*(rinv10
+krf
*rsq10
-crf
);
255 felec
= qq10
*(rinv10
*rinvsq10
-krf2
);
257 /* Update potential sums from outer loop */
262 /* Calculate temporary vectorial force */
267 /* Update vectorial force */
271 f
[j_coord_offset
+DIM
*0+XX
] -= tx
;
272 f
[j_coord_offset
+DIM
*0+YY
] -= ty
;
273 f
[j_coord_offset
+DIM
*0+ZZ
] -= tz
;
275 /**************************
276 * CALCULATE INTERACTIONS *
277 **************************/
281 /* REACTION-FIELD ELECTROSTATICS */
282 velec
= qq20
*(rinv20
+krf
*rsq20
-crf
);
283 felec
= qq20
*(rinv20
*rinvsq20
-krf2
);
285 /* Update potential sums from outer loop */
290 /* Calculate temporary vectorial force */
295 /* Update vectorial force */
299 f
[j_coord_offset
+DIM
*0+XX
] -= tx
;
300 f
[j_coord_offset
+DIM
*0+YY
] -= ty
;
301 f
[j_coord_offset
+DIM
*0+ZZ
] -= tz
;
303 /**************************
304 * CALCULATE INTERACTIONS *
305 **************************/
309 /* REACTION-FIELD ELECTROSTATICS */
310 velec
= qq30
*(rinv30
+krf
*rsq30
-crf
);
311 felec
= qq30
*(rinv30
*rinvsq30
-krf2
);
313 /* Update potential sums from outer loop */
318 /* Calculate temporary vectorial force */
323 /* Update vectorial force */
327 f
[j_coord_offset
+DIM
*0+XX
] -= tx
;
328 f
[j_coord_offset
+DIM
*0+YY
] -= ty
;
329 f
[j_coord_offset
+DIM
*0+ZZ
] -= tz
;
331 /* Inner loop uses 128 flops */
333 /* End of innermost loop */
336 f
[i_coord_offset
+DIM
*0+XX
] += fix0
;
337 f
[i_coord_offset
+DIM
*0+YY
] += fiy0
;
338 f
[i_coord_offset
+DIM
*0+ZZ
] += fiz0
;
342 f
[i_coord_offset
+DIM
*1+XX
] += fix1
;
343 f
[i_coord_offset
+DIM
*1+YY
] += fiy1
;
344 f
[i_coord_offset
+DIM
*1+ZZ
] += fiz1
;
348 f
[i_coord_offset
+DIM
*2+XX
] += fix2
;
349 f
[i_coord_offset
+DIM
*2+YY
] += fiy2
;
350 f
[i_coord_offset
+DIM
*2+ZZ
] += fiz2
;
354 f
[i_coord_offset
+DIM
*3+XX
] += fix3
;
355 f
[i_coord_offset
+DIM
*3+YY
] += fiy3
;
356 f
[i_coord_offset
+DIM
*3+ZZ
] += fiz3
;
360 fshift
[i_shift_offset
+XX
] += tx
;
361 fshift
[i_shift_offset
+YY
] += ty
;
362 fshift
[i_shift_offset
+ZZ
] += tz
;
365 /* Update potential energies */
366 kernel_data
->energygrp_elec
[ggid
] += velecsum
;
367 kernel_data
->energygrp_vdw
[ggid
] += vvdwsum
;
369 /* Increment number of inner iterations */
370 inneriter
+= j_index_end
- j_index_start
;
372 /* Outer loop uses 41 flops */
375 /* Increment number of outer iterations */
378 /* Update outer/inner flops */
380 inc_nrnb(nrnb
,eNR_NBKERNEL_ELEC_VDW_W4_VF
,outeriter
*41 + inneriter
*128);
383 * Gromacs nonbonded kernel: nb_kernel_ElecRF_VdwLJ_GeomW4P1_F_c
384 * Electrostatics interaction: ReactionField
385 * VdW interaction: LennardJones
386 * Geometry: Water4-Particle
387 * Calculate force/pot: Force
390 nb_kernel_ElecRF_VdwLJ_GeomW4P1_F_c
391 (t_nblist
* gmx_restrict nlist
,
392 rvec
* gmx_restrict xx
,
393 rvec
* gmx_restrict ff
,
394 struct t_forcerec
* gmx_restrict fr
,
395 t_mdatoms
* gmx_restrict mdatoms
,
396 nb_kernel_data_t gmx_unused
* gmx_restrict kernel_data
,
397 t_nrnb
* gmx_restrict nrnb
)
399 int i_shift_offset
,i_coord_offset
,j_coord_offset
;
400 int j_index_start
,j_index_end
;
401 int nri
,inr
,ggid
,iidx
,jidx
,jnr
,outeriter
,inneriter
;
402 real shX
,shY
,shZ
,tx
,ty
,tz
,fscal
,rcutoff
,rcutoff2
;
403 int *iinr
,*jindex
,*jjnr
,*shiftidx
,*gid
;
404 real
*shiftvec
,*fshift
,*x
,*f
;
406 real ix0
,iy0
,iz0
,fix0
,fiy0
,fiz0
,iq0
,isai0
;
408 real ix1
,iy1
,iz1
,fix1
,fiy1
,fiz1
,iq1
,isai1
;
410 real ix2
,iy2
,iz2
,fix2
,fiy2
,fiz2
,iq2
,isai2
;
412 real ix3
,iy3
,iz3
,fix3
,fiy3
,fiz3
,iq3
,isai3
;
414 real jx0
,jy0
,jz0
,fjx0
,fjy0
,fjz0
,jq0
,isaj0
;
415 real dx00
,dy00
,dz00
,rsq00
,rinv00
,rinvsq00
,r00
,qq00
,c6_00
,c12_00
,cexp1_00
,cexp2_00
;
416 real dx10
,dy10
,dz10
,rsq10
,rinv10
,rinvsq10
,r10
,qq10
,c6_10
,c12_10
,cexp1_10
,cexp2_10
;
417 real dx20
,dy20
,dz20
,rsq20
,rinv20
,rinvsq20
,r20
,qq20
,c6_20
,c12_20
,cexp1_20
,cexp2_20
;
418 real dx30
,dy30
,dz30
,rsq30
,rinv30
,rinvsq30
,r30
,qq30
,c6_30
,c12_30
,cexp1_30
,cexp2_30
;
419 real velec
,felec
,velecsum
,facel
,crf
,krf
,krf2
;
422 real rinvsix
,rvdw
,vvdw
,vvdw6
,vvdw12
,fvdw
,fvdw6
,fvdw12
,vvdwsum
,br
,vvdwexp
,sh_vdw_invrcut6
;
431 jindex
= nlist
->jindex
;
433 shiftidx
= nlist
->shift
;
435 shiftvec
= fr
->shift_vec
[0];
436 fshift
= fr
->fshift
[0];
437 facel
= fr
->ic
->epsfac
;
438 charge
= mdatoms
->chargeA
;
442 nvdwtype
= fr
->ntype
;
444 vdwtype
= mdatoms
->typeA
;
446 /* Setup water-specific parameters */
447 inr
= nlist
->iinr
[0];
448 iq1
= facel
*charge
[inr
+1];
449 iq2
= facel
*charge
[inr
+2];
450 iq3
= facel
*charge
[inr
+3];
451 vdwioffset0
= 2*nvdwtype
*vdwtype
[inr
+0];
456 /* Start outer loop over neighborlists */
457 for(iidx
=0; iidx
<nri
; iidx
++)
459 /* Load shift vector for this list */
460 i_shift_offset
= DIM
*shiftidx
[iidx
];
461 shX
= shiftvec
[i_shift_offset
+XX
];
462 shY
= shiftvec
[i_shift_offset
+YY
];
463 shZ
= shiftvec
[i_shift_offset
+ZZ
];
465 /* Load limits for loop over neighbors */
466 j_index_start
= jindex
[iidx
];
467 j_index_end
= jindex
[iidx
+1];
469 /* Get outer coordinate index */
471 i_coord_offset
= DIM
*inr
;
473 /* Load i particle coords and add shift vector */
474 ix0
= shX
+ x
[i_coord_offset
+DIM
*0+XX
];
475 iy0
= shY
+ x
[i_coord_offset
+DIM
*0+YY
];
476 iz0
= shZ
+ x
[i_coord_offset
+DIM
*0+ZZ
];
477 ix1
= shX
+ x
[i_coord_offset
+DIM
*1+XX
];
478 iy1
= shY
+ x
[i_coord_offset
+DIM
*1+YY
];
479 iz1
= shZ
+ x
[i_coord_offset
+DIM
*1+ZZ
];
480 ix2
= shX
+ x
[i_coord_offset
+DIM
*2+XX
];
481 iy2
= shY
+ x
[i_coord_offset
+DIM
*2+YY
];
482 iz2
= shZ
+ x
[i_coord_offset
+DIM
*2+ZZ
];
483 ix3
= shX
+ x
[i_coord_offset
+DIM
*3+XX
];
484 iy3
= shY
+ x
[i_coord_offset
+DIM
*3+YY
];
485 iz3
= shZ
+ x
[i_coord_offset
+DIM
*3+ZZ
];
500 /* Start inner kernel loop */
501 for(jidx
=j_index_start
; jidx
<j_index_end
; jidx
++)
503 /* Get j neighbor index, and coordinate index */
505 j_coord_offset
= DIM
*jnr
;
507 /* load j atom coordinates */
508 jx0
= x
[j_coord_offset
+DIM
*0+XX
];
509 jy0
= x
[j_coord_offset
+DIM
*0+YY
];
510 jz0
= x
[j_coord_offset
+DIM
*0+ZZ
];
512 /* Calculate displacement vector */
526 /* Calculate squared distance and things based on it */
527 rsq00
= dx00
*dx00
+dy00
*dy00
+dz00
*dz00
;
528 rsq10
= dx10
*dx10
+dy10
*dy10
+dz10
*dz10
;
529 rsq20
= dx20
*dx20
+dy20
*dy20
+dz20
*dz20
;
530 rsq30
= dx30
*dx30
+dy30
*dy30
+dz30
*dz30
;
532 rinv10
= 1.0/sqrt(rsq10
);
533 rinv20
= 1.0/sqrt(rsq20
);
534 rinv30
= 1.0/sqrt(rsq30
);
536 rinvsq00
= 1.0/rsq00
;
537 rinvsq10
= rinv10
*rinv10
;
538 rinvsq20
= rinv20
*rinv20
;
539 rinvsq30
= rinv30
*rinv30
;
541 /* Load parameters for j particles */
543 vdwjidx0
= 2*vdwtype
[jnr
+0];
545 /**************************
546 * CALCULATE INTERACTIONS *
547 **************************/
549 c6_00
= vdwparam
[vdwioffset0
+vdwjidx0
];
550 c12_00
= vdwparam
[vdwioffset0
+vdwjidx0
+1];
552 /* LENNARD-JONES DISPERSION/REPULSION */
554 rinvsix
= rinvsq00
*rinvsq00
*rinvsq00
;
555 fvdw
= (c12_00
*rinvsix
-c6_00
)*rinvsix
*rinvsq00
;
559 /* Calculate temporary vectorial force */
564 /* Update vectorial force */
568 f
[j_coord_offset
+DIM
*0+XX
] -= tx
;
569 f
[j_coord_offset
+DIM
*0+YY
] -= ty
;
570 f
[j_coord_offset
+DIM
*0+ZZ
] -= tz
;
572 /**************************
573 * CALCULATE INTERACTIONS *
574 **************************/
578 /* REACTION-FIELD ELECTROSTATICS */
579 felec
= qq10
*(rinv10
*rinvsq10
-krf2
);
583 /* Calculate temporary vectorial force */
588 /* Update vectorial force */
592 f
[j_coord_offset
+DIM
*0+XX
] -= tx
;
593 f
[j_coord_offset
+DIM
*0+YY
] -= ty
;
594 f
[j_coord_offset
+DIM
*0+ZZ
] -= tz
;
596 /**************************
597 * CALCULATE INTERACTIONS *
598 **************************/
602 /* REACTION-FIELD ELECTROSTATICS */
603 felec
= qq20
*(rinv20
*rinvsq20
-krf2
);
607 /* Calculate temporary vectorial force */
612 /* Update vectorial force */
616 f
[j_coord_offset
+DIM
*0+XX
] -= tx
;
617 f
[j_coord_offset
+DIM
*0+YY
] -= ty
;
618 f
[j_coord_offset
+DIM
*0+ZZ
] -= tz
;
620 /**************************
621 * CALCULATE INTERACTIONS *
622 **************************/
626 /* REACTION-FIELD ELECTROSTATICS */
627 felec
= qq30
*(rinv30
*rinvsq30
-krf2
);
631 /* Calculate temporary vectorial force */
636 /* Update vectorial force */
640 f
[j_coord_offset
+DIM
*0+XX
] -= tx
;
641 f
[j_coord_offset
+DIM
*0+YY
] -= ty
;
642 f
[j_coord_offset
+DIM
*0+ZZ
] -= tz
;
644 /* Inner loop uses 108 flops */
646 /* End of innermost loop */
649 f
[i_coord_offset
+DIM
*0+XX
] += fix0
;
650 f
[i_coord_offset
+DIM
*0+YY
] += fiy0
;
651 f
[i_coord_offset
+DIM
*0+ZZ
] += fiz0
;
655 f
[i_coord_offset
+DIM
*1+XX
] += fix1
;
656 f
[i_coord_offset
+DIM
*1+YY
] += fiy1
;
657 f
[i_coord_offset
+DIM
*1+ZZ
] += fiz1
;
661 f
[i_coord_offset
+DIM
*2+XX
] += fix2
;
662 f
[i_coord_offset
+DIM
*2+YY
] += fiy2
;
663 f
[i_coord_offset
+DIM
*2+ZZ
] += fiz2
;
667 f
[i_coord_offset
+DIM
*3+XX
] += fix3
;
668 f
[i_coord_offset
+DIM
*3+YY
] += fiy3
;
669 f
[i_coord_offset
+DIM
*3+ZZ
] += fiz3
;
673 fshift
[i_shift_offset
+XX
] += tx
;
674 fshift
[i_shift_offset
+YY
] += ty
;
675 fshift
[i_shift_offset
+ZZ
] += tz
;
677 /* Increment number of inner iterations */
678 inneriter
+= j_index_end
- j_index_start
;
680 /* Outer loop uses 39 flops */
683 /* Increment number of outer iterations */
686 /* Update outer/inner flops */
688 inc_nrnb(nrnb
,eNR_NBKERNEL_ELEC_VDW_W4_F
,outeriter
*39 + inneriter
*108);