src/gromacs/gmxlib/nonbonded/nb_kernel_c/nb_kernel_ElecEwSh_VdwLJSh_GeomP1P1_c.c

   1 /*
   2  * This file is part of the GROMACS molecular simulation package.
   3  *
   4  * Copyright (c) 2012,2013,2014, by the GROMACS development team, led by
   5  * Mark Abraham, David van der Spoel, Berk Hess, and Erik Lindahl,
   6  * and including many others, as listed in the AUTHORS file in the
   7  * top-level source directory and at http://www.gromacs.org.
   8  *
   9  * GROMACS is free software; you can redistribute it and/or
  10  * modify it under the terms of the GNU Lesser General Public License
  11  * as published by the Free Software Foundation; either version 2.1
  12  * of the License, or (at your option) any later version.
  13  *
  14  * GROMACS is distributed in the hope that it will be useful,
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  35 /*
  36  * Note: this file was generated by the GROMACS c kernel generator.
  37  */
  38 #include "config.h"
  39
  40 #include <math.h>
  41
  42 #include "../nb_kernel.h"
  43 #include "types/simple.h"
  44 #include "gromacs/math/vec.h"
  45 #include "nrnb.h"
  46
  47 /*
  48  * Gromacs nonbonded kernel:   nb_kernel_ElecEwSh_VdwLJSh_GeomP1P1_VF_c
  49  * Electrostatics interaction: Ewald
  50  * VdW interaction:            LennardJones
  51  * Geometry:                   Particle-Particle
  52  * Calculate force/pot:        PotentialAndForce
  53  */
  54 void
  55 nb_kernel_ElecEwSh_VdwLJSh_GeomP1P1_VF_c
  56                     (t_nblist                    * gmx_restrict       nlist,
  57                      rvec                        * gmx_restrict          xx,
  58                      rvec                        * gmx_restrict          ff,
  59                      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)
  63 {
  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;
  70     int              vdwioffset0;
  71     real             ix0,iy0,iz0,fix0,fiy0,fiz0,iq0,isai0;
  72     int              vdwjidx0;
  73     real             jx0,jy0,jz0,fjx0,fjy0,fjz0,jq0,isaj0;
  74     real             dx00,dy00,dz00,rsq00,rinv00,rinvsq00,r00,qq00,c6_00,c12_00,cexp1_00,cexp2_00;
  75     real             velec,felec,velecsum,facel,crf,krf,krf2;
  76     real             *charge;
  77     int              nvdwtype;
  78     real             rinvsix,rvdw,vvdw,vvdw6,vvdw12,fvdw,fvdw6,fvdw12,vvdwsum,br,vvdwexp,sh_vdw_invrcut6;
  79     int              *vdwtype;
  80     real             *vdwparam;
  81     int              ewitab;
  82     real             ewtabscale,eweps,sh_ewald,ewrt,ewtabhalfspace;
  83     real             *ewtab;
  84
  85     x                = xx[0];
  86     f                = ff[0];
  87
  88     nri              = nlist->nri;
  89     iinr             = nlist->iinr;
  90     jindex           = nlist->jindex;
  91     jjnr             = nlist->jjnr;
  92     shiftidx         = nlist->shift;
  93     gid              = nlist->gid;
  94     shiftvec         = fr->shift_vec[0];
  95     fshift           = fr->fshift[0];
  96     facel            = fr->epsfac;
  97     charge           = mdatoms->chargeA;
  98     nvdwtype         = fr->ntype;
  99     vdwparam         = fr->nbfp;
 100     vdwtype          = mdatoms->typeA;
 101
 102     sh_ewald         = fr->ic->sh_ewald;
 103     ewtab            = fr->ic->tabq_coul_FDV0;
 104     ewtabscale       = fr->ic->tabq_scale;
 105     ewtabhalfspace   = 0.5/ewtabscale;
 106
 107     /* When we use explicit cutoffs the value must be identical for elec and VdW, so use elec as an arbitrary choice */
 108     rcutoff          = fr->rcoulomb;
 109     rcutoff2         = rcutoff*rcutoff;
 110
 111     sh_vdw_invrcut6  = fr->ic->sh_invrc6;
 112     rvdw             = fr->rvdw;
 113
 114     outeriter        = 0;
 115     inneriter        = 0;
 116
 117     /* Start outer loop over neighborlists */
 118     for(iidx=0; iidx<nri; iidx++)
 119     {
 120         /* Load shift vector for this list */
 121         i_shift_offset   = DIM*shiftidx[iidx];
 122         shX              = shiftvec[i_shift_offset+XX];
 123         shY              = shiftvec[i_shift_offset+YY];
 124         shZ              = shiftvec[i_shift_offset+ZZ];
 125
 126         /* Load limits for loop over neighbors */
 127         j_index_start    = jindex[iidx];
 128         j_index_end      = jindex[iidx+1];
 129
 130         /* Get outer coordinate index */
 131         inr              = iinr[iidx];
 132         i_coord_offset   = DIM*inr;
 133
 134         /* Load i particle coords and add shift vector */
 135         ix0              = shX + x[i_coord_offset+DIM*0+XX];
 136         iy0              = shY + x[i_coord_offset+DIM*0+YY];
 137         iz0              = shZ + x[i_coord_offset+DIM*0+ZZ];
 138
 139         fix0             = 0.0;
 140         fiy0             = 0.0;
 141         fiz0             = 0.0;
 142
 143         /* Load parameters for i particles */
 144         iq0              = facel*charge[inr+0];
 145         vdwioffset0      = 2*nvdwtype*vdwtype[inr+0];
 146
 147         /* Reset potential sums */
 148         velecsum         = 0.0;
 149         vvdwsum          = 0.0;
 150
 151         /* Start inner kernel loop */
 152         for(jidx=j_index_start; jidx<j_index_end; jidx++)
 153         {
 154             /* Get j neighbor index, and coordinate index */
 155             jnr              = jjnr[jidx];
 156             j_coord_offset   = DIM*jnr;
 157
 158             /* load j atom coordinates */
 159             jx0              = x[j_coord_offset+DIM*0+XX];
 160             jy0              = x[j_coord_offset+DIM*0+YY];
 161             jz0              = x[j_coord_offset+DIM*0+ZZ];
 162
 163             /* Calculate displacement vector */
 164             dx00             = ix0 - jx0;
 165             dy00             = iy0 - jy0;
 166             dz00             = iz0 - jz0;
 167
 168             /* Calculate squared distance and things based on it */
 169             rsq00            = dx00*dx00+dy00*dy00+dz00*dz00;
 170
 171             rinv00           = gmx_invsqrt(rsq00);
 172
 173             rinvsq00         = rinv00*rinv00;
 174
 175             /* Load parameters for j particles */
 176             jq0              = charge[jnr+0];
 177             vdwjidx0         = 2*vdwtype[jnr+0];
 178
 179             /**************************
 180              * CALCULATE INTERACTIONS *
 181              **************************/
 182
 183             if (rsq00<rcutoff2)
 184             {
 185
 186             r00              = rsq00*rinv00;
 187
 188             qq00             = iq0*jq0;
 189             c6_00            = vdwparam[vdwioffset0+vdwjidx0];
 190             c12_00           = vdwparam[vdwioffset0+vdwjidx0+1];
 191
 192             /* EWALD ELECTROSTATICS */
 193
 194             /* Calculate Ewald table index by multiplying r with scale and truncate to integer */
 195             ewrt             = r00*ewtabscale;
 196             ewitab           = ewrt;
 197             eweps            = ewrt-ewitab;
 198             ewitab           = 4*ewitab;
 199             felec            = ewtab[ewitab]+eweps*ewtab[ewitab+1];
 200             velec            = qq00*((rinv00-sh_ewald)-(ewtab[ewitab+2]-ewtabhalfspace*eweps*(ewtab[ewitab]+felec)));
 201             felec            = qq00*rinv00*(rinvsq00-felec);
 202
 203             /* LENNARD-JONES DISPERSION/REPULSION */
 204
 205             rinvsix          = rinvsq00*rinvsq00*rinvsq00;
 206             vvdw6            = c6_00*rinvsix;
 207             vvdw12           = c12_00*rinvsix*rinvsix;
 208             vvdw             = (vvdw12 - c12_00*sh_vdw_invrcut6*sh_vdw_invrcut6)*(1.0/12.0) - (vvdw6 - c6_00*sh_vdw_invrcut6)*(1.0/6.0);
 209             fvdw             = (vvdw12-vvdw6)*rinvsq00;
 210
 211             /* Update potential sums from outer loop */
 212             velecsum        += velec;
 213             vvdwsum         += vvdw;
 214
 215             fscal            = felec+fvdw;
 216
 217             /* Calculate temporary vectorial force */
 218             tx               = fscal*dx00;
 219             ty               = fscal*dy00;
 220             tz               = fscal*dz00;
 221
 222             /* Update vectorial force */
 223             fix0            += tx;
 224             fiy0            += ty;
 225             fiz0            += tz;
 226             f[j_coord_offset+DIM*0+XX] -= tx;
 227             f[j_coord_offset+DIM*0+YY] -= ty;
 228             f[j_coord_offset+DIM*0+ZZ] -= tz;
 229
 230             }
 231
 232             /* Inner loop uses 59 flops */
 233         }
 234         /* End of innermost loop */
 235
 236         tx = ty = tz = 0;
 237         f[i_coord_offset+DIM*0+XX] += fix0;
 238         f[i_coord_offset+DIM*0+YY] += fiy0;
 239         f[i_coord_offset+DIM*0+ZZ] += fiz0;
 240         tx                         += fix0;
 241         ty                         += fiy0;
 242         tz                         += fiz0;
 243         fshift[i_shift_offset+XX]  += tx;
 244         fshift[i_shift_offset+YY]  += ty;
 245         fshift[i_shift_offset+ZZ]  += tz;
 246
 247         ggid                        = gid[iidx];
 248         /* Update potential energies */
 249         kernel_data->energygrp_elec[ggid] += velecsum;
 250         kernel_data->energygrp_vdw[ggid] += vvdwsum;
 251
 252         /* Increment number of inner iterations */
 253         inneriter                  += j_index_end - j_index_start;
 254
 255         /* Outer loop uses 15 flops */
 256     }
 257
 258     /* Increment number of outer iterations */
 259     outeriter        += nri;
 260
 261     /* Update outer/inner flops */
 262
 263     inc_nrnb(nrnb,eNR_NBKERNEL_ELEC_VDW_VF,outeriter*15 + inneriter*59);
 264 }
 265 /*
 266  * Gromacs nonbonded kernel:   nb_kernel_ElecEwSh_VdwLJSh_GeomP1P1_F_c
 267  * Electrostatics interaction: Ewald
 268  * VdW interaction:            LennardJones
 269  * Geometry:                   Particle-Particle
 270  * Calculate force/pot:        Force
 271  */
 272 void
 273 nb_kernel_ElecEwSh_VdwLJSh_GeomP1P1_F_c
 274                     (t_nblist                    * gmx_restrict       nlist,
 275                      rvec                        * gmx_restrict          xx,
 276                      rvec                        * gmx_restrict          ff,
 277                      t_forcerec                  * gmx_restrict          fr,
 278                      t_mdatoms                   * gmx_restrict     mdatoms,
 279                      nb_kernel_data_t gmx_unused * gmx_restrict kernel_data,
 280                      t_nrnb                      * gmx_restrict        nrnb)
 281 {
 282     int              i_shift_offset,i_coord_offset,j_coord_offset;
 283     int              j_index_start,j_index_end;
 284     int              nri,inr,ggid,iidx,jidx,jnr,outeriter,inneriter;
 285     real             shX,shY,shZ,tx,ty,tz,fscal,rcutoff,rcutoff2;
 286     int              *iinr,*jindex,*jjnr,*shiftidx,*gid;
 287     real             *shiftvec,*fshift,*x,*f;
 288     int              vdwioffset0;
 289     real             ix0,iy0,iz0,fix0,fiy0,fiz0,iq0,isai0;
 290     int              vdwjidx0;
 291     real             jx0,jy0,jz0,fjx0,fjy0,fjz0,jq0,isaj0;
 292     real             dx00,dy00,dz00,rsq00,rinv00,rinvsq00,r00,qq00,c6_00,c12_00,cexp1_00,cexp2_00;
 293     real             velec,felec,velecsum,facel,crf,krf,krf2;
 294     real             *charge;
 295     int              nvdwtype;
 296     real             rinvsix,rvdw,vvdw,vvdw6,vvdw12,fvdw,fvdw6,fvdw12,vvdwsum,br,vvdwexp,sh_vdw_invrcut6;
 297     int              *vdwtype;
 298     real             *vdwparam;
 299     int              ewitab;
 300     real             ewtabscale,eweps,sh_ewald,ewrt,ewtabhalfspace;
 301     real             *ewtab;
 302
 303     x                = xx[0];
 304     f                = ff[0];
 305
 306     nri              = nlist->nri;
 307     iinr             = nlist->iinr;
 308     jindex           = nlist->jindex;
 309     jjnr             = nlist->jjnr;
 310     shiftidx         = nlist->shift;
 311     gid              = nlist->gid;
 312     shiftvec         = fr->shift_vec[0];
 313     fshift           = fr->fshift[0];
 314     facel            = fr->epsfac;
 315     charge           = mdatoms->chargeA;
 316     nvdwtype         = fr->ntype;
 317     vdwparam         = fr->nbfp;
 318     vdwtype          = mdatoms->typeA;
 319
 320     sh_ewald         = fr->ic->sh_ewald;
 321     ewtab            = fr->ic->tabq_coul_F;
 322     ewtabscale       = fr->ic->tabq_scale;
 323     ewtabhalfspace   = 0.5/ewtabscale;
 324
 325     /* When we use explicit cutoffs the value must be identical for elec and VdW, so use elec as an arbitrary choice */
 326     rcutoff          = fr->rcoulomb;
 327     rcutoff2         = rcutoff*rcutoff;
 328
 329     sh_vdw_invrcut6  = fr->ic->sh_invrc6;
 330     rvdw             = fr->rvdw;
 331
 332     outeriter        = 0;
 333     inneriter        = 0;
 334
 335     /* Start outer loop over neighborlists */
 336     for(iidx=0; iidx<nri; iidx++)
 337     {
 338         /* Load shift vector for this list */
 339         i_shift_offset   = DIM*shiftidx[iidx];
 340         shX              = shiftvec[i_shift_offset+XX];
 341         shY              = shiftvec[i_shift_offset+YY];
 342         shZ              = shiftvec[i_shift_offset+ZZ];
 343
 344         /* Load limits for loop over neighbors */
 345         j_index_start    = jindex[iidx];
 346         j_index_end      = jindex[iidx+1];
 347
 348         /* Get outer coordinate index */
 349         inr              = iinr[iidx];
 350         i_coord_offset   = DIM*inr;
 351
 352         /* Load i particle coords and add shift vector */
 353         ix0              = shX + x[i_coord_offset+DIM*0+XX];
 354         iy0              = shY + x[i_coord_offset+DIM*0+YY];
 355         iz0              = shZ + x[i_coord_offset+DIM*0+ZZ];
 356
 357         fix0             = 0.0;
 358         fiy0             = 0.0;
 359         fiz0             = 0.0;
 360
 361         /* Load parameters for i particles */
 362         iq0              = facel*charge[inr+0];
 363         vdwioffset0      = 2*nvdwtype*vdwtype[inr+0];
 364
 365         /* Start inner kernel loop */
 366         for(jidx=j_index_start; jidx<j_index_end; jidx++)
 367         {
 368             /* Get j neighbor index, and coordinate index */
 369             jnr              = jjnr[jidx];
 370             j_coord_offset   = DIM*jnr;
 371
 372             /* load j atom coordinates */
 373             jx0              = x[j_coord_offset+DIM*0+XX];
 374             jy0              = x[j_coord_offset+DIM*0+YY];
 375             jz0              = x[j_coord_offset+DIM*0+ZZ];
 376
 377             /* Calculate displacement vector */
 378             dx00             = ix0 - jx0;
 379             dy00             = iy0 - jy0;
 380             dz00             = iz0 - jz0;
 381
 382             /* Calculate squared distance and things based on it */
 383             rsq00            = dx00*dx00+dy00*dy00+dz00*dz00;
 384
 385             rinv00           = gmx_invsqrt(rsq00);
 386
 387             rinvsq00         = rinv00*rinv00;
 388
 389             /* Load parameters for j particles */
 390             jq0              = charge[jnr+0];
 391             vdwjidx0         = 2*vdwtype[jnr+0];
 392
 393             /**************************
 394              * CALCULATE INTERACTIONS *
 395              **************************/
 396
 397             if (rsq00<rcutoff2)
 398             {
 399
 400             r00              = rsq00*rinv00;
 401
 402             qq00             = iq0*jq0;
 403             c6_00            = vdwparam[vdwioffset0+vdwjidx0];
 404             c12_00           = vdwparam[vdwioffset0+vdwjidx0+1];
 405
 406             /* EWALD ELECTROSTATICS */
 407
 408             /* Calculate Ewald table index by multiplying r with scale and truncate to integer */
 409             ewrt             = r00*ewtabscale;
 410             ewitab           = ewrt;
 411             eweps            = ewrt-ewitab;
 412             felec            = (1.0-eweps)*ewtab[ewitab]+eweps*ewtab[ewitab+1];
 413             felec            = qq00*rinv00*(rinvsq00-felec);
 414
 415             /* LENNARD-JONES DISPERSION/REPULSION */
 416
 417             rinvsix          = rinvsq00*rinvsq00*rinvsq00;
 418             fvdw             = (c12_00*rinvsix-c6_00)*rinvsix*rinvsq00;
 419
 420             fscal            = felec+fvdw;
 421
 422             /* Calculate temporary vectorial force */
 423             tx               = fscal*dx00;
 424             ty               = fscal*dy00;
 425             tz               = fscal*dz00;
 426
 427             /* Update vectorial force */
 428             fix0            += tx;
 429             fiy0            += ty;
 430             fiz0            += tz;
 431             f[j_coord_offset+DIM*0+XX] -= tx;
 432             f[j_coord_offset+DIM*0+YY] -= ty;
 433             f[j_coord_offset+DIM*0+ZZ] -= tz;
 434
 435             }
 436
 437             /* Inner loop uses 41 flops */
 438         }
 439         /* End of innermost loop */
 440
 441         tx = ty = tz = 0;
 442         f[i_coord_offset+DIM*0+XX] += fix0;
 443         f[i_coord_offset+DIM*0+YY] += fiy0;
 444         f[i_coord_offset+DIM*0+ZZ] += fiz0;
 445         tx                         += fix0;
 446         ty                         += fiy0;
 447         tz                         += fiz0;
 448         fshift[i_shift_offset+XX]  += tx;
 449         fshift[i_shift_offset+YY]  += ty;
 450         fshift[i_shift_offset+ZZ]  += tz;
 451
 452         /* Increment number of inner iterations */
 453         inneriter                  += j_index_end - j_index_start;
 454
 455         /* Outer loop uses 13 flops */
 456     }
 457
 458     /* Increment number of outer iterations */
 459     outeriter        += nri;
 460
 461     /* Update outer/inner flops */
 462
 463     inc_nrnb(nrnb,eNR_NBKERNEL_ELEC_VDW_F,outeriter*13 + inneriter*41);
 464 }