1 subroutine etotal(energia)
2 implicit real*8 (a-h,o-z)
7 cMS$ATTRIBUTES C :: proc_proc
12 double precision weights_(n_ene)
14 include 'COMMON.SETUP'
15 include 'COMMON.IOUNITS'
16 double precision energia(0:n_ene)
17 include 'COMMON.LOCAL'
18 include 'COMMON.FFIELD'
19 include 'COMMON.DERIV'
20 include 'COMMON.INTERACT'
21 include 'COMMON.SBRIDGE'
22 include 'COMMON.CHAIN'
25 include 'COMMON.CONTROL'
26 include 'COMMON.TIME1'
28 c print*,"ETOTAL Processor",fg_rank," absolute rank",myrank,
29 c & " nfgtasks",nfgtasks
31 if (nfgtasks.gt.1) then
37 C FG slaves call the following matching MPI_Bcast in ERGASTULUM
38 if (fg_rank.eq.0) then
39 call MPI_Bcast(0,1,MPI_INTEGER,king,FG_COMM,IERROR)
40 c print *,"Processor",myrank," BROADCAST iorder"
41 C FG master sets up the WEIGHTS_ array which will be broadcast to the
42 C FG slaves as WEIGHTS array.
63 C FG Master broadcasts the WEIGHTS_ array
64 call MPI_Bcast(weights_(1),n_ene,
65 & MPI_DOUBLE_PRECISION,king,FG_COMM,IERROR)
67 C FG slaves receive the WEIGHTS array
68 call MPI_Bcast(weights(1),n_ene,
69 & MPI_DOUBLE_PRECISION,king,FG_COMM,IERROR)
91 time_Bcast=time_Bcast+MPI_Wtime()-time00
92 time_Bcastw=time_Bcastw+MPI_Wtime()-time00
93 c call chainbuild_cart
95 c write(iout,*) 'Processor',myrank,' calling etotal ipot=',ipot
96 c print *,'Processor',myrank,' nnt=',nnt,' nct=',nct
98 c if (modecalc.eq.12.or.modecalc.eq.14) then
99 c call int_from_cart1(.false.)
110 C Compute the side-chain and electrostatic interaction energy
112 goto (101,102,103,104,105,106) ipot
113 C Lennard-Jones potential.
114 101 call elj(evdw,evdw_p,evdw_m)
115 cd print '(a)','Exit ELJ'
117 C Lennard-Jones-Kihara potential (shifted).
118 102 call eljk(evdw,evdw_p,evdw_m)
120 C Berne-Pechukas potential (dilated LJ, angular dependence).
121 103 call ebp(evdw,evdw_p,evdw_m)
123 C Gay-Berne potential (shifted LJ, angular dependence).
124 104 call egb(evdw,evdw_p,evdw_m)
126 C Gay-Berne-Vorobjev potential (shifted LJ, angular dependence).
127 105 call egbv(evdw,evdw_p,evdw_m)
129 C Soft-sphere potential
130 106 call e_softsphere(evdw)
132 C Calculate electrostatic (H-bonding) energy of the main chain.
135 C BARTEK for dfa test!
136 if (wdfa_dist.gt.0) then
141 c print*, 'edfad is finished!', edfadis
142 if (wdfa_tor.gt.0) then
147 c print*, 'edfat is finished!', edfator
148 if (wdfa_nei.gt.0) then
153 c print*, 'edfan is finished!', edfanei
154 if (wdfa_beta.gt.0) then
159 c print*, 'edfab is finished!', edfabet
161 cmc Sep-06: egb takes care of dynamic ss bonds too
163 c if (dyn_ss) call dyn_set_nss
165 c print *,"Processor",myrank," computed USCSC"
176 time_vec=time_vec+MPI_Wtime()-time01
178 time_vec=time_vec+tcpu()-time01
181 c print *,"Processor",myrank," left VEC_AND_DERIV"
184 if (welec.gt.0d0.or.wvdwpp.gt.0d0.or.wel_loc.gt.0d0.or.
185 & wturn3.gt.0d0.or.wturn4.gt.0d0 .or. wcorr.gt.0.0d0
186 & .or. wcorr4.gt.0.0d0 .or. wcorr5.gt.0.d0
187 & .or. wcorr6.gt.0.0d0 .or. wturn6.gt.0.0d0 ) then
189 if (welec.gt.0d0.or.wel_loc.gt.0d0.or.
190 & wturn3.gt.0d0.or.wturn4.gt.0d0 .or. wcorr.gt.0.0d0
191 & .or. wcorr4.gt.0.0d0 .or. wcorr5.gt.0.d0
192 & .or. wcorr6.gt.0.0d0 .or. wturn6.gt.0.0d0 ) then
194 call eelec(ees,evdw1,eel_loc,eello_turn3,eello_turn4)
203 c write (iout,*) "Soft-spheer ELEC potential"
204 call eelec_soft_sphere(ees,evdw1,eel_loc,eello_turn3,
207 c print *,"Processor",myrank," computed UELEC"
209 C Calculate excluded-volume interaction energy between peptide groups
214 call escp(evdw2,evdw2_14)
220 c write (iout,*) "Soft-sphere SCP potential"
221 call escp_soft_sphere(evdw2,evdw2_14)
224 c Calculate the bond-stretching energy
228 C Calculate the disulfide-bridge and other energy and the contributions
229 C from other distance constraints.
230 cd print *,'Calling EHPB'
232 cd print *,'EHPB exitted succesfully.'
234 C Calculate the virtual-bond-angle energy.
236 if (wang.gt.0d0) then
241 c print *,"Processor",myrank," computed UB"
243 C Calculate the SC local energy.
246 c print *,"Processor",myrank," computed USC"
248 C Calculate the virtual-bond torsional energy.
250 cd print *,'nterm=',nterm
252 call etor(etors,edihcnstr)
258 if (constr_homology.ge.1) then
259 call e_modeller(ehomology_constr)
260 c print *,'iset=',iset,'me=',me,ehomology_constr,
261 c & 'Processor',fg_rank,' CG group',kolor,
262 c & ' absolute rank',MyRank
264 ehomology_constr=0.0d0
268 c write(iout,*) ehomology_constr
269 c print *,"Processor",myrank," computed Utor"
271 C 6/23/01 Calculate double-torsional energy
273 if (wtor_d.gt.0) then
278 c print *,"Processor",myrank," computed Utord"
280 C 21/5/07 Calculate local sicdechain correlation energy
282 if (wsccor.gt.0.0d0) then
283 call eback_sc_corr(esccor)
287 c print *,"Processor",myrank," computed Usccorr"
289 C 12/1/95 Multi-body terms
293 if ((wcorr4.gt.0.0d0 .or. wcorr5.gt.0.0d0 .or. wcorr6.gt.0.0d0
294 & .or. wturn6.gt.0.0d0) .and. ipot.lt.6) then
295 call multibody_eello(ecorr,ecorr5,ecorr6,eturn6,n_corr,n_corr1)
296 cd write(2,*)'multibody_eello n_corr=',n_corr,' n_corr1=',n_corr1,
297 cd &" ecorr",ecorr," ecorr5",ecorr5," ecorr6",ecorr6," eturn6",eturn6
304 if ((wcorr4.eq.0.0d0 .and. wcorr.gt.0.0d0) .and. ipot.lt.6) then
305 call multibody_hb(ecorr,ecorr5,ecorr6,n_corr,n_corr1)
306 cd write (iout,*) "multibody_hb ecorr",ecorr
308 c print *,"Processor",myrank," computed Ucorr"
310 C If performing constraint dynamics, call the constraint energy
311 C after the equilibration time
312 if(usampl.and.totT.gt.eq_time) then
313 c write (iout,*) "CALL TO ECONSTR_BACK"
322 time_enecalc=time_enecalc+MPI_Wtime()-time00
324 time_enecalc=time_enecalc+tcpu()-time00
327 c print *,"Processor",myrank," computed Uconstr"
340 energia(2)=evdw2-evdw2_14
357 energia(8)=eello_turn3
358 energia(9)=eello_turn4
365 energia(19)=edihcnstr
367 energia(20)=Uconst+Uconst_back
371 energia(24)=ehomology_constr
376 c print *," Processor",myrank," calls SUM_ENERGY"
377 call sum_energy(energia,.true.)
378 if (dyn_ss) call dyn_set_nss
379 c print *," Processor",myrank," left SUM_ENERGY"
382 time_sumene=time_sumene+MPI_Wtime()-time00
384 time_sumene=time_sumene+tcpu()-time00
389 c-------------------------------------------------------------------------------
390 subroutine sum_energy(energia,reduce)
391 implicit real*8 (a-h,o-z)
396 cMS$ATTRIBUTES C :: proc_proc
402 include 'COMMON.SETUP'
403 include 'COMMON.IOUNITS'
404 double precision energia(0:n_ene),enebuff(0:n_ene+1)
405 include 'COMMON.FFIELD'
406 include 'COMMON.DERIV'
407 include 'COMMON.INTERACT'
408 include 'COMMON.SBRIDGE'
409 include 'COMMON.CHAIN'
411 include 'COMMON.CONTROL'
412 include 'COMMON.TIME1'
415 if (nfgtasks.gt.1 .and. reduce) then
417 write (iout,*) "energies before REDUCE"
418 call enerprint(energia)
422 enebuff(i)=energia(i)
425 call MPI_Barrier(FG_COMM,IERR)
426 time_barrier_e=time_barrier_e+MPI_Wtime()-time00
428 call MPI_Reduce(enebuff(0),energia(0),n_ene+1,
429 & MPI_DOUBLE_PRECISION,MPI_SUM,king,FG_COMM,IERR)
431 write (iout,*) "energies after REDUCE"
432 call enerprint(energia)
435 time_Reduce=time_Reduce+MPI_Wtime()-time00
437 if (fg_rank.eq.0) then
440 evdw=energia(22)+wsct*energia(23)
445 evdw2=energia(2)+energia(18)
461 eello_turn3=energia(8)
462 eello_turn4=energia(9)
469 edihcnstr=energia(19)
473 ehomology_constr=energia(24)
479 etot=wsc*evdw+wscp*evdw2+welec*ees+wvdwpp*evdw1
480 & +wang*ebe+wtor*etors+wscloc*escloc
481 & +wstrain*ehpb+wcorr*ecorr+wcorr5*ecorr5
482 & +wcorr6*ecorr6+wturn4*eello_turn4+wturn3*eello_turn3
483 & +wturn6*eturn6+wel_loc*eel_loc+edihcnstr+wtor_d*etors_d
484 & +wbond*estr+Uconst+wsccor*esccor+ehomology_constr
485 & +wdfa_dist*edfadis+wdfa_tor*edfator+wdfa_nei*edfanei
488 etot=wsc*evdw+wscp*evdw2+welec*(ees+evdw1)
489 & +wang*ebe+wtor*etors+wscloc*escloc
490 & +wstrain*ehpb+wcorr*ecorr+wcorr5*ecorr5
491 & +wcorr6*ecorr6+wturn4*eello_turn4+wturn3*eello_turn3
492 & +wturn6*eturn6+wel_loc*eel_loc+edihcnstr+wtor_d*etors_d
493 & +wbond*estr+Uconst+wsccor*esccor+ehomology_constr
494 & +wdfa_dist*edfadis+wdfa_tor*edfator+wdfa_nei*edfanei
501 if (isnan(etot).ne.0) energia(0)=1.0d+99
503 if (isnan(etot)) energia(0)=1.0d+99
508 idumm=proc_proc(etot,i)
510 call proc_proc(etot,i)
512 if(i.eq.1)energia(0)=1.0d+99
519 c-------------------------------------------------------------------------------
520 subroutine sum_gradient
521 implicit real*8 (a-h,o-z)
526 cMS$ATTRIBUTES C :: proc_proc
532 double precision gradbufc(3,maxres),gradbufx(3,maxres),
533 & glocbuf(4*maxres),gradbufc_sum(3,maxres),gloc_scbuf(3,maxres)
534 include 'COMMON.SETUP'
535 include 'COMMON.IOUNITS'
536 include 'COMMON.FFIELD'
537 include 'COMMON.DERIV'
538 include 'COMMON.INTERACT'
539 include 'COMMON.SBRIDGE'
540 include 'COMMON.CHAIN'
542 include 'COMMON.CONTROL'
543 include 'COMMON.TIME1'
544 include 'COMMON.MAXGRAD'
545 include 'COMMON.SCCOR'
554 write (iout,*) "sum_gradient gvdwc, gvdwx"
556 write (iout,'(i3,3f10.5,5x,3f10.5,5x,3f10.5,5x,3f10.5)')
557 & i,(gvdwx(j,i),j=1,3),(gvdwcT(j,i),j=1,3),(gvdwc(j,i),j=1,3),
558 & (gvdwcT(j,i),j=1,3)
563 C FG slaves call the following matching MPI_Bcast in ERGASTULUM
564 if (nfgtasks.gt.1 .and. fg_rank.eq.0)
565 & call MPI_Bcast(1,1,MPI_INTEGER,king,FG_COMM,IERROR)
568 C 9/29/08 AL Transform parts of gradients in site coordinates to the gradient
569 C in virtual-bond-vector coordinates
572 c write (iout,*) "gel_loc gel_loc_long and gel_loc_loc"
574 c write (iout,'(i5,3f10.5,2x,3f10.5,2x,f10.5)')
575 c & i,(gel_loc(j,i),j=1,3),(gel_loc_long(j,i),j=1,3),gel_loc_loc(i)
577 c write (iout,*) "gel_loc_tur3 gel_loc_turn4"
579 c write (iout,'(i5,3f10.5,2x,f10.5)')
580 c & i,(gcorr4_turn(j,i),j=1,3),gel_loc_turn4(i)
582 write (iout,*) "gradcorr5 gradcorr5_long gradcorr5_loc"
584 write (iout,'(i3,3f10.5,5x,3f10.5,5x,f10.5)')
585 & i,(gradcorr5(j,i),j=1,3),(gradcorr5_long(j,i),j=1,3),
594 gradbufc(j,i)=wsc*gvdwc(j,i)+wsc*wscT*gvdwcT(j,i)+
595 & wscp*(gvdwc_scp(j,i)+gvdwc_scpp(j,i))+
596 & welec*gelc_long(j,i)+wvdwpp*gvdwpp(j,i)+
597 & wel_loc*gel_loc_long(j,i)+
598 & wcorr*gradcorr_long(j,i)+
599 & wcorr5*gradcorr5_long(j,i)+
600 & wcorr6*gradcorr6_long(j,i)+
601 & wturn6*gcorr6_turn_long(j,i)+
602 & wstrain*ghpbc(j,i)+
603 & wdfa_dist*gdfad(j,i)+
604 & wdfa_tor*gdfat(j,i)+
605 & wdfa_nei*gdfan(j,i)+
606 & wdfa_beta*gdfab(j,i)
612 gradbufc(j,i)=wsc*gvdwc(j,i)+
613 & wscp*(gvdwc_scp(j,i)+gvdwc_scpp(j,i))+
614 & welec*gelc_long(j,i)+wvdwpp*gvdwpp(j,i)+
615 & wel_loc*gel_loc_long(j,i)+
616 & wcorr*gradcorr_long(j,i)+
617 & wcorr5*gradcorr5_long(j,i)+
618 & wcorr6*gradcorr6_long(j,i)+
619 & wturn6*gcorr6_turn_long(j,i)+
620 & wstrain*ghpbc(j,i)+
621 & wdfa_dist*gdfad(j,i)+
622 & wdfa_tor*gdfat(j,i)+
623 & wdfa_nei*gdfan(j,i)+
624 & wdfa_beta*gdfab(j,i)
631 gradbufc(j,i)=wsc*gvdwc(j,i)+
632 & wscp*(gvdwc_scp(j,i)+gvdwc_scpp(j,i))+
633 & welec*gelc_long(j,i)+
635 & wel_loc*gel_loc_long(j,i)+
636 & wcorr*gradcorr_long(j,i)+
637 & wcorr5*gradcorr5_long(j,i)+
638 & wcorr6*gradcorr6_long(j,i)+
639 & wturn6*gcorr6_turn_long(j,i)+
640 & wstrain*ghpbc(j,i)+
641 & wdfa_dist*gdfad(j,i)+
642 & wdfa_tor*gdfat(j,i)+
643 & wdfa_nei*gdfan(j,i)+
644 & wdfa_beta*gdfab(j,i)
649 if (nfgtasks.gt.1) then
652 write (iout,*) "gradbufc before allreduce"
654 write (iout,'(i3,3f10.5)') i,(gradbufc(j,i),j=1,3)
660 gradbufc_sum(j,i)=gradbufc(j,i)
663 c call MPI_AllReduce(gradbufc(1,1),gradbufc_sum(1,1),3*nres,
664 c & MPI_DOUBLE_PRECISION,MPI_SUM,FG_COMM,IERR)
665 c time_reduce=time_reduce+MPI_Wtime()-time00
667 c write (iout,*) "gradbufc_sum after allreduce"
669 c write (iout,'(i3,3f10.5)') i,(gradbufc_sum(j,i),j=1,3)
674 c time_allreduce=time_allreduce+MPI_Wtime()-time00
682 write (iout,*) "igrad_start",igrad_start," igrad_end",igrad_end
683 write (iout,*) (i," jgrad_start",jgrad_start(i),
684 & " jgrad_end ",jgrad_end(i),
685 & i=igrad_start,igrad_end)
688 c Obsolete and inefficient code; we can make the effort O(n) and, therefore,
689 c do not parallelize this part.
691 c do i=igrad_start,igrad_end
692 c do j=jgrad_start(i),jgrad_end(i)
694 c gradbufc(k,i)=gradbufc(k,i)+gradbufc_sum(k,j)
699 gradbufc(j,nres-1)=gradbufc_sum(j,nres)
703 gradbufc(j,i)=gradbufc(j,i+1)+gradbufc_sum(j,i+1)
707 write (iout,*) "gradbufc after summing"
709 write (iout,'(i3,3f10.5)') i,(gradbufc(j,i),j=1,3)
716 write (iout,*) "gradbufc"
718 write (iout,'(i3,3f10.5)') i,(gradbufc(j,i),j=1,3)
724 gradbufc_sum(j,i)=gradbufc(j,i)
729 gradbufc(j,nres-1)=gradbufc_sum(j,nres)
733 gradbufc(j,i)=gradbufc(j,i+1)+gradbufc_sum(j,i+1)
738 c gradbufc(k,i)=0.0d0
742 c gradbufc(k,i)=gradbufc(k,i)+gradbufc(k,j)
747 write (iout,*) "gradbufc after summing"
749 write (iout,'(i3,3f10.5)') i,(gradbufc(j,i),j=1,3)
757 gradbufc(k,nres)=0.0d0
762 gradc(j,i,icg)=gradbufc(j,i)+welec*gelc(j,i)+
763 & wel_loc*gel_loc(j,i)+
764 & 0.5d0*(wscp*gvdwc_scpp(j,i)+
765 & welec*gelc_long(j,i)+wvdwpp*gvdwpp(j,i)+
766 & wel_loc*gel_loc_long(j,i)+
767 & wcorr*gradcorr_long(j,i)+
768 & wcorr5*gradcorr5_long(j,i)+
769 & wcorr6*gradcorr6_long(j,i)+
770 & wturn6*gcorr6_turn_long(j,i))+
772 & wcorr*gradcorr(j,i)+
773 & wturn3*gcorr3_turn(j,i)+
774 & wturn4*gcorr4_turn(j,i)+
775 & wcorr5*gradcorr5(j,i)+
776 & wcorr6*gradcorr6(j,i)+
777 & wturn6*gcorr6_turn(j,i)+
778 & wsccor*gsccorc(j,i)
779 & +wscloc*gscloc(j,i)
781 gradc(j,i,icg)=gradbufc(j,i)+welec*gelc(j,i)+
782 & wel_loc*gel_loc(j,i)+
783 & 0.5d0*(wscp*gvdwc_scpp(j,i)+
784 & welec*gelc_long(j,i)+
785 & wel_loc*gel_loc_long(j,i)+
786 & wcorr*gcorr_long(j,i)+
787 & wcorr5*gradcorr5_long(j,i)+
788 & wcorr6*gradcorr6_long(j,i)+
789 & wturn6*gcorr6_turn_long(j,i))+
791 & wcorr*gradcorr(j,i)+
792 & wturn3*gcorr3_turn(j,i)+
793 & wturn4*gcorr4_turn(j,i)+
794 & wcorr5*gradcorr5(j,i)+
795 & wcorr6*gradcorr6(j,i)+
796 & wturn6*gcorr6_turn(j,i)+
797 & wsccor*gsccorc(j,i)
798 & +wscloc*gscloc(j,i)
801 gradx(j,i,icg)=wsc*gvdwx(j,i)+wsc*wscT*gvdwxT(j,i)+
802 & wscp*gradx_scp(j,i)+
804 & wstrain*ghpbx(j,i)+wcorr*gradxorr(j,i)+
805 & wsccor*gsccorx(j,i)
806 & +wscloc*gsclocx(j,i)
808 gradx(j,i,icg)=wsc*gvdwx(j,i)+wscp*gradx_scp(j,i)+
810 & wstrain*ghpbx(j,i)+wcorr*gradxorr(j,i)+
811 & wsccor*gsccorx(j,i)
812 & +wscloc*gsclocx(j,i)
817 write (iout,*) "gloc before adding corr"
819 write (iout,*) i,gloc(i,icg)
823 gloc(i,icg)=gloc(i,icg)+wcorr*gcorr_loc(i)
824 & +wcorr5*g_corr5_loc(i)
825 & +wcorr6*g_corr6_loc(i)
826 & +wturn4*gel_loc_turn4(i)
827 & +wturn3*gel_loc_turn3(i)
828 & +wturn6*gel_loc_turn6(i)
829 & +wel_loc*gel_loc_loc(i)
832 write (iout,*) "gloc after adding corr"
834 write (iout,*) i,gloc(i,icg)
838 if (nfgtasks.gt.1) then
841 gradbufc(j,i)=gradc(j,i,icg)
842 gradbufx(j,i)=gradx(j,i,icg)
846 glocbuf(i)=gloc(i,icg)
849 write (iout,*) "gloc_sc before reduce"
852 write (iout,*) i,j,gloc_sc(j,i,icg)
858 gloc_scbuf(j,i)=gloc_sc(j,i,icg)
862 call MPI_Barrier(FG_COMM,IERR)
863 time_barrier_g=time_barrier_g+MPI_Wtime()-time00
865 call MPI_Reduce(gradbufc(1,1),gradc(1,1,icg),3*nres,
866 & MPI_DOUBLE_PRECISION,MPI_SUM,king,FG_COMM,IERR)
867 call MPI_Reduce(gradbufx(1,1),gradx(1,1,icg),3*nres,
868 & MPI_DOUBLE_PRECISION,MPI_SUM,king,FG_COMM,IERR)
869 call MPI_Reduce(glocbuf(1),gloc(1,icg),4*nres,
870 & MPI_DOUBLE_PRECISION,MPI_SUM,king,FG_COMM,IERR)
871 call MPI_Reduce(gloc_scbuf(1,1),gloc_sc(1,1,icg),3*nres,
872 & MPI_DOUBLE_PRECISION,MPI_SUM,king,FG_COMM,IERR)
873 time_reduce=time_reduce+MPI_Wtime()-time00
875 write (iout,*) "gloc_sc after reduce"
878 write (iout,*) i,j,gloc_sc(j,i,icg)
883 write (iout,*) "gloc after reduce"
885 write (iout,*) i,gloc(i,icg)
890 if (gnorm_check) then
892 c Compute the maximum elements of the gradient
902 gcorr3_turn_max=0.0d0
903 gcorr4_turn_max=0.0d0
906 gcorr6_turn_max=0.0d0
916 gvdwc_norm=dsqrt(scalar(gvdwc(1,i),gvdwc(1,i)))
917 if (gvdwc_norm.gt.gvdwc_max) gvdwc_max=gvdwc_norm
919 gvdwc_norm=dsqrt(scalar(gvdwcT(1,i),gvdwcT(1,i)))
920 if (gvdwc_norm.gt.gvdwc_max) gvdwc_max=gvdwc_norm
922 gvdwc_scp_norm=dsqrt(scalar(gvdwc_scp(1,i),gvdwc_scp(1,i)))
923 if (gvdwc_scp_norm.gt.gvdwc_scp_max)
924 & gvdwc_scp_max=gvdwc_scp_norm
925 gelc_norm=dsqrt(scalar(gelc(1,i),gelc(1,i)))
926 if (gelc_norm.gt.gelc_max) gelc_max=gelc_norm
927 gvdwpp_norm=dsqrt(scalar(gvdwpp(1,i),gvdwpp(1,i)))
928 if (gvdwpp_norm.gt.gvdwpp_max) gvdwpp_max=gvdwpp_norm
929 gradb_norm=dsqrt(scalar(gradb(1,i),gradb(1,i)))
930 if (gradb_norm.gt.gradb_max) gradb_max=gradb_norm
931 ghpbc_norm=dsqrt(scalar(ghpbc(1,i),ghpbc(1,i)))
932 if (ghpbc_norm.gt.ghpbc_max) ghpbc_max=ghpbc_norm
933 gradcorr_norm=dsqrt(scalar(gradcorr(1,i),gradcorr(1,i)))
934 if (gradcorr_norm.gt.gradcorr_max) gradcorr_max=gradcorr_norm
935 gel_loc_norm=dsqrt(scalar(gel_loc(1,i),gel_loc(1,i)))
936 if (gel_loc_norm.gt.gel_loc_max) gel_loc_max=gel_loc_norm
937 gcorr3_turn_norm=dsqrt(scalar(gcorr3_turn(1,i),
939 if (gcorr3_turn_norm.gt.gcorr3_turn_max)
940 & gcorr3_turn_max=gcorr3_turn_norm
941 gcorr4_turn_norm=dsqrt(scalar(gcorr4_turn(1,i),
943 if (gcorr4_turn_norm.gt.gcorr4_turn_max)
944 & gcorr4_turn_max=gcorr4_turn_norm
945 gradcorr5_norm=dsqrt(scalar(gradcorr5(1,i),gradcorr5(1,i)))
946 if (gradcorr5_norm.gt.gradcorr5_max)
947 & gradcorr5_max=gradcorr5_norm
948 gradcorr6_norm=dsqrt(scalar(gradcorr6(1,i),gradcorr6(1,i)))
949 if (gradcorr6_norm.gt.gradcorr6_max) gcorr6_max=gradcorr6_norm
950 gcorr6_turn_norm=dsqrt(scalar(gcorr6_turn(1,i),
952 if (gcorr6_turn_norm.gt.gcorr6_turn_max)
953 & gcorr6_turn_max=gcorr6_turn_norm
954 gsccorr_norm=dsqrt(scalar(gsccorc(1,i),gsccorc(1,i)))
955 if (gsccorr_norm.gt.gsccorr_max) gsccorr_max=gsccorr_norm
956 gscloc_norm=dsqrt(scalar(gscloc(1,i),gscloc(1,i)))
957 if (gscloc_norm.gt.gscloc_max) gscloc_max=gscloc_norm
958 gvdwx_norm=dsqrt(scalar(gvdwx(1,i),gvdwx(1,i)))
959 if (gvdwx_norm.gt.gvdwx_max) gvdwx_max=gvdwx_norm
961 gvdwx_norm=dsqrt(scalar(gvdwxT(1,i),gvdwxT(1,i)))
962 if (gvdwx_norm.gt.gvdwx_max) gvdwx_max=gvdwx_norm
964 gradx_scp_norm=dsqrt(scalar(gradx_scp(1,i),gradx_scp(1,i)))
965 if (gradx_scp_norm.gt.gradx_scp_max)
966 & gradx_scp_max=gradx_scp_norm
967 ghpbx_norm=dsqrt(scalar(ghpbx(1,i),ghpbx(1,i)))
968 if (ghpbx_norm.gt.ghpbx_max) ghpbx_max=ghpbx_norm
969 gradxorr_norm=dsqrt(scalar(gradxorr(1,i),gradxorr(1,i)))
970 if (gradxorr_norm.gt.gradxorr_max) gradxorr_max=gradxorr_norm
971 gsccorrx_norm=dsqrt(scalar(gsccorx(1,i),gsccorx(1,i)))
972 if (gsccorrx_norm.gt.gsccorrx_max) gsccorrx_max=gsccorrx_norm
973 gsclocx_norm=dsqrt(scalar(gsclocx(1,i),gsclocx(1,i)))
974 if (gsclocx_norm.gt.gsclocx_max) gsclocx_max=gsclocx_norm
978 open(istat,file=statname,position="append")
980 open(istat,file=statname,access="append")
982 write (istat,'(1h#,21f10.2)') gvdwc_max,gvdwc_scp_max,
983 & gelc_max,gvdwpp_max,gradb_max,ghpbc_max,
984 & gradcorr_max,gel_loc_max,gcorr3_turn_max,gcorr4_turn_max,
985 & gradcorr5_max,gradcorr6_max,gcorr6_turn_max,gsccorc_max,
986 & gscloc_max,gvdwx_max,gradx_scp_max,ghpbx_max,gradxorr_max,
987 & gsccorx_max,gsclocx_max
989 if (gvdwc_max.gt.1.0d4) then
990 write (iout,*) "gvdwc gvdwx gradb gradbx"
992 write(iout,'(i5,4(3f10.2,5x))') i,(gvdwc(j,i),gvdwx(j,i),
993 & gradb(j,i),gradbx(j,i),j=1,3)
995 call pdbout(0.0d0,'cipiszcze',iout)
1001 write (iout,*) "gradc gradx gloc"
1003 write (iout,'(i5,3f10.5,5x,3f10.5,5x,f10.5)')
1004 & i,(gradc(j,i,icg),j=1,3),(gradx(j,i,icg),j=1,3),gloc(i,icg)
1009 time_sumgradient=time_sumgradient+MPI_Wtime()-time01
1011 time_sumgradient=time_sumgradient+tcpu()-time01
1016 c-------------------------------------------------------------------------------
1017 subroutine rescale_weights(t_bath)
1018 implicit real*8 (a-h,o-z)
1019 include 'DIMENSIONS'
1020 include 'COMMON.IOUNITS'
1021 include 'COMMON.FFIELD'
1022 include 'COMMON.SBRIDGE'
1023 double precision kfac /2.4d0/
1024 double precision x,x2,x3,x4,x5,licznik /1.12692801104297249644/
1026 c facT=2*temp0/(t_bath+temp0)
1027 if (rescale_mode.eq.0) then
1033 else if (rescale_mode.eq.1) then
1034 facT=kfac/(kfac-1.0d0+t_bath/temp0)
1035 facT2=kfac**2/(kfac**2-1.0d0+(t_bath/temp0)**2)
1036 facT3=kfac**3/(kfac**3-1.0d0+(t_bath/temp0)**3)
1037 facT4=kfac**4/(kfac**4-1.0d0+(t_bath/temp0)**4)
1038 facT5=kfac**5/(kfac**5-1.0d0+(t_bath/temp0)**5)
1039 else if (rescale_mode.eq.2) then
1045 facT=licznik/dlog(dexp(x)+dexp(-x))
1046 facT2=licznik/dlog(dexp(x2)+dexp(-x2))
1047 facT3=licznik/dlog(dexp(x3)+dexp(-x3))
1048 facT4=licznik/dlog(dexp(x4)+dexp(-x4))
1049 facT5=licznik/dlog(dexp(x5)+dexp(-x5))
1051 write (iout,*) "Wrong RESCALE_MODE",rescale_mode
1052 write (*,*) "Wrong RESCALE_MODE",rescale_mode
1054 call MPI_Finalize(MPI_COMM_WORLD,IERROR)
1058 welec=weights(3)*fact
1059 wcorr=weights(4)*fact3
1060 wcorr5=weights(5)*fact4
1061 wcorr6=weights(6)*fact5
1062 wel_loc=weights(7)*fact2
1063 wturn3=weights(8)*fact2
1064 wturn4=weights(9)*fact3
1065 wturn6=weights(10)*fact5
1066 wtor=weights(13)*fact
1067 wtor_d=weights(14)*fact2
1068 wsccor=weights(21)*fact
1071 wsct=(320.0+80.0*dtanh((t_bath-320.0)/80.0))/320.0
1075 C------------------------------------------------------------------------
1076 subroutine enerprint(energia)
1077 implicit real*8 (a-h,o-z)
1078 include 'DIMENSIONS'
1079 include 'COMMON.IOUNITS'
1080 include 'COMMON.FFIELD'
1081 include 'COMMON.SBRIDGE'
1083 double precision energia(0:n_ene)
1086 evdw=energia(22)+wsct*energia(23)
1092 evdw2=energia(2)+energia(18)
1104 eello_turn3=energia(8)
1105 eello_turn4=energia(9)
1106 eello_turn6=energia(10)
1112 edihcnstr=energia(19)
1116 ehomology_constr=energia(24)
1118 edfadis = energia(25)
1119 edfator = energia(26)
1120 edfanei = energia(27)
1121 edfabet = energia(28)
1124 write (iout,10) evdw,wsc,evdw2,wscp,ees,welec,evdw1,wvdwpp,
1125 & estr,wbond,ebe,wang,
1126 & escloc,wscloc,etors,wtor,etors_d,wtor_d,ehpb,wstrain,
1128 & ecorr5,wcorr5,ecorr6,wcorr6,eel_loc,wel_loc,eello_turn3,wturn3,
1129 & eello_turn4,wturn4,eello_turn6,wturn6,esccor,wsccor,
1130 & edihcnstr,ehomology_constr, ebr*nss,
1131 & Uconst,edfadis,wdfa_dist,edfator,wdfa_tor,edfanei,wdfa_nei,
1132 & edfabet,wdfa_beta,etot
1133 10 format (/'Virtual-chain energies:'//
1134 & 'EVDW= ',1pE16.6,' WEIGHT=',1pE16.6,' (SC-SC)'/
1135 & 'EVDW2= ',1pE16.6,' WEIGHT=',1pE16.6,' (SC-p)'/
1136 & 'EES= ',1pE16.6,' WEIGHT=',1pE16.6,' (p-p)'/
1137 & 'EVDWPP=',1pE16.6,' WEIGHT=',1pE16.6,' (p-p VDW)'/
1138 & 'ESTR= ',1pE16.6,' WEIGHT=',1pE16.6,' (stretching)'/
1139 & 'EBE= ',1pE16.6,' WEIGHT=',1pE16.6,' (bending)'/
1140 & 'ESC= ',1pE16.6,' WEIGHT=',1pE16.6,' (SC local)'/
1141 & 'ETORS= ',1pE16.6,' WEIGHT=',1pE16.6,' (torsional)'/
1142 & 'ETORSD=',1pE16.6,' WEIGHT=',1pE16.6,' (double torsional)'/
1143 & 'EHPB= ',1pE16.6,' WEIGHT=',1pE16.6,
1144 & ' (SS bridges & dist. cnstr.)'/
1145 & 'ECORR4=',1pE16.6,' WEIGHT=',1pE16.6,' (multi-body)'/
1146 & 'ECORR5=',1pE16.6,' WEIGHT=',1pE16.6,' (multi-body)'/
1147 & 'ECORR6=',1pE16.6,' WEIGHT=',1pE16.6,' (multi-body)'/
1148 & 'EELLO= ',1pE16.6,' WEIGHT=',1pE16.6,' (electrostatic-local)'/
1149 & 'ETURN3=',1pE16.6,' WEIGHT=',1pE16.6,' (turns, 3rd order)'/
1150 & 'ETURN4=',1pE16.6,' WEIGHT=',1pE16.6,' (turns, 4th order)'/
1151 & 'ETURN6=',1pE16.6,' WEIGHT=',1pE16.6,' (turns, 6th order)'/
1152 & 'ESCCOR=',1pE16.6,' WEIGHT=',1pE16.6,' (backbone-rotamer corr)'/
1153 & 'EDIHC= ',1pE16.6,' (dihedral angle constraints)'/
1154 & 'H_CONS=',1pE16.6,' (Homology model constraints energy)'/
1155 & 'ESS= ',1pE16.6,' (disulfide-bridge intrinsic energy)'/
1156 & 'UCONST= ',1pE16.6,' (Constraint energy)'/
1157 & 'EDFAD= ',1pE16.6,' WEIGHT=',1pE16.6,' (DFA distance energy)'/
1158 & 'EDFAT= ',1pE16.6,' WEIGHT=',1pE16.6,' (DFA torsion energy)'/
1159 & 'EDFAN= ',1pE16.6,' WEIGHT=',1pE16.6,' (DFA NCa energy)'/
1160 & 'EDFAB= ',1pE16.6,' WEIGHT=',1pE16.6,' (DFA Beta energy)'/
1161 & 'ETOT= ',1pE16.6,' (total)')
1163 write (iout,10) evdw,wsc,evdw2,wscp,ees,welec,
1164 & estr,wbond,ebe,wang,
1165 & escloc,wscloc,etors,wtor,etors_d,wtor_d,ehpb,wstrain,
1167 & ecorr5,wcorr5,ecorr6,wcorr6,eel_loc,wel_loc,eello_turn3,wturn3,
1168 & eello_turn4,wturn4,eello_turn6,wturn6,esccor,wsccro,edihcnstr,
1169 & ehomology_constr,ebr*nss,Uconst,edfadis,wdfa_dist,edfator,
1170 & wdfa_tor,edfanei,wdfa_nei,edfabet,wdfa_beta,
1172 10 format (/'Virtual-chain energies:'//
1173 & 'EVDW= ',1pE16.6,' WEIGHT=',1pD16.6,' (SC-SC)'/
1174 & 'EVDW2= ',1pE16.6,' WEIGHT=',1pD16.6,' (SC-p)'/
1175 & 'EES= ',1pE16.6,' WEIGHT=',1pD16.6,' (p-p)'/
1176 & 'ESTR= ',1pE16.6,' WEIGHT=',1pD16.6,' (stretching)'/
1177 & 'EBE= ',1pE16.6,' WEIGHT=',1pD16.6,' (bending)'/
1178 & 'ESC= ',1pE16.6,' WEIGHT=',1pD16.6,' (SC local)'/
1179 & 'ETORS= ',1pE16.6,' WEIGHT=',1pD16.6,' (torsional)'/
1180 & 'ETORSD=',1pE16.6,' WEIGHT=',1pD16.6,' (double torsional)'/
1181 & 'EHBP= ',1pE16.6,' WEIGHT=',1pD16.6,
1182 & ' (SS bridges & dist. cnstr.)'/
1183 & 'ECORR4=',1pE16.6,' WEIGHT=',1pD16.6,' (multi-body)'/
1184 & 'ECORR5=',1pE16.6,' WEIGHT=',1pD16.6,' (multi-body)'/
1185 & 'ECORR6=',1pE16.6,' WEIGHT=',1pD16.6,' (multi-body)'/
1186 & 'EELLO= ',1pE16.6,' WEIGHT=',1pD16.6,' (electrostatic-local)'/
1187 & 'ETURN3=',1pE16.6,' WEIGHT=',1pD16.6,' (turns, 3rd order)'/
1188 & 'ETURN4=',1pE16.6,' WEIGHT=',1pD16.6,' (turns, 4th order)'/
1189 & 'ETURN6=',1pE16.6,' WEIGHT=',1pD16.6,' (turns, 6th order)'/
1190 & 'ESCCOR=',1pE16.6,' WEIGHT=',1pD16.6,' (backbone-rotamer corr)'/
1191 & 'EDIHC= ',1pE16.6,' (dihedral angle constraints)'/
1192 & 'H_CONS=',1pE16.6,' (Homology model constraints energy)'/
1193 & 'ESS= ',1pE16.6,' (disulfide-bridge intrinsic energy)'/
1194 & 'UCONST=',1pE16.6,' (Constraint energy)'/
1195 & 'EDFAD= ',1pE16.6,' WEIGHT=',1pD16.6,' (DFA distance energy)'/
1196 & 'EDFAT= ',1pE16.6,' WEIGHT=',1pD16.6,' (DFA torsion energy)'/
1197 & 'EDFAN= ',1pE16.6,' WEIGHT=',1pD16.6,' (DFA NCa energy)'/
1198 & 'EDFAB= ',1pE16.6,' WEIGHT=',1pD16.6,' (DFA Beta energy)'/
1199 & 'ETOT= ',1pE16.6,' (total)')
1203 C-----------------------------------------------------------------------
1204 subroutine elj(evdw,evdw_p,evdw_m)
1206 C This subroutine calculates the interaction energy of nonbonded side chains
1207 C assuming the LJ potential of interaction.
1209 implicit real*8 (a-h,o-z)
1210 include 'DIMENSIONS'
1211 parameter (accur=1.0d-10)
1212 include 'COMMON.GEO'
1213 include 'COMMON.VAR'
1214 include 'COMMON.LOCAL'
1215 include 'COMMON.CHAIN'
1216 include 'COMMON.DERIV'
1217 include 'COMMON.INTERACT'
1218 include 'COMMON.TORSION'
1219 include 'COMMON.SBRIDGE'
1220 include 'COMMON.NAMES'
1221 include 'COMMON.IOUNITS'
1222 include 'COMMON.CONTACTS'
1224 c write(iout,*)'Entering ELJ nnt=',nnt,' nct=',nct,' expon=',expon
1226 do i=iatsc_s,iatsc_e
1235 C Calculate SC interaction energy.
1237 do iint=1,nint_gr(i)
1238 cd write (iout,*) 'i=',i,' iint=',iint,' istart=',istart(i,iint),
1239 cd & 'iend=',iend(i,iint)
1240 do j=istart(i,iint),iend(i,iint)
1245 C Change 12/1/95 to calculate four-body interactions
1246 rij=xj*xj+yj*yj+zj*zj
1248 c write (iout,*)'i=',i,' j=',j,' itypi=',itypi,' itypj=',itypj
1249 eps0ij=eps(itypi,itypj)
1251 e1=fac*fac*aa(itypi,itypj)
1252 e2=fac*bb(itypi,itypj)
1254 cd sigm=dabs(aa(itypi,itypj)/bb(itypi,itypj))**(1.0D0/6.0D0)
1255 cd epsi=bb(itypi,itypj)**2/aa(itypi,itypj)
1256 cd write (iout,'(2(a3,i3,2x),6(1pd12.4)/2(3(1pd12.4),5x)/)')
1257 cd & restyp(itypi),i,restyp(itypj),j,aa(itypi,itypj),
1258 cd & bb(itypi,itypj),1.0D0/dsqrt(rrij),evdwij,epsi,sigm,
1259 cd & (c(k,i),k=1,3),(c(k,j),k=1,3)
1261 if (bb(itypi,itypj).gt.0) then
1262 evdw_p=evdw_p+evdwij
1264 evdw_m=evdw_m+evdwij
1270 C Calculate the components of the gradient in DC and X
1272 fac=-rrij*(e1+evdwij)
1277 if (bb(itypi,itypj).gt.0.0d0) then
1279 gvdwx(k,i)=gvdwx(k,i)-gg(k)
1280 gvdwx(k,j)=gvdwx(k,j)+gg(k)
1281 gvdwc(k,i)=gvdwc(k,i)-gg(k)
1282 gvdwc(k,j)=gvdwc(k,j)+gg(k)
1286 gvdwxT(k,i)=gvdwxT(k,i)-gg(k)
1287 gvdwxT(k,j)=gvdwxT(k,j)+gg(k)
1288 gvdwcT(k,i)=gvdwcT(k,i)-gg(k)
1289 gvdwcT(k,j)=gvdwcT(k,j)+gg(k)
1294 gvdwx(k,i)=gvdwx(k,i)-gg(k)
1295 gvdwx(k,j)=gvdwx(k,j)+gg(k)
1296 gvdwc(k,i)=gvdwc(k,i)-gg(k)
1297 gvdwc(k,j)=gvdwc(k,j)+gg(k)
1302 cgrad gvdwc(l,k)=gvdwc(l,k)+gg(l)
1306 C 12/1/95, revised on 5/20/97
1308 C Calculate the contact function. The ith column of the array JCONT will
1309 C contain the numbers of atoms that make contacts with the atom I (of numbers
1310 C greater than I). The arrays FACONT and GACONT will contain the values of
1311 C the contact function and its derivative.
1313 C Uncomment next line, if the correlation interactions include EVDW explicitly.
1314 c if (j.gt.i+1 .and. evdwij.le.0.0D0) then
1315 C Uncomment next line, if the correlation interactions are contact function only
1316 if (j.gt.i+1.and. eps0ij.gt.0.0D0) then
1318 sigij=sigma(itypi,itypj)
1319 r0ij=rs0(itypi,itypj)
1321 C Check whether the SC's are not too far to make a contact.
1324 call gcont(rij,rcut,1.0d0,0.2d0*rcut,fcont,fprimcont)
1325 C Add a new contact, if the SC's are close enough, but not too close (r<sigma).
1327 if (fcont.gt.0.0D0) then
1328 C If the SC-SC distance if close to sigma, apply spline.
1329 cAdam call gcont(-rij,-1.03d0*sigij,2.0d0*sigij,1.0d0,
1330 cAdam & fcont1,fprimcont1)
1331 cAdam fcont1=1.0d0-fcont1
1332 cAdam if (fcont1.gt.0.0d0) then
1333 cAdam fprimcont=fprimcont*fcont1+fcont*fprimcont1
1334 cAdam fcont=fcont*fcont1
1336 C Uncomment following 4 lines to have the geometric average of the epsilon0's
1337 cga eps0ij=1.0d0/dsqrt(eps0ij)
1339 cga gg(k)=gg(k)*eps0ij
1341 cga eps0ij=-evdwij*eps0ij
1342 C Uncomment for AL's type of SC correlation interactions.
1343 cadam eps0ij=-evdwij
1344 num_conti=num_conti+1
1345 jcont(num_conti,i)=j
1346 facont(num_conti,i)=fcont*eps0ij
1347 fprimcont=eps0ij*fprimcont/rij
1349 cAdam gacont(1,num_conti,i)=-fprimcont*xj+fcont*gg(1)
1350 cAdam gacont(2,num_conti,i)=-fprimcont*yj+fcont*gg(2)
1351 cAdam gacont(3,num_conti,i)=-fprimcont*zj+fcont*gg(3)
1352 C Uncomment following 3 lines for Skolnick's type of SC correlation.
1353 gacont(1,num_conti,i)=-fprimcont*xj
1354 gacont(2,num_conti,i)=-fprimcont*yj
1355 gacont(3,num_conti,i)=-fprimcont*zj
1356 cd write (iout,'(2i5,2f10.5)') i,j,rij,facont(num_conti,i)
1357 cd write (iout,'(2i3,3f10.5)')
1358 cd & i,j,(gacont(kk,num_conti,i),kk=1,3)
1364 num_cont(i)=num_conti
1368 gvdwc(j,i)=expon*gvdwc(j,i)
1369 gvdwx(j,i)=expon*gvdwx(j,i)
1372 C******************************************************************************
1376 C To save time, the factor of EXPON has been extracted from ALL components
1377 C of GVDWC and GRADX. Remember to multiply them by this factor before further
1380 C******************************************************************************
1383 C-----------------------------------------------------------------------------
1384 subroutine eljk(evdw,evdw_p,evdw_m)
1386 C This subroutine calculates the interaction energy of nonbonded side chains
1387 C assuming the LJK potential of interaction.
1389 implicit real*8 (a-h,o-z)
1390 include 'DIMENSIONS'
1391 include 'COMMON.GEO'
1392 include 'COMMON.VAR'
1393 include 'COMMON.LOCAL'
1394 include 'COMMON.CHAIN'
1395 include 'COMMON.DERIV'
1396 include 'COMMON.INTERACT'
1397 include 'COMMON.IOUNITS'
1398 include 'COMMON.NAMES'
1401 c print *,'Entering ELJK nnt=',nnt,' nct=',nct,' expon=',expon
1403 do i=iatsc_s,iatsc_e
1410 C Calculate SC interaction energy.
1412 do iint=1,nint_gr(i)
1413 do j=istart(i,iint),iend(i,iint)
1418 rrij=1.0D0/(xj*xj+yj*yj+zj*zj)
1419 fac_augm=rrij**expon
1420 e_augm=augm(itypi,itypj)*fac_augm
1421 r_inv_ij=dsqrt(rrij)
1423 r_shift_inv=1.0D0/(rij+r0(itypi,itypj)-sigma(itypi,itypj))
1424 fac=r_shift_inv**expon
1425 e1=fac*fac*aa(itypi,itypj)
1426 e2=fac*bb(itypi,itypj)
1428 cd sigm=dabs(aa(itypi,itypj)/bb(itypi,itypj))**(1.0D0/6.0D0)
1429 cd epsi=bb(itypi,itypj)**2/aa(itypi,itypj)
1430 cd write (iout,'(2(a3,i3,2x),8(1pd12.4)/2(3(1pd12.4),5x)/)')
1431 cd & restyp(itypi),i,restyp(itypj),j,aa(itypi,itypj),
1432 cd & bb(itypi,itypj),augm(itypi,itypj),epsi,sigm,
1433 cd & sigma(itypi,itypj),1.0D0/dsqrt(rrij),evdwij,
1434 cd & (c(k,i),k=1,3),(c(k,j),k=1,3)
1436 if (bb(itypi,itypj).gt.0) then
1437 evdw_p=evdw_p+evdwij
1439 evdw_m=evdw_m+evdwij
1445 C Calculate the components of the gradient in DC and X
1447 fac=-2.0D0*rrij*e_augm-r_inv_ij*r_shift_inv*(e1+e1+e2)
1452 if (bb(itypi,itypj).gt.0.0d0) then
1454 gvdwx(k,i)=gvdwx(k,i)-gg(k)
1455 gvdwx(k,j)=gvdwx(k,j)+gg(k)
1456 gvdwc(k,i)=gvdwc(k,i)-gg(k)
1457 gvdwc(k,j)=gvdwc(k,j)+gg(k)
1461 gvdwxT(k,i)=gvdwxT(k,i)-gg(k)
1462 gvdwxT(k,j)=gvdwxT(k,j)+gg(k)
1463 gvdwcT(k,i)=gvdwcT(k,i)-gg(k)
1464 gvdwcT(k,j)=gvdwcT(k,j)+gg(k)
1469 gvdwx(k,i)=gvdwx(k,i)-gg(k)
1470 gvdwx(k,j)=gvdwx(k,j)+gg(k)
1471 gvdwc(k,i)=gvdwc(k,i)-gg(k)
1472 gvdwc(k,j)=gvdwc(k,j)+gg(k)
1477 cgrad gvdwc(l,k)=gvdwc(l,k)+gg(l)
1485 gvdwc(j,i)=expon*gvdwc(j,i)
1486 gvdwx(j,i)=expon*gvdwx(j,i)
1491 C-----------------------------------------------------------------------------
1492 subroutine ebp(evdw,evdw_p,evdw_m)
1494 C This subroutine calculates the interaction energy of nonbonded side chains
1495 C assuming the Berne-Pechukas potential of interaction.
1497 implicit real*8 (a-h,o-z)
1498 include 'DIMENSIONS'
1499 include 'COMMON.GEO'
1500 include 'COMMON.VAR'
1501 include 'COMMON.LOCAL'
1502 include 'COMMON.CHAIN'
1503 include 'COMMON.DERIV'
1504 include 'COMMON.NAMES'
1505 include 'COMMON.INTERACT'
1506 include 'COMMON.IOUNITS'
1507 include 'COMMON.CALC'
1508 common /srutu/ icall
1509 c double precision rrsave(maxdim)
1512 c print *,'Entering EBP nnt=',nnt,' nct=',nct,' expon=',expon
1514 c if (icall.eq.0) then
1520 do i=iatsc_s,iatsc_e
1526 dxi=dc_norm(1,nres+i)
1527 dyi=dc_norm(2,nres+i)
1528 dzi=dc_norm(3,nres+i)
1529 c dsci_inv=dsc_inv(itypi)
1530 dsci_inv=vbld_inv(i+nres)
1532 C Calculate SC interaction energy.
1534 do iint=1,nint_gr(i)
1535 do j=istart(i,iint),iend(i,iint)
1538 c dscj_inv=dsc_inv(itypj)
1539 dscj_inv=vbld_inv(j+nres)
1540 chi1=chi(itypi,itypj)
1541 chi2=chi(itypj,itypi)
1548 alf12=0.5D0*(alf1+alf2)
1549 C For diagnostics only!!!
1562 dxj=dc_norm(1,nres+j)
1563 dyj=dc_norm(2,nres+j)
1564 dzj=dc_norm(3,nres+j)
1565 rrij=1.0D0/(xj*xj+yj*yj+zj*zj)
1566 cd if (icall.eq.0) then
1572 C Calculate the angle-dependent terms of energy & contributions to derivatives.
1574 C Calculate whole angle-dependent part of epsilon and contributions
1575 C to its derivatives
1576 fac=(rrij*sigsq)**expon2
1577 e1=fac*fac*aa(itypi,itypj)
1578 e2=fac*bb(itypi,itypj)
1579 evdwij=eps1*eps2rt*eps3rt*(e1+e2)
1580 eps2der=evdwij*eps3rt
1581 eps3der=evdwij*eps2rt
1582 evdwij=evdwij*eps2rt*eps3rt
1584 if (bb(itypi,itypj).gt.0) then
1585 evdw_p=evdw_p+evdwij
1587 evdw_m=evdw_m+evdwij
1593 sigm=dabs(aa(itypi,itypj)/bb(itypi,itypj))**(1.0D0/6.0D0)
1594 epsi=bb(itypi,itypj)**2/aa(itypi,itypj)
1595 cd write (iout,'(2(a3,i3,2x),15(0pf7.3))')
1596 cd & restyp(itypi),i,restyp(itypj),j,
1597 cd & epsi,sigm,chi1,chi2,chip1,chip2,
1598 cd & eps1,eps2rt**2,eps3rt**2,1.0D0/dsqrt(sigsq),
1599 cd & om1,om2,om12,1.0D0/dsqrt(rrij),
1602 C Calculate gradient components.
1603 e1=e1*eps1*eps2rt**2*eps3rt**2
1604 fac=-expon*(e1+evdwij)
1607 C Calculate radial part of the gradient
1611 C Calculate the angular part of the gradient and sum add the contributions
1612 C to the appropriate components of the Cartesian gradient.
1614 if (bb(itypi,itypj).gt.0) then
1628 C-----------------------------------------------------------------------------
1629 subroutine egb(evdw,evdw_p,evdw_m)
1631 C This subroutine calculates the interaction energy of nonbonded side chains
1632 C assuming the Gay-Berne potential of interaction.
1634 implicit real*8 (a-h,o-z)
1635 include 'DIMENSIONS'
1636 include 'COMMON.GEO'
1637 include 'COMMON.VAR'
1638 include 'COMMON.LOCAL'
1639 include 'COMMON.CHAIN'
1640 include 'COMMON.DERIV'
1641 include 'COMMON.NAMES'
1642 include 'COMMON.INTERACT'
1643 include 'COMMON.IOUNITS'
1644 include 'COMMON.CALC'
1645 include 'COMMON.CONTROL'
1646 include 'COMMON.SBRIDGE'
1649 ccccc energy_dec=.false.
1650 c print *,'Entering EGB nnt=',nnt,' nct=',nct,' expon=',expon
1655 c if (icall.eq.0) lprn=.false.
1657 do i=iatsc_s,iatsc_e
1663 dxi=dc_norm(1,nres+i)
1664 dyi=dc_norm(2,nres+i)
1665 dzi=dc_norm(3,nres+i)
1666 c dsci_inv=dsc_inv(itypi)
1667 dsci_inv=vbld_inv(i+nres)
1668 c write (iout,*) "i",i,dsc_inv(itypi),dsci_inv,1.0d0/vbld(i+nres)
1669 c write (iout,*) "dcnori",dxi*dxi+dyi*dyi+dzi*dzi
1671 C Calculate SC interaction energy.
1673 do iint=1,nint_gr(i)
1674 do j=istart(i,iint),iend(i,iint)
1675 IF (dyn_ss_mask(i).and.dyn_ss_mask(j)) THEN
1676 call dyn_ssbond_ene(i,j,evdwij)
1678 if (energy_dec) write (iout,'(a6,2i5,0pf7.3,a3)')
1679 & 'evdw',i,j,evdwij,' ss'
1683 c dscj_inv=dsc_inv(itypj)
1684 dscj_inv=vbld_inv(j+nres)
1685 c write (iout,*) "j",j,dsc_inv(itypj),dscj_inv,
1686 c & 1.0d0/vbld(j+nres)
1687 c write (iout,*) "i",i," j", j," itype",itype(i),itype(j)
1688 sig0ij=sigma(itypi,itypj)
1689 chi1=chi(itypi,itypj)
1690 chi2=chi(itypj,itypi)
1697 alf12=0.5D0*(alf1+alf2)
1698 C For diagnostics only!!!
1711 dxj=dc_norm(1,nres+j)
1712 dyj=dc_norm(2,nres+j)
1713 dzj=dc_norm(3,nres+j)
1714 c write (iout,*) "dcnorj",dxi*dxi+dyi*dyi+dzi*dzi
1715 c write (iout,*) "j",j," dc_norm",
1716 c & dc_norm(1,nres+j),dc_norm(2,nres+j),dc_norm(3,nres+j)
1717 rrij=1.0D0/(xj*xj+yj*yj+zj*zj)
1719 C Calculate angle-dependent terms of energy and contributions to their
1723 sig=sig0ij*dsqrt(sigsq)
1724 rij_shift=1.0D0/rij-sig+sig0ij
1725 c for diagnostics; uncomment
1726 c rij_shift=1.2*sig0ij
1727 C I hate to put IF's in the loops, but here don't have another choice!!!!
1728 if (rij_shift.le.0.0D0) then
1730 cd write (iout,'(2(a3,i3,2x),17(0pf7.3))')
1731 cd & restyp(itypi),i,restyp(itypj),j,
1732 cd & rij_shift,1.0D0/rij,sig,sig0ij,sigsq,1-dsqrt(sigsq)
1736 c---------------------------------------------------------------
1737 rij_shift=1.0D0/rij_shift
1738 fac=rij_shift**expon
1739 e1=fac*fac*aa(itypi,itypj)
1740 e2=fac*bb(itypi,itypj)
1741 evdwij=eps1*eps2rt*eps3rt*(e1+e2)
1742 eps2der=evdwij*eps3rt
1743 eps3der=evdwij*eps2rt
1744 c write (iout,*) "sigsq",sigsq," sig",sig," eps2rt",eps2rt,
1745 c & " eps3rt",eps3rt," eps1",eps1," e1",e1," e2",e2
1746 evdwij=evdwij*eps2rt*eps3rt
1748 if (bb(itypi,itypj).gt.0) then
1749 evdw_p=evdw_p+evdwij
1751 evdw_m=evdw_m+evdwij
1757 sigm=dabs(aa(itypi,itypj)/bb(itypi,itypj))**(1.0D0/6.0D0)
1758 epsi=bb(itypi,itypj)**2/aa(itypi,itypj)
1759 write (iout,'(2(a3,i3,2x),17(0pf7.3))')
1760 & restyp(itypi),i,restyp(itypj),j,
1761 & epsi,sigm,chi1,chi2,chip1,chip2,
1762 & eps1,eps2rt**2,eps3rt**2,sig,sig0ij,
1763 & om1,om2,om12,1.0D0/rij,1.0D0/rij_shift,
1767 if (energy_dec) write (iout,'(a6,2i5,0pf7.3)')
1770 C Calculate gradient components.
1771 e1=e1*eps1*eps2rt**2*eps3rt**2
1772 fac=-expon*(e1+evdwij)*rij_shift
1776 C Calculate the radial part of the gradient
1780 C Calculate angular part of the gradient.
1782 if (bb(itypi,itypj).gt.0) then
1794 c write (iout,*) "Number of loop steps in EGB:",ind
1795 cccc energy_dec=.false.
1798 C-----------------------------------------------------------------------------
1799 subroutine egbv(evdw,evdw_p,evdw_m)
1801 C This subroutine calculates the interaction energy of nonbonded side chains
1802 C assuming the Gay-Berne-Vorobjev potential of interaction.
1804 implicit real*8 (a-h,o-z)
1805 include 'DIMENSIONS'
1806 include 'COMMON.GEO'
1807 include 'COMMON.VAR'
1808 include 'COMMON.LOCAL'
1809 include 'COMMON.CHAIN'
1810 include 'COMMON.DERIV'
1811 include 'COMMON.NAMES'
1812 include 'COMMON.INTERACT'
1813 include 'COMMON.IOUNITS'
1814 include 'COMMON.CALC'
1815 common /srutu/ icall
1818 c print *,'Entering EGB nnt=',nnt,' nct=',nct,' expon=',expon
1821 c if (icall.eq.0) lprn=.true.
1823 do i=iatsc_s,iatsc_e
1829 dxi=dc_norm(1,nres+i)
1830 dyi=dc_norm(2,nres+i)
1831 dzi=dc_norm(3,nres+i)
1832 c dsci_inv=dsc_inv(itypi)
1833 dsci_inv=vbld_inv(i+nres)
1835 C Calculate SC interaction energy.
1837 do iint=1,nint_gr(i)
1838 do j=istart(i,iint),iend(i,iint)
1841 c dscj_inv=dsc_inv(itypj)
1842 dscj_inv=vbld_inv(j+nres)
1843 sig0ij=sigma(itypi,itypj)
1844 r0ij=r0(itypi,itypj)
1845 chi1=chi(itypi,itypj)
1846 chi2=chi(itypj,itypi)
1853 alf12=0.5D0*(alf1+alf2)
1854 C For diagnostics only!!!
1867 dxj=dc_norm(1,nres+j)
1868 dyj=dc_norm(2,nres+j)
1869 dzj=dc_norm(3,nres+j)
1870 rrij=1.0D0/(xj*xj+yj*yj+zj*zj)
1872 C Calculate angle-dependent terms of energy and contributions to their
1876 sig=sig0ij*dsqrt(sigsq)
1877 rij_shift=1.0D0/rij-sig+r0ij
1878 C I hate to put IF's in the loops, but here don't have another choice!!!!
1879 if (rij_shift.le.0.0D0) then
1884 c---------------------------------------------------------------
1885 rij_shift=1.0D0/rij_shift
1886 fac=rij_shift**expon
1887 e1=fac*fac*aa(itypi,itypj)
1888 e2=fac*bb(itypi,itypj)
1889 evdwij=eps1*eps2rt*eps3rt*(e1+e2)
1890 eps2der=evdwij*eps3rt
1891 eps3der=evdwij*eps2rt
1892 fac_augm=rrij**expon
1893 e_augm=augm(itypi,itypj)*fac_augm
1894 evdwij=evdwij*eps2rt*eps3rt
1896 if (bb(itypi,itypj).gt.0) then
1897 evdw_p=evdw_p+evdwij+e_augm
1899 evdw_m=evdw_m+evdwij+e_augm
1902 evdw=evdw+evdwij+e_augm
1905 sigm=dabs(aa(itypi,itypj)/bb(itypi,itypj))**(1.0D0/6.0D0)
1906 epsi=bb(itypi,itypj)**2/aa(itypi,itypj)
1907 write (iout,'(2(a3,i3,2x),17(0pf7.3))')
1908 & restyp(itypi),i,restyp(itypj),j,
1909 & epsi,sigm,sig,(augm(itypi,itypj)/epsi)**(1.0D0/12.0D0),
1910 & chi1,chi2,chip1,chip2,
1911 & eps1,eps2rt**2,eps3rt**2,
1912 & om1,om2,om12,1.0D0/rij,1.0D0/rij_shift,
1915 C Calculate gradient components.
1916 e1=e1*eps1*eps2rt**2*eps3rt**2
1917 fac=-expon*(e1+evdwij)*rij_shift
1919 fac=rij*fac-2*expon*rrij*e_augm
1920 C Calculate the radial part of the gradient
1924 C Calculate angular part of the gradient.
1926 if (bb(itypi,itypj).gt.0) then
1938 C-----------------------------------------------------------------------------
1939 subroutine sc_angular
1940 C Calculate eps1,eps2,eps3,sigma, and parts of their derivatives in om1,om2,
1941 C om12. Called by ebp, egb, and egbv.
1943 include 'COMMON.CALC'
1944 include 'COMMON.IOUNITS'
1948 om1=dxi*erij(1)+dyi*erij(2)+dzi*erij(3)
1949 om2=dxj*erij(1)+dyj*erij(2)+dzj*erij(3)
1950 om12=dxi*dxj+dyi*dyj+dzi*dzj
1952 C Calculate eps1(om12) and its derivative in om12
1953 faceps1=1.0D0-om12*chiom12
1954 faceps1_inv=1.0D0/faceps1
1955 eps1=dsqrt(faceps1_inv)
1956 C Following variable is eps1*deps1/dom12
1957 eps1_om12=faceps1_inv*chiom12
1962 c write (iout,*) "om12",om12," eps1",eps1
1963 C Calculate sigma(om1,om2,om12) and the derivatives of sigma**2 in om1,om2,
1968 facsig=om1*chiom1+om2*chiom2-2.0D0*om1om2*chiom12
1969 sigsq=1.0D0-facsig*faceps1_inv
1970 sigsq_om1=(chiom1-chiom12*om2)*faceps1_inv
1971 sigsq_om2=(chiom2-chiom12*om1)*faceps1_inv
1972 sigsq_om12=-chi12*(om1om2*faceps1-om12*facsig)*faceps1_inv**2
1978 c write (iout,*) "chiom1",chiom1," chiom2",chiom2," chiom12",chiom12
1979 c write (iout,*) "faceps1",faceps1," faceps1_inv",faceps1_inv,
1981 C Calculate eps2 and its derivatives in om1, om2, and om12.
1984 chipom12=chip12*om12
1985 facp=1.0D0-om12*chipom12
1987 facp1=om1*chipom1+om2*chipom2-2.0D0*om1om2*chipom12
1988 c write (iout,*) "chipom1",chipom1," chipom2",chipom2,
1989 c & " chipom12",chipom12," facp",facp," facp_inv",facp_inv
1990 C Following variable is the square root of eps2
1991 eps2rt=1.0D0-facp1*facp_inv
1992 C Following three variables are the derivatives of the square root of eps
1993 C in om1, om2, and om12.
1994 eps2rt_om1=-4.0D0*(chipom1-chipom12*om2)*facp_inv
1995 eps2rt_om2=-4.0D0*(chipom2-chipom12*om1)*facp_inv
1996 eps2rt_om12=4.0D0*chip12*(om1om2*facp-om12*facp1)*facp_inv**2
1997 C Evaluate the "asymmetric" factor in the VDW constant, eps3
1998 eps3rt=1.0D0-alf1*om1+alf2*om2-alf12*om12
1999 c write (iout,*) "eps2rt",eps2rt," eps3rt",eps3rt
2000 c write (iout,*) "eps2rt_om1",eps2rt_om1," eps2rt_om2",eps2rt_om2,
2001 c & " eps2rt_om12",eps2rt_om12
2002 C Calculate whole angle-dependent part of epsilon and contributions
2003 C to its derivatives
2007 C----------------------------------------------------------------------------
2008 subroutine sc_grad_T
2009 implicit real*8 (a-h,o-z)
2010 include 'DIMENSIONS'
2011 include 'COMMON.CHAIN'
2012 include 'COMMON.DERIV'
2013 include 'COMMON.CALC'
2014 include 'COMMON.IOUNITS'
2015 double precision dcosom1(3),dcosom2(3)
2016 eom1=eps2der*eps2rt_om1-2.0D0*alf1*eps3der+sigder*sigsq_om1
2017 eom2=eps2der*eps2rt_om2+2.0D0*alf2*eps3der+sigder*sigsq_om2
2018 eom12=evdwij*eps1_om12+eps2der*eps2rt_om12
2019 & -2.0D0*alf12*eps3der+sigder*sigsq_om12
2023 c eom12=evdwij*eps1_om12
2025 c write (iout,*) "eps2der",eps2der," eps3der",eps3der,
2026 c & " sigder",sigder
2027 c write (iout,*) "eps1_om12",eps1_om12," eps2rt_om12",eps2rt_om12
2028 c write (iout,*) "eom1",eom1," eom2",eom2," eom12",eom12
2030 dcosom1(k)=rij*(dc_norm(k,nres+i)-om1*erij(k))
2031 dcosom2(k)=rij*(dc_norm(k,nres+j)-om2*erij(k))
2034 gg(k)=gg(k)+eom1*dcosom1(k)+eom2*dcosom2(k)
2036 c write (iout,*) "gg",(gg(k),k=1,3)
2038 gvdwxT(k,i)=gvdwxT(k,i)-gg(k)
2039 & +(eom12*(dc_norm(k,nres+j)-om12*dc_norm(k,nres+i))
2040 & +eom1*(erij(k)-om1*dc_norm(k,nres+i)))*dsci_inv
2041 gvdwxT(k,j)=gvdwxT(k,j)+gg(k)
2042 & +(eom12*(dc_norm(k,nres+i)-om12*dc_norm(k,nres+j))
2043 & +eom2*(erij(k)-om2*dc_norm(k,nres+j)))*dscj_inv
2044 c write (iout,*)(eom12*(dc_norm(k,nres+j)-om12*dc_norm(k,nres+i))
2045 c & +eom1*(erij(k)-om1*dc_norm(k,nres+i)))*dsci_inv
2046 c write (iout,*)(eom12*(dc_norm(k,nres+i)-om12*dc_norm(k,nres+j))
2047 c & +eom2*(erij(k)-om2*dc_norm(k,nres+j)))*dscj_inv
2050 C Calculate the components of the gradient in DC and X
2054 cgrad gvdwc(l,k)=gvdwc(l,k)+gg(l)
2058 gvdwcT(l,i)=gvdwcT(l,i)-gg(l)
2059 gvdwcT(l,j)=gvdwcT(l,j)+gg(l)
2064 C----------------------------------------------------------------------------
2066 implicit real*8 (a-h,o-z)
2067 include 'DIMENSIONS'
2068 include 'COMMON.CHAIN'
2069 include 'COMMON.DERIV'
2070 include 'COMMON.CALC'
2071 include 'COMMON.IOUNITS'
2072 double precision dcosom1(3),dcosom2(3)
2073 eom1=eps2der*eps2rt_om1-2.0D0*alf1*eps3der+sigder*sigsq_om1
2074 eom2=eps2der*eps2rt_om2+2.0D0*alf2*eps3der+sigder*sigsq_om2
2075 eom12=evdwij*eps1_om12+eps2der*eps2rt_om12
2076 & -2.0D0*alf12*eps3der+sigder*sigsq_om12
2080 c eom12=evdwij*eps1_om12
2082 c write (iout,*) "eps2der",eps2der," eps3der",eps3der,
2083 c & " sigder",sigder
2084 c write (iout,*) "eps1_om12",eps1_om12," eps2rt_om12",eps2rt_om12
2085 c write (iout,*) "eom1",eom1," eom2",eom2," eom12",eom12
2087 dcosom1(k)=rij*(dc_norm(k,nres+i)-om1*erij(k))
2088 dcosom2(k)=rij*(dc_norm(k,nres+j)-om2*erij(k))
2091 gg(k)=gg(k)+eom1*dcosom1(k)+eom2*dcosom2(k)
2093 c write (iout,*) "gg",(gg(k),k=1,3)
2095 gvdwx(k,i)=gvdwx(k,i)-gg(k)
2096 & +(eom12*(dc_norm(k,nres+j)-om12*dc_norm(k,nres+i))
2097 & +eom1*(erij(k)-om1*dc_norm(k,nres+i)))*dsci_inv
2098 gvdwx(k,j)=gvdwx(k,j)+gg(k)
2099 & +(eom12*(dc_norm(k,nres+i)-om12*dc_norm(k,nres+j))
2100 & +eom2*(erij(k)-om2*dc_norm(k,nres+j)))*dscj_inv
2101 c write (iout,*)(eom12*(dc_norm(k,nres+j)-om12*dc_norm(k,nres+i))
2102 c & +eom1*(erij(k)-om1*dc_norm(k,nres+i)))*dsci_inv
2103 c write (iout,*)(eom12*(dc_norm(k,nres+i)-om12*dc_norm(k,nres+j))
2104 c & +eom2*(erij(k)-om2*dc_norm(k,nres+j)))*dscj_inv
2107 C Calculate the components of the gradient in DC and X
2111 cgrad gvdwc(l,k)=gvdwc(l,k)+gg(l)
2115 gvdwc(l,i)=gvdwc(l,i)-gg(l)
2116 gvdwc(l,j)=gvdwc(l,j)+gg(l)
2120 C-----------------------------------------------------------------------
2121 subroutine e_softsphere(evdw)
2123 C This subroutine calculates the interaction energy of nonbonded side chains
2124 C assuming the LJ potential of interaction.
2126 implicit real*8 (a-h,o-z)
2127 include 'DIMENSIONS'
2128 parameter (accur=1.0d-10)
2129 include 'COMMON.GEO'
2130 include 'COMMON.VAR'
2131 include 'COMMON.LOCAL'
2132 include 'COMMON.CHAIN'
2133 include 'COMMON.DERIV'
2134 include 'COMMON.INTERACT'
2135 include 'COMMON.TORSION'
2136 include 'COMMON.SBRIDGE'
2137 include 'COMMON.NAMES'
2138 include 'COMMON.IOUNITS'
2139 include 'COMMON.CONTACTS'
2141 cd print *,'Entering Esoft_sphere nnt=',nnt,' nct=',nct
2143 do i=iatsc_s,iatsc_e
2150 C Calculate SC interaction energy.
2152 do iint=1,nint_gr(i)
2153 cd write (iout,*) 'i=',i,' iint=',iint,' istart=',istart(i,iint),
2154 cd & 'iend=',iend(i,iint)
2155 do j=istart(i,iint),iend(i,iint)
2160 rij=xj*xj+yj*yj+zj*zj
2161 c write (iout,*)'i=',i,' j=',j,' itypi=',itypi,' itypj=',itypj
2162 r0ij=r0(itypi,itypj)
2164 c print *,i,j,r0ij,dsqrt(rij)
2165 if (rij.lt.r0ijsq) then
2166 evdwij=0.25d0*(rij-r0ijsq)**2
2174 C Calculate the components of the gradient in DC and X
2180 gvdwx(k,i)=gvdwx(k,i)-gg(k)
2181 gvdwx(k,j)=gvdwx(k,j)+gg(k)
2182 gvdwc(k,i)=gvdwc(k,i)-gg(k)
2183 gvdwc(k,j)=gvdwc(k,j)+gg(k)
2187 cgrad gvdwc(l,k)=gvdwc(l,k)+gg(l)
2195 C--------------------------------------------------------------------------
2196 subroutine eelec_soft_sphere(ees,evdw1,eel_loc,eello_turn3,
2199 C Soft-sphere potential of p-p interaction
2201 implicit real*8 (a-h,o-z)
2202 include 'DIMENSIONS'
2203 include 'COMMON.CONTROL'
2204 include 'COMMON.IOUNITS'
2205 include 'COMMON.GEO'
2206 include 'COMMON.VAR'
2207 include 'COMMON.LOCAL'
2208 include 'COMMON.CHAIN'
2209 include 'COMMON.DERIV'
2210 include 'COMMON.INTERACT'
2211 include 'COMMON.CONTACTS'
2212 include 'COMMON.TORSION'
2213 include 'COMMON.VECTORS'
2214 include 'COMMON.FFIELD'
2216 cd write(iout,*) 'In EELEC_soft_sphere'
2223 do i=iatel_s,iatel_e
2227 xmedi=c(1,i)+0.5d0*dxi
2228 ymedi=c(2,i)+0.5d0*dyi
2229 zmedi=c(3,i)+0.5d0*dzi
2231 c write (iout,*) 'i',i,' ielstart',ielstart(i),' ielend',ielend(i)
2232 do j=ielstart(i),ielend(i)
2236 if (j.eq.i+2 .and. itelj.eq.2) iteli=2
2237 r0ij=rpp(iteli,itelj)
2242 xj=c(1,j)+0.5D0*dxj-xmedi
2243 yj=c(2,j)+0.5D0*dyj-ymedi
2244 zj=c(3,j)+0.5D0*dzj-zmedi
2245 rij=xj*xj+yj*yj+zj*zj
2246 if (rij.lt.r0ijsq) then
2247 evdw1ij=0.25d0*(rij-r0ijsq)**2
2255 C Calculate contributions to the Cartesian gradient.
2261 gvdwpp(k,i)=gvdwpp(k,i)-ggg(k)
2262 gvdwpp(k,j)=gvdwpp(k,j)+ggg(k)
2265 * Loop over residues i+1 thru j-1.
2269 cgrad gelc(l,k)=gelc(l,k)+ggg(l)
2274 cgrad do i=nnt,nct-1
2276 cgrad gelc(k,i)=gelc(k,i)+0.5d0*gelc(k,i)
2278 cgrad do j=i+1,nct-1
2280 cgrad gelc(k,i)=gelc(k,i)+gelc(k,j)
2286 c------------------------------------------------------------------------------
2287 subroutine vec_and_deriv
2288 implicit real*8 (a-h,o-z)
2289 include 'DIMENSIONS'
2293 include 'COMMON.IOUNITS'
2294 include 'COMMON.GEO'
2295 include 'COMMON.VAR'
2296 include 'COMMON.LOCAL'
2297 include 'COMMON.CHAIN'
2298 include 'COMMON.VECTORS'
2299 include 'COMMON.SETUP'
2300 include 'COMMON.TIME1'
2301 dimension uyder(3,3,2),uzder(3,3,2),vbld_inv_temp(2)
2302 C Compute the local reference systems. For reference system (i), the
2303 C X-axis points from CA(i) to CA(i+1), the Y axis is in the
2304 C CA(i)-CA(i+1)-CA(i+2) plane, and the Z axis is perpendicular to this plane.
2306 do i=ivec_start,ivec_end
2310 if (i.eq.nres-1) then
2311 C Case of the last full residue
2312 C Compute the Z-axis
2313 call vecpr(dc_norm(1,i),dc_norm(1,i-1),uz(1,i))
2314 costh=dcos(pi-theta(nres))
2315 fac=1.0d0/dsqrt(1.0d0-costh*costh)
2319 C Compute the derivatives of uz
2321 uzder(2,1,1)=-dc_norm(3,i-1)
2322 uzder(3,1,1)= dc_norm(2,i-1)
2323 uzder(1,2,1)= dc_norm(3,i-1)
2325 uzder(3,2,1)=-dc_norm(1,i-1)
2326 uzder(1,3,1)=-dc_norm(2,i-1)
2327 uzder(2,3,1)= dc_norm(1,i-1)
2330 uzder(2,1,2)= dc_norm(3,i)
2331 uzder(3,1,2)=-dc_norm(2,i)
2332 uzder(1,2,2)=-dc_norm(3,i)
2334 uzder(3,2,2)= dc_norm(1,i)
2335 uzder(1,3,2)= dc_norm(2,i)
2336 uzder(2,3,2)=-dc_norm(1,i)
2338 C Compute the Y-axis
2341 uy(k,i)=fac*(dc_norm(k,i-1)-costh*dc_norm(k,i))
2343 C Compute the derivatives of uy
2346 uyder(k,j,1)=2*dc_norm(k,i-1)*dc_norm(j,i)
2347 & -dc_norm(k,i)*dc_norm(j,i-1)
2348 uyder(k,j,2)=-dc_norm(j,i)*dc_norm(k,i)
2350 uyder(j,j,1)=uyder(j,j,1)-costh
2351 uyder(j,j,2)=1.0d0+uyder(j,j,2)
2356 uygrad(l,k,j,i)=uyder(l,k,j)
2357 uzgrad(l,k,j,i)=uzder(l,k,j)
2361 call unormderiv(uy(1,i),uyder(1,1,1),facy,uygrad(1,1,1,i))
2362 call unormderiv(uy(1,i),uyder(1,1,2),facy,uygrad(1,1,2,i))
2363 call unormderiv(uz(1,i),uzder(1,1,1),fac,uzgrad(1,1,1,i))
2364 call unormderiv(uz(1,i),uzder(1,1,2),fac,uzgrad(1,1,2,i))
2367 C Compute the Z-axis
2368 call vecpr(dc_norm(1,i),dc_norm(1,i+1),uz(1,i))
2369 costh=dcos(pi-theta(i+2))
2370 fac=1.0d0/dsqrt(1.0d0-costh*costh)
2374 C Compute the derivatives of uz
2376 uzder(2,1,1)=-dc_norm(3,i+1)
2377 uzder(3,1,1)= dc_norm(2,i+1)
2378 uzder(1,2,1)= dc_norm(3,i+1)
2380 uzder(3,2,1)=-dc_norm(1,i+1)
2381 uzder(1,3,1)=-dc_norm(2,i+1)
2382 uzder(2,3,1)= dc_norm(1,i+1)
2385 uzder(2,1,2)= dc_norm(3,i)
2386 uzder(3,1,2)=-dc_norm(2,i)
2387 uzder(1,2,2)=-dc_norm(3,i)
2389 uzder(3,2,2)= dc_norm(1,i)
2390 uzder(1,3,2)= dc_norm(2,i)
2391 uzder(2,3,2)=-dc_norm(1,i)
2393 C Compute the Y-axis
2396 uy(k,i)=facy*(dc_norm(k,i+1)-costh*dc_norm(k,i))
2398 C Compute the derivatives of uy
2401 uyder(k,j,1)=2*dc_norm(k,i+1)*dc_norm(j,i)
2402 & -dc_norm(k,i)*dc_norm(j,i+1)
2403 uyder(k,j,2)=-dc_norm(j,i)*dc_norm(k,i)
2405 uyder(j,j,1)=uyder(j,j,1)-costh
2406 uyder(j,j,2)=1.0d0+uyder(j,j,2)
2411 uygrad(l,k,j,i)=uyder(l,k,j)
2412 uzgrad(l,k,j,i)=uzder(l,k,j)
2416 call unormderiv(uy(1,i),uyder(1,1,1),facy,uygrad(1,1,1,i))
2417 call unormderiv(uy(1,i),uyder(1,1,2),facy,uygrad(1,1,2,i))
2418 call unormderiv(uz(1,i),uzder(1,1,1),fac,uzgrad(1,1,1,i))
2419 call unormderiv(uz(1,i),uzder(1,1,2),fac,uzgrad(1,1,2,i))
2423 vbld_inv_temp(1)=vbld_inv(i+1)
2424 if (i.lt.nres-1) then
2425 vbld_inv_temp(2)=vbld_inv(i+2)
2427 vbld_inv_temp(2)=vbld_inv(i)
2432 uygrad(l,k,j,i)=vbld_inv_temp(j)*uygrad(l,k,j,i)
2433 uzgrad(l,k,j,i)=vbld_inv_temp(j)*uzgrad(l,k,j,i)
2438 #if defined(PARVEC) && defined(MPI)
2439 if (nfgtasks1.gt.1) then
2441 c print *,"Processor",fg_rank1,kolor1," ivec_start",ivec_start,
2442 c & " ivec_displ",(ivec_displ(i),i=0,nfgtasks1-1),
2443 c & " ivec_count",(ivec_count(i),i=0,nfgtasks1-1)
2444 call MPI_Allgatherv(uy(1,ivec_start),ivec_count(fg_rank1),
2445 & MPI_UYZ,uy(1,1),ivec_count(0),ivec_displ(0),MPI_UYZ,
2447 call MPI_Allgatherv(uz(1,ivec_start),ivec_count(fg_rank1),
2448 & MPI_UYZ,uz(1,1),ivec_count(0),ivec_displ(0),MPI_UYZ,
2450 call MPI_Allgatherv(uygrad(1,1,1,ivec_start),
2451 & ivec_count(fg_rank1),MPI_UYZGRAD,uygrad(1,1,1,1),ivec_count(0),
2452 & ivec_displ(0),MPI_UYZGRAD,FG_COMM1,IERR)
2453 call MPI_Allgatherv(uzgrad(1,1,1,ivec_start),
2454 & ivec_count(fg_rank1),MPI_UYZGRAD,uzgrad(1,1,1,1),ivec_count(0),
2455 & ivec_displ(0),MPI_UYZGRAD,FG_COMM1,IERR)
2456 time_gather=time_gather+MPI_Wtime()-time00
2458 c if (fg_rank.eq.0) then
2459 c write (iout,*) "Arrays UY and UZ"
2461 c write (iout,'(i5,3f10.5,5x,3f10.5)') i,(uy(k,i),k=1,3),
2468 C-----------------------------------------------------------------------------
2469 subroutine check_vecgrad
2470 implicit real*8 (a-h,o-z)
2471 include 'DIMENSIONS'
2472 include 'COMMON.IOUNITS'
2473 include 'COMMON.GEO'
2474 include 'COMMON.VAR'
2475 include 'COMMON.LOCAL'
2476 include 'COMMON.CHAIN'
2477 include 'COMMON.VECTORS'
2478 dimension uygradt(3,3,2,maxres),uzgradt(3,3,2,maxres)
2479 dimension uyt(3,maxres),uzt(3,maxres)
2480 dimension uygradn(3,3,2),uzgradn(3,3,2),erij(3)
2481 double precision delta /1.0d-7/
2484 crc write(iout,'(2i5,2(3f10.5,5x))') i,1,dc_norm(:,i)
2485 crc write(iout,'(2i5,2(3f10.5,5x))') i,2,uy(:,i)
2486 crc write(iout,'(2i5,2(3f10.5,5x)/)')i,3,uz(:,i)
2487 cd write(iout,'(2i5,2(3f10.5,5x))') i,1,
2488 cd & (dc_norm(if90,i),if90=1,3)
2489 cd write(iout,'(2i5,2(3f10.5,5x))') i,2,(uy(if90,i),if90=1,3)
2490 cd write(iout,'(2i5,2(3f10.5,5x)/)')i,3,(uz(if90,i),if90=1,3)
2491 cd write(iout,'(a)')
2497 uygradt(l,k,j,i)=uygrad(l,k,j,i)
2498 uzgradt(l,k,j,i)=uzgrad(l,k,j,i)
2511 cd write (iout,*) 'i=',i
2513 erij(k)=dc_norm(k,i)
2517 dc_norm(k,i)=erij(k)
2519 dc_norm(j,i)=dc_norm(j,i)+delta
2520 c fac=dsqrt(scalar(dc_norm(1,i),dc_norm(1,i)))
2522 c dc_norm(k,i)=dc_norm(k,i)/fac
2524 c write (iout,*) (dc_norm(k,i),k=1,3)
2525 c write (iout,*) (erij(k),k=1,3)
2528 uygradn(k,j,1)=(uy(k,i)-uyt(k,i))/delta
2529 uygradn(k,j,2)=(uy(k,i-1)-uyt(k,i-1))/delta
2530 uzgradn(k,j,1)=(uz(k,i)-uzt(k,i))/delta
2531 uzgradn(k,j,2)=(uz(k,i-1)-uzt(k,i-1))/delta
2533 c write (iout,'(i5,3f8.5,3x,3f8.5,5x,3f8.5,3x,3f8.5)')
2534 c & j,(uzgradt(k,j,1,i),k=1,3),(uzgradn(k,j,1),k=1,3),
2535 c & (uzgradt(k,j,2,i-1),k=1,3),(uzgradn(k,j,2),k=1,3)
2538 dc_norm(k,i)=erij(k)
2541 cd write (iout,'(i5,3f8.5,3x,3f8.5,5x,3f8.5,3x,3f8.5)')
2542 cd & k,(uygradt(k,l,1,i),l=1,3),(uygradn(k,l,1),l=1,3),
2543 cd & (uygradt(k,l,2,i-1),l=1,3),(uygradn(k,l,2),l=1,3)
2544 cd write (iout,'(i5,3f8.5,3x,3f8.5,5x,3f8.5,3x,3f8.5)')
2545 cd & k,(uzgradt(k,l,1,i),l=1,3),(uzgradn(k,l,1),l=1,3),
2546 cd & (uzgradt(k,l,2,i-1),l=1,3),(uzgradn(k,l,2),l=1,3)
2547 cd write (iout,'(a)')
2552 C--------------------------------------------------------------------------
2553 subroutine set_matrices
2554 implicit real*8 (a-h,o-z)
2555 include 'DIMENSIONS'
2558 include "COMMON.SETUP"
2560 integer status(MPI_STATUS_SIZE)
2562 include 'COMMON.IOUNITS'
2563 include 'COMMON.GEO'
2564 include 'COMMON.VAR'
2565 include 'COMMON.LOCAL'
2566 include 'COMMON.CHAIN'
2567 include 'COMMON.DERIV'
2568 include 'COMMON.INTERACT'
2569 include 'COMMON.CONTACTS'
2570 include 'COMMON.TORSION'
2571 include 'COMMON.VECTORS'
2572 include 'COMMON.FFIELD'
2573 double precision auxvec(2),auxmat(2,2)
2575 C Compute the virtual-bond-torsional-angle dependent quantities needed
2576 C to calculate the el-loc multibody terms of various order.
2579 do i=ivec_start+2,ivec_end+2
2583 if (i .lt. nres+1) then
2620 if (i .gt. 3 .and. i .lt. nres+1) then
2621 obrot_der(1,i-2)=-sin1
2622 obrot_der(2,i-2)= cos1
2623 Ugder(1,1,i-2)= sin1
2624 Ugder(1,2,i-2)=-cos1
2625 Ugder(2,1,i-2)=-cos1
2626 Ugder(2,2,i-2)=-sin1
2629 obrot2_der(1,i-2)=-dwasin2
2630 obrot2_der(2,i-2)= dwacos2
2631 Ug2der(1,1,i-2)= dwasin2
2632 Ug2der(1,2,i-2)=-dwacos2
2633 Ug2der(2,1,i-2)=-dwacos2
2634 Ug2der(2,2,i-2)=-dwasin2
2636 obrot_der(1,i-2)=0.0d0
2637 obrot_der(2,i-2)=0.0d0
2638 Ugder(1,1,i-2)=0.0d0
2639 Ugder(1,2,i-2)=0.0d0
2640 Ugder(2,1,i-2)=0.0d0
2641 Ugder(2,2,i-2)=0.0d0
2642 obrot2_der(1,i-2)=0.0d0
2643 obrot2_der(2,i-2)=0.0d0
2644 Ug2der(1,1,i-2)=0.0d0
2645 Ug2der(1,2,i-2)=0.0d0
2646 Ug2der(2,1,i-2)=0.0d0
2647 Ug2der(2,2,i-2)=0.0d0
2649 c if (i.gt. iatel_s+2 .and. i.lt.iatel_e+5) then
2650 if (i.gt. nnt+2 .and. i.lt.nct+2) then
2651 iti = itortyp(itype(i-2))
2655 c if (i.gt. iatel_s+1 .and. i.lt.iatel_e+4) then
2656 if (i.gt. nnt+1 .and. i.lt.nct+1) then
2657 iti1 = itortyp(itype(i-1))
2661 cd write (iout,*) '*******i',i,' iti1',iti
2662 cd write (iout,*) 'b1',b1(:,iti)
2663 cd write (iout,*) 'b2',b2(:,iti)
2664 cd write (iout,*) 'Ug',Ug(:,:,i-2)
2665 c if (i .gt. iatel_s+2) then
2666 if (i .gt. nnt+2) then
2667 call matvec2(Ug(1,1,i-2),b2(1,iti),Ub2(1,i-2))
2668 call matmat2(EE(1,1,iti),Ug(1,1,i-2),EUg(1,1,i-2))
2669 if (wcorr4.gt.0.0d0 .or. wcorr5.gt.0.0d0 .or. wcorr6.gt.0.0d0)
2671 call matmat2(CC(1,1,iti),Ug(1,1,i-2),CUg(1,1,i-2))
2672 call matmat2(DD(1,1,iti),Ug(1,1,i-2),DUg(1,1,i-2))
2673 call matmat2(Dtilde(1,1,iti),Ug2(1,1,i-2),DtUg2(1,1,i-2))
2674 call matvec2(Ctilde(1,1,iti1),obrot(1,i-2),Ctobr(1,i-2))
2675 call matvec2(Dtilde(1,1,iti),obrot2(1,i-2),Dtobr2(1,i-2))
2686 DtUg2(l,k,i-2)=0.0d0
2690 call matvec2(Ugder(1,1,i-2),b2(1,iti),Ub2der(1,i-2))
2691 call matmat2(EE(1,1,iti),Ugder(1,1,i-2),EUgder(1,1,i-2))
2693 muder(k,i-2)=Ub2der(k,i-2)
2695 c if (i.gt. iatel_s+1 .and. i.lt.iatel_e+4) then
2696 if (i.gt. nnt+1 .and. i.lt.nct+1) then
2697 iti1 = itortyp(itype(i-1))
2702 mu(k,i-2)=Ub2(k,i-2)+b1(k,iti1)
2704 cd write (iout,*) 'mu ',mu(:,i-2)
2705 cd write (iout,*) 'mu1',mu1(:,i-2)
2706 cd write (iout,*) 'mu2',mu2(:,i-2)
2707 if (wcorr4.gt.0.0d0 .or. wcorr5.gt.0.0d0 .or.wcorr6.gt.0.0d0)
2709 call matmat2(CC(1,1,iti1),Ugder(1,1,i-2),CUgder(1,1,i-2))
2710 call matmat2(DD(1,1,iti),Ugder(1,1,i-2),DUgder(1,1,i-2))
2711 call matmat2(Dtilde(1,1,iti),Ug2der(1,1,i-2),DtUg2der(1,1,i-2))
2712 call matvec2(Ctilde(1,1,iti1),obrot_der(1,i-2),Ctobrder(1,i-2))
2713 call matvec2(Dtilde(1,1,iti),obrot2_der(1,i-2),Dtobr2der(1,i-2))
2714 C Vectors and matrices dependent on a single virtual-bond dihedral.
2715 call matvec2(DD(1,1,iti),b1tilde(1,iti1),auxvec(1))
2716 call matvec2(Ug2(1,1,i-2),auxvec(1),Ug2Db1t(1,i-2))
2717 call matvec2(Ug2der(1,1,i-2),auxvec(1),Ug2Db1tder(1,i-2))
2718 call matvec2(CC(1,1,iti1),Ub2(1,i-2),CUgb2(1,i-2))
2719 call matvec2(CC(1,1,iti1),Ub2der(1,i-2),CUgb2der(1,i-2))
2720 call matmat2(EUg(1,1,i-2),CC(1,1,iti1),EUgC(1,1,i-2))
2721 call matmat2(EUgder(1,1,i-2),CC(1,1,iti1),EUgCder(1,1,i-2))
2722 call matmat2(EUg(1,1,i-2),DD(1,1,iti1),EUgD(1,1,i-2))
2723 call matmat2(EUgder(1,1,i-2),DD(1,1,iti1),EUgDder(1,1,i-2))
2726 C Matrices dependent on two consecutive virtual-bond dihedrals.
2727 C The order of matrices is from left to right.
2728 if (wcorr4.gt.0.0d0 .or. wcorr5.gt.0.0d0 .or.wcorr6.gt.0.0d0)
2730 c do i=max0(ivec_start,2),ivec_end
2732 call matmat2(DtUg2(1,1,i-1),EUg(1,1,i),DtUg2EUg(1,1,i))
2733 call matmat2(DtUg2der(1,1,i-1),EUg(1,1,i),DtUg2EUgder(1,1,1,i))
2734 call matmat2(DtUg2(1,1,i-1),EUgder(1,1,i),DtUg2EUgder(1,1,2,i))
2735 call transpose2(DtUg2(1,1,i-1),auxmat(1,1))
2736 call matmat2(auxmat(1,1),EUg(1,1,i),Ug2DtEUg(1,1,i))
2737 call matmat2(auxmat(1,1),EUgder(1,1,i),Ug2DtEUgder(1,1,2,i))
2738 call transpose2(DtUg2der(1,1,i-1),auxmat(1,1))
2739 call matmat2(auxmat(1,1),EUg(1,1,i),Ug2DtEUgder(1,1,1,i))
2742 #if defined(MPI) && defined(PARMAT)
2744 c if (fg_rank.eq.0) then
2745 write (iout,*) "Arrays UG and UGDER before GATHER"
2747 write (iout,'(i5,4f10.5,5x,4f10.5)') i,
2748 & ((ug(l,k,i),l=1,2),k=1,2),
2749 & ((ugder(l,k,i),l=1,2),k=1,2)
2751 write (iout,*) "Arrays UG2 and UG2DER"
2753 write (iout,'(i5,4f10.5,5x,4f10.5)') i,
2754 & ((ug2(l,k,i),l=1,2),k=1,2),
2755 & ((ug2der(l,k,i),l=1,2),k=1,2)
2757 write (iout,*) "Arrays OBROT OBROT2 OBROTDER and OBROT2DER"
2759 write (iout,'(i5,4f10.5,5x,4f10.5)') i,
2760 & (obrot(k,i),k=1,2),(obrot2(k,i),k=1,2),
2761 & (obrot_der(k,i),k=1,2),(obrot2_der(k,i),k=1,2)
2763 write (iout,*) "Arrays COSTAB SINTAB COSTAB2 and SINTAB2"
2765 write (iout,'(i5,4f10.5,5x,4f10.5)') i,
2766 & costab(i),sintab(i),costab2(i),sintab2(i)
2768 write (iout,*) "Array MUDER"
2770 write (iout,'(i5,2f10.5)') i,muder(1,i),muder(2,i)
2774 if (nfgtasks.gt.1) then
2776 c write(iout,*)"Processor",fg_rank,kolor," ivec_start",ivec_start,
2777 c & " ivec_displ",(ivec_displ(i),i=0,nfgtasks-1),
2778 c & " ivec_count",(ivec_count(i),i=0,nfgtasks-1)
2780 call MPI_Allgatherv(Ub2(1,ivec_start),ivec_count(fg_rank1),
2781 & MPI_MU,Ub2(1,1),ivec_count(0),ivec_displ(0),MPI_MU,
2783 call MPI_Allgatherv(Ub2der(1,ivec_start),ivec_count(fg_rank1),
2784 & MPI_MU,Ub2der(1,1),ivec_count(0),ivec_displ(0),MPI_MU,
2786 call MPI_Allgatherv(mu(1,ivec_start),ivec_count(fg_rank1),
2787 & MPI_MU,mu(1,1),ivec_count(0),ivec_displ(0),MPI_MU,
2789 call MPI_Allgatherv(muder(1,ivec_start),ivec_count(fg_rank1),
2790 & MPI_MU,muder(1,1),ivec_count(0),ivec_displ(0),MPI_MU,
2792 call MPI_Allgatherv(Eug(1,1,ivec_start),ivec_count(fg_rank1),
2793 & MPI_MAT1,Eug(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2795 call MPI_Allgatherv(Eugder(1,1,ivec_start),ivec_count(fg_rank1),
2796 & MPI_MAT1,Eugder(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2798 call MPI_Allgatherv(costab(ivec_start),ivec_count(fg_rank1),
2799 & MPI_DOUBLE_PRECISION,costab(1),ivec_count(0),ivec_displ(0),
2800 & MPI_DOUBLE_PRECISION,FG_COMM1,IERR)
2801 call MPI_Allgatherv(sintab(ivec_start),ivec_count(fg_rank1),
2802 & MPI_DOUBLE_PRECISION,sintab(1),ivec_count(0),ivec_displ(0),
2803 & MPI_DOUBLE_PRECISION,FG_COMM1,IERR)
2804 call MPI_Allgatherv(costab2(ivec_start),ivec_count(fg_rank1),
2805 & MPI_DOUBLE_PRECISION,costab2(1),ivec_count(0),ivec_displ(0),
2806 & MPI_DOUBLE_PRECISION,FG_COMM1,IERR)
2807 call MPI_Allgatherv(sintab2(ivec_start),ivec_count(fg_rank1),
2808 & MPI_DOUBLE_PRECISION,sintab2(1),ivec_count(0),ivec_displ(0),
2809 & MPI_DOUBLE_PRECISION,FG_COMM1,IERR)
2810 if (wcorr4.gt.0.0d0 .or. wcorr5.gt.0.0d0 .or. wcorr6.gt.0.0d0)
2812 call MPI_Allgatherv(Ctobr(1,ivec_start),ivec_count(fg_rank1),
2813 & MPI_MU,Ctobr(1,1),ivec_count(0),ivec_displ(0),MPI_MU,
2815 call MPI_Allgatherv(Ctobrder(1,ivec_start),ivec_count(fg_rank1),
2816 & MPI_MU,Ctobrder(1,1),ivec_count(0),ivec_displ(0),MPI_MU,
2818 call MPI_Allgatherv(Dtobr2(1,ivec_start),ivec_count(fg_rank1),
2819 & MPI_MU,Dtobr2(1,1),ivec_count(0),ivec_displ(0),MPI_MU,
2821 call MPI_Allgatherv(Dtobr2der(1,ivec_start),ivec_count(fg_rank1),
2822 & MPI_MU,Dtobr2der(1,1),ivec_count(0),ivec_displ(0),MPI_MU,
2824 call MPI_Allgatherv(Ug2Db1t(1,ivec_start),ivec_count(fg_rank1),
2825 & MPI_MU,Ug2Db1t(1,1),ivec_count(0),ivec_displ(0),MPI_MU,
2827 call MPI_Allgatherv(Ug2Db1tder(1,ivec_start),
2828 & ivec_count(fg_rank1),
2829 & MPI_MU,Ug2Db1tder(1,1),ivec_count(0),ivec_displ(0),MPI_MU,
2831 call MPI_Allgatherv(CUgb2(1,ivec_start),ivec_count(fg_rank1),
2832 & MPI_MU,CUgb2(1,1),ivec_count(0),ivec_displ(0),MPI_MU,
2834 call MPI_Allgatherv(CUgb2der(1,ivec_start),ivec_count(fg_rank1),
2835 & MPI_MU,CUgb2der(1,1),ivec_count(0),ivec_displ(0),MPI_MU,
2837 call MPI_Allgatherv(Cug(1,1,ivec_start),ivec_count(fg_rank1),
2838 & MPI_MAT1,Cug(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2840 call MPI_Allgatherv(Cugder(1,1,ivec_start),ivec_count(fg_rank1),
2841 & MPI_MAT1,Cugder(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2843 call MPI_Allgatherv(Dug(1,1,ivec_start),ivec_count(fg_rank1),
2844 & MPI_MAT1,Dug(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2846 call MPI_Allgatherv(Dugder(1,1,ivec_start),ivec_count(fg_rank1),
2847 & MPI_MAT1,Dugder(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2849 call MPI_Allgatherv(Dtug2(1,1,ivec_start),ivec_count(fg_rank1),
2850 & MPI_MAT1,Dtug2(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2852 call MPI_Allgatherv(Dtug2der(1,1,ivec_start),
2853 & ivec_count(fg_rank1),
2854 & MPI_MAT1,Dtug2der(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2856 call MPI_Allgatherv(EugC(1,1,ivec_start),ivec_count(fg_rank1),
2857 & MPI_MAT1,EugC(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2859 call MPI_Allgatherv(EugCder(1,1,ivec_start),ivec_count(fg_rank1),
2860 & MPI_MAT1,EugCder(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2862 call MPI_Allgatherv(EugD(1,1,ivec_start),ivec_count(fg_rank1),
2863 & MPI_MAT1,EugD(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2865 call MPI_Allgatherv(EugDder(1,1,ivec_start),ivec_count(fg_rank1),
2866 & MPI_MAT1,EugDder(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2868 call MPI_Allgatherv(DtUg2EUg(1,1,ivec_start),
2869 & ivec_count(fg_rank1),
2870 & MPI_MAT1,DtUg2EUg(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2872 call MPI_Allgatherv(Ug2DtEUg(1,1,ivec_start),
2873 & ivec_count(fg_rank1),
2874 & MPI_MAT1,Ug2DtEUg(1,1,1),ivec_count(0),ivec_displ(0),MPI_MAT1,
2876 call MPI_Allgatherv(DtUg2EUgder(1,1,1,ivec_start),
2877 & ivec_count(fg_rank1),
2878 & MPI_MAT2,DtUg2EUgder(1,1,1,1),ivec_count(0),ivec_displ(0),
2879 & MPI_MAT2,FG_COMM1,IERR)
2880 call MPI_Allgatherv(Ug2DtEUgder(1,1,1,ivec_start),
2881 & ivec_count(fg_rank1),
2882 & MPI_MAT2,Ug2DtEUgder(1,1,1,1),ivec_count(0),ivec_displ(0),
2883 & MPI_MAT2,FG_COMM1,IERR)
2886 c Passes matrix info through the ring
2889 if (irecv.lt.0) irecv=nfgtasks1-1
2892 if (inext.ge.nfgtasks1) inext=0
2894 c write (iout,*) "isend",isend," irecv",irecv
2896 lensend=lentyp(isend)
2897 lenrecv=lentyp(irecv)
2898 c write (iout,*) "lensend",lensend," lenrecv",lenrecv
2899 c call MPI_SENDRECV(ug(1,1,ivec_displ(isend)+1),1,
2900 c & MPI_ROTAT1(lensend),inext,2200+isend,
2901 c & ug(1,1,ivec_displ(irecv)+1),1,MPI_ROTAT1(lenrecv),
2902 c & iprev,2200+irecv,FG_COMM,status,IERR)
2903 c write (iout,*) "Gather ROTAT1"
2905 c call MPI_SENDRECV(obrot(1,ivec_displ(isend)+1),1,
2906 c & MPI_ROTAT2(lensend),inext,3300+isend,
2907 c & obrot(1,ivec_displ(irecv)+1),1,MPI_ROTAT2(lenrecv),
2908 c & iprev,3300+irecv,FG_COMM,status,IERR)
2909 c write (iout,*) "Gather ROTAT2"
2911 call MPI_SENDRECV(costab(ivec_displ(isend)+1),1,
2912 & MPI_ROTAT_OLD(lensend),inext,4400+isend,
2913 & costab(ivec_displ(irecv)+1),1,MPI_ROTAT_OLD(lenrecv),
2914 & iprev,4400+irecv,FG_COMM,status,IERR)
2915 c write (iout,*) "Gather ROTAT_OLD"
2917 call MPI_SENDRECV(mu(1,ivec_displ(isend)+1),1,
2918 & MPI_PRECOMP11(lensend),inext,5500+isend,
2919 & mu(1,ivec_displ(irecv)+1),1,MPI_PRECOMP11(lenrecv),
2920 & iprev,5500+irecv,FG_COMM,status,IERR)
2921 c write (iout,*) "Gather PRECOMP11"
2923 call MPI_SENDRECV(Eug(1,1,ivec_displ(isend)+1),1,
2924 & MPI_PRECOMP12(lensend),inext,6600+isend,
2925 & Eug(1,1,ivec_displ(irecv)+1),1,MPI_PRECOMP12(lenrecv),
2926 & iprev,6600+irecv,FG_COMM,status,IERR)
2927 c write (iout,*) "Gather PRECOMP12"
2929 if (wcorr4.gt.0.0d0 .or. wcorr5.gt.0.0d0 .or. wcorr6.gt.0.0d0)
2931 call MPI_SENDRECV(ug2db1t(1,ivec_displ(isend)+1),1,
2932 & MPI_ROTAT2(lensend),inext,7700+isend,
2933 & ug2db1t(1,ivec_displ(irecv)+1),1,MPI_ROTAT2(lenrecv),
2934 & iprev,7700+irecv,FG_COMM,status,IERR)
2935 c write (iout,*) "Gather PRECOMP21"
2937 call MPI_SENDRECV(EUgC(1,1,ivec_displ(isend)+1),1,
2938 & MPI_PRECOMP22(lensend),inext,8800+isend,
2939 & EUgC(1,1,ivec_displ(irecv)+1),1,MPI_PRECOMP22(lenrecv),
2940 & iprev,8800+irecv,FG_COMM,status,IERR)
2941 c write (iout,*) "Gather PRECOMP22"
2943 call MPI_SENDRECV(Ug2DtEUgder(1,1,1,ivec_displ(isend)+1),1,
2944 & MPI_PRECOMP23(lensend),inext,9900+isend,
2945 & Ug2DtEUgder(1,1,1,ivec_displ(irecv)+1),1,
2946 & MPI_PRECOMP23(lenrecv),
2947 & iprev,9900+irecv,FG_COMM,status,IERR)
2948 c write (iout,*) "Gather PRECOMP23"
2953 if (irecv.lt.0) irecv=nfgtasks1-1
2956 time_gather=time_gather+MPI_Wtime()-time00
2959 c if (fg_rank.eq.0) then
2960 write (iout,*) "Arrays UG and UGDER"
2962 write (iout,'(i5,4f10.5,5x,4f10.5)') i,
2963 & ((ug(l,k,i),l=1,2),k=1,2),
2964 & ((ugder(l,k,i),l=1,2),k=1,2)
2966 write (iout,*) "Arrays UG2 and UG2DER"
2968 write (iout,'(i5,4f10.5,5x,4f10.5)') i,
2969 & ((ug2(l,k,i),l=1,2),k=1,2),
2970 & ((ug2der(l,k,i),l=1,2),k=1,2)
2972 write (iout,*) "Arrays OBROT OBROT2 OBROTDER and OBROT2DER"
2974 write (iout,'(i5,4f10.5,5x,4f10.5)') i,
2975 & (obrot(k,i),k=1,2),(obrot2(k,i),k=1,2),
2976 & (obrot_der(k,i),k=1,2),(obrot2_der(k,i),k=1,2)
2978 write (iout,*) "Arrays COSTAB SINTAB COSTAB2 and SINTAB2"
2980 write (iout,'(i5,4f10.5,5x,4f10.5)') i,
2981 & costab(i),sintab(i),costab2(i),sintab2(i)
2983 write (iout,*) "Array MUDER"
2985 write (iout,'(i5,2f10.5)') i,muder(1,i),muder(2,i)
2991 cd iti = itortyp(itype(i))
2994 cd write (iout,'(2f10.5,5x,2f10.5,5x,2f10.5)')
2995 cd & (EE(j,k,iti),k=1,2),(Ug(j,k,i),k=1,2),(EUg(j,k,i),k=1,2)
3000 C--------------------------------------------------------------------------
3001 subroutine eelec(ees,evdw1,eel_loc,eello_turn3,eello_turn4)
3003 C This subroutine calculates the average interaction energy and its gradient
3004 C in the virtual-bond vectors between non-adjacent peptide groups, based on
3005 C the potential described in Liwo et al., Protein Sci., 1993, 2, 1715.
3006 C The potential depends both on the distance of peptide-group centers and on
3007 C the orientation of the CA-CA virtual bonds.
3009 implicit real*8 (a-h,o-z)
3013 include 'DIMENSIONS'
3014 include 'COMMON.CONTROL'
3015 include 'COMMON.SETUP'
3016 include 'COMMON.IOUNITS'
3017 include 'COMMON.GEO'
3018 include 'COMMON.VAR'
3019 include 'COMMON.LOCAL'
3020 include 'COMMON.CHAIN'
3021 include 'COMMON.DERIV'
3022 include 'COMMON.INTERACT'
3023 include 'COMMON.CONTACTS'
3024 include 'COMMON.TORSION'
3025 include 'COMMON.VECTORS'
3026 include 'COMMON.FFIELD'
3027 include 'COMMON.TIME1'
3028 dimension ggg(3),gggp(3),gggm(3),erij(3),dcosb(3),dcosg(3),
3029 & erder(3,3),uryg(3,3),urzg(3,3),vryg(3,3),vrzg(3,3)
3030 double precision acipa(2,2),agg(3,4),aggi(3,4),aggi1(3,4),
3031 & aggj(3,4),aggj1(3,4),a_temp(2,2),muij(4)
3032 common /locel/ a_temp,agg,aggi,aggi1,aggj,aggj1,a22,a23,a32,a33,
3033 & dxi,dyi,dzi,dx_normi,dy_normi,dz_normi,xmedi,ymedi,zmedi,
3035 c 4/26/02 - AL scaling factor for 1,4 repulsive VDW interactions
3037 double precision scal_el /1.0d0/
3039 double precision scal_el /0.5d0/
3042 C 13-go grudnia roku pamietnego...
3043 double precision unmat(3,3) /1.0d0,0.0d0,0.0d0,
3044 & 0.0d0,1.0d0,0.0d0,
3045 & 0.0d0,0.0d0,1.0d0/
3046 cd write(iout,*) 'In EELEC'
3048 cd write(iout,*) 'Type',i
3049 cd write(iout,*) 'B1',B1(:,i)
3050 cd write(iout,*) 'B2',B2(:,i)
3051 cd write(iout,*) 'CC',CC(:,:,i)
3052 cd write(iout,*) 'DD',DD(:,:,i)
3053 cd write(iout,*) 'EE',EE(:,:,i)
3055 cd call check_vecgrad
3057 if (icheckgrad.eq.1) then
3059 fac=1.0d0/dsqrt(scalar(dc(1,i),dc(1,i)))
3061 dc_norm(k,i)=dc(k,i)*fac
3063 c write (iout,*) 'i',i,' fac',fac
3066 if (wel_loc.gt.0.0d0 .or. wcorr4.gt.0.0d0 .or. wcorr5.gt.0.0d0
3067 & .or. wcorr6.gt.0.0d0 .or. wturn3.gt.0.0d0 .or.
3068 & wturn4.gt.0.0d0 .or. wturn6.gt.0.0d0) then
3069 c call vec_and_deriv
3075 time_mat=time_mat+MPI_Wtime()-time01
3079 cd write (iout,*) 'i=',i
3081 cd write (iout,'(i5,2f10.5)') k,uy(k,i),uz(k,i)
3084 cd write (iout,'(f10.5,2x,3f10.5,2x,3f10.5)')
3085 cd & uz(k,i),(uzgrad(k,l,1,i),l=1,3),(uzgrad(k,l,2,i),l=1,3)
3098 cd print '(a)','Enter EELEC'
3099 cd write (iout,*) 'iatel_s=',iatel_s,' iatel_e=',iatel_e
3101 gel_loc_loc(i)=0.0d0
3106 c 9/27/08 AL Split the interaction loop to ensure load balancing of turn terms
3108 C Loop over i,i+2 and i,i+3 pairs of the peptide groups
3110 do i=iturn3_start,iturn3_end
3114 dx_normi=dc_norm(1,i)
3115 dy_normi=dc_norm(2,i)
3116 dz_normi=dc_norm(3,i)
3117 xmedi=c(1,i)+0.5d0*dxi
3118 ymedi=c(2,i)+0.5d0*dyi
3119 zmedi=c(3,i)+0.5d0*dzi
3121 call eelecij(i,i+2,ees,evdw1,eel_loc)
3122 if (wturn3.gt.0.0d0) call eturn3(i,eello_turn3)
3123 num_cont_hb(i)=num_conti
3125 do i=iturn4_start,iturn4_end
3129 dx_normi=dc_norm(1,i)
3130 dy_normi=dc_norm(2,i)
3131 dz_normi=dc_norm(3,i)
3132 xmedi=c(1,i)+0.5d0*dxi
3133 ymedi=c(2,i)+0.5d0*dyi
3134 zmedi=c(3,i)+0.5d0*dzi
3135 num_conti=num_cont_hb(i)
3136 call eelecij(i,i+3,ees,evdw1,eel_loc)
3137 if (wturn4.gt.0.0d0) call eturn4(i,eello_turn4)
3138 num_cont_hb(i)=num_conti
3141 c Loop over all pairs of interacting peptide groups except i,i+2 and i,i+3
3143 do i=iatel_s,iatel_e
3147 dx_normi=dc_norm(1,i)
3148 dy_normi=dc_norm(2,i)
3149 dz_normi=dc_norm(3,i)
3150 xmedi=c(1,i)+0.5d0*dxi
3151 ymedi=c(2,i)+0.5d0*dyi
3152 zmedi=c(3,i)+0.5d0*dzi
3153 c write (iout,*) 'i',i,' ielstart',ielstart(i),' ielend',ielend(i)
3154 num_conti=num_cont_hb(i)
3155 do j=ielstart(i),ielend(i)
3156 call eelecij(i,j,ees,evdw1,eel_loc)
3158 num_cont_hb(i)=num_conti
3160 c write (iout,*) "Number of loop steps in EELEC:",ind
3162 cd write (iout,'(i3,3f10.5,5x,3f10.5)')
3163 cd & i,(gel_loc(k,i),k=1,3),gel_loc_loc(i)
3165 c 12/7/99 Adam eello_turn3 will be considered as a separate energy term
3166 ccc eel_loc=eel_loc+eello_turn3
3167 cd print *,"Processor",fg_rank," t_eelecij",t_eelecij
3170 C-------------------------------------------------------------------------------
3171 subroutine eelecij(i,j,ees,evdw1,eel_loc)
3172 implicit real*8 (a-h,o-z)
3173 include 'DIMENSIONS'
3177 include 'COMMON.CONTROL'
3178 include 'COMMON.IOUNITS'
3179 include 'COMMON.GEO'
3180 include 'COMMON.VAR'
3181 include 'COMMON.LOCAL'
3182 include 'COMMON.CHAIN'
3183 include 'COMMON.DERIV'
3184 include 'COMMON.INTERACT'
3185 include 'COMMON.CONTACTS'
3186 include 'COMMON.TORSION'
3187 include 'COMMON.VECTORS'
3188 include 'COMMON.FFIELD'
3189 include 'COMMON.TIME1'
3190 dimension ggg(3),gggp(3),gggm(3),erij(3),dcosb(3),dcosg(3),
3191 & erder(3,3),uryg(3,3),urzg(3,3),vryg(3,3),vrzg(3,3)
3192 double precision acipa(2,2),agg(3,4),aggi(3,4),aggi1(3,4),
3193 & aggj(3,4),aggj1(3,4),a_temp(2,2),muij(4)
3194 common /locel/ a_temp,agg,aggi,aggi1,aggj,aggj1,a22,a23,a32,a33,
3195 & dxi,dyi,dzi,dx_normi,dy_normi,dz_normi,xmedi,ymedi,zmedi,
3197 c 4/26/02 - AL scaling factor for 1,4 repulsive VDW interactions
3199 double precision scal_el /1.0d0/
3201 double precision scal_el /0.5d0/
3204 C 13-go grudnia roku pamietnego...
3205 double precision unmat(3,3) /1.0d0,0.0d0,0.0d0,
3206 & 0.0d0,1.0d0,0.0d0,
3207 & 0.0d0,0.0d0,1.0d0/
3208 c time00=MPI_Wtime()
3209 cd write (iout,*) "eelecij",i,j
3213 if (j.eq.i+2 .and. itelj.eq.2) iteli=2
3214 aaa=app(iteli,itelj)
3215 bbb=bpp(iteli,itelj)
3216 ael6i=ael6(iteli,itelj)
3217 ael3i=ael3(iteli,itelj)
3221 dx_normj=dc_norm(1,j)
3222 dy_normj=dc_norm(2,j)
3223 dz_normj=dc_norm(3,j)
3224 xj=c(1,j)+0.5D0*dxj-xmedi
3225 yj=c(2,j)+0.5D0*dyj-ymedi
3226 zj=c(3,j)+0.5D0*dzj-zmedi
3227 rij=xj*xj+yj*yj+zj*zj
3233 cosa=dx_normi*dx_normj+dy_normi*dy_normj+dz_normi*dz_normj
3234 cosb=(xj*dx_normi+yj*dy_normi+zj*dz_normi)*rmij
3235 cosg=(xj*dx_normj+yj*dy_normj+zj*dz_normj)*rmij
3236 fac=cosa-3.0D0*cosb*cosg
3238 c 4/26/02 - AL scaling down 1,4 repulsive VDW interactions
3239 if (j.eq.i+2) ev1=scal_el*ev1
3244 el1=fac3*(4.0D0+fac*fac-3.0D0*(cosb*cosb+cosg*cosg))
3247 C 12/26/95 - for the evaluation of multi-body H-bonding interactions
3248 ees0ij=4.0D0+fac*fac-3.0D0*(cosb*cosb+cosg*cosg)
3251 cd write(iout,'(2(2i3,2x),7(1pd12.4)/2(3(1pd12.4),5x)/)')
3252 cd & iteli,i,itelj,j,aaa,bbb,ael6i,ael3i,
3253 cd & 1.0D0/dsqrt(rrmij),evdwij,eesij,
3254 cd & xmedi,ymedi,zmedi,xj,yj,zj
3256 if (energy_dec) then
3257 write (iout,'(a6,2i5,0pf7.3)') 'evdw1',i,j,evdwij
3258 write (iout,'(a6,2i5,0pf7.3)') 'ees',i,j,eesij
3262 C Calculate contributions to the Cartesian gradient.
3265 facvdw=-6*rrmij*(ev1+evdwij)
3266 facel=-3*rrmij*(el1+eesij)
3272 * Radial derivatives. First process both termini of the fragment (i,j)
3278 c ghalf=0.5D0*ggg(k)
3279 c gelc(k,i)=gelc(k,i)+ghalf
3280 c gelc(k,j)=gelc(k,j)+ghalf
3282 c 9/28/08 AL Gradient compotents will be summed only at the end
3284 gelc_long(k,j)=gelc_long(k,j)+ggg(k)
3285 gelc_long(k,i)=gelc_long(k,i)-ggg(k)
3288 * Loop over residues i+1 thru j-1.
3292 cgrad gelc(l,k)=gelc(l,k)+ggg(l)
3299 c ghalf=0.5D0*ggg(k)
3300 c gvdwpp(k,i)=gvdwpp(k,i)+ghalf
3301 c gvdwpp(k,j)=gvdwpp(k,j)+ghalf
3303 c 9/28/08 AL Gradient compotents will be summed only at the end
3305 gvdwpp(k,j)=gvdwpp(k,j)+ggg(k)
3306 gvdwpp(k,i)=gvdwpp(k,i)-ggg(k)
3309 * Loop over residues i+1 thru j-1.
3313 cgrad gvdwpp(l,k)=gvdwpp(l,k)+ggg(l)
3320 fac=-3*rrmij*(facvdw+facvdw+facel)
3325 * Radial derivatives. First process both termini of the fragment (i,j)
3331 c ghalf=0.5D0*ggg(k)
3332 c gelc(k,i)=gelc(k,i)+ghalf
3333 c gelc(k,j)=gelc(k,j)+ghalf
3335 c 9/28/08 AL Gradient compotents will be summed only at the end
3337 gelc_long(k,j)=gelc(k,j)+ggg(k)
3338 gelc_long(k,i)=gelc(k,i)-ggg(k)
3341 * Loop over residues i+1 thru j-1.
3345 cgrad gelc(l,k)=gelc(l,k)+ggg(l)
3348 c 9/28/08 AL Gradient compotents will be summed only at the end
3353 gvdwpp(k,j)=gvdwpp(k,j)+ggg(k)
3354 gvdwpp(k,i)=gvdwpp(k,i)-ggg(k)
3360 ecosa=2.0D0*fac3*fac1+fac4
3363 ecosb=(fac3*(fac1*cosg+cosb)+cosg*fac4)
3364 ecosg=(fac3*(fac1*cosb+cosg)+cosb*fac4)
3366 dcosb(k)=rmij*(dc_norm(k,i)-erij(k)*cosb)
3367 dcosg(k)=rmij*(dc_norm(k,j)-erij(k)*cosg)
3369 cd print '(2i3,2(3(1pd14.5),3x))',i,j,(dcosb(k),k=1,3),
3370 cd & (dcosg(k),k=1,3)
3372 ggg(k)=ecosb*dcosb(k)+ecosg*dcosg(k)
3375 c ghalf=0.5D0*ggg(k)
3376 c gelc(k,i)=gelc(k,i)+ghalf
3377 c & +(ecosa*(dc_norm(k,j)-cosa*dc_norm(k,i))
3378 c & + ecosb*(erij(k)-cosb*dc_norm(k,i)))*vbld_inv(i+1)
3379 c gelc(k,j)=gelc(k,j)+ghalf
3380 c & +(ecosa*(dc_norm(k,i)-cosa*dc_norm(k,j))
3381 c & + ecosg*(erij(k)-cosg*dc_norm(k,j)))*vbld_inv(j+1)
3385 cgrad gelc(l,k)=gelc(l,k)+ggg(l)
3390 & +(ecosa*(dc_norm(k,j)-cosa*dc_norm(k,i))
3391 & + ecosb*(erij(k)-cosb*dc_norm(k,i)))*vbld_inv(i+1)
3393 & +(ecosa*(dc_norm(k,i)-cosa*dc_norm(k,j))
3394 & + ecosg*(erij(k)-cosg*dc_norm(k,j)))*vbld_inv(j+1)
3395 gelc_long(k,j)=gelc_long(k,j)+ggg(k)
3396 gelc_long(k,i)=gelc_long(k,i)-ggg(k)
3398 IF (wel_loc.gt.0.0d0 .or. wcorr4.gt.0.0d0 .or. wcorr5.gt.0.0d0
3399 & .or. wcorr6.gt.0.0d0 .or. wturn3.gt.0.0d0
3400 & .or. wturn4.gt.0.0d0 .or. wturn6.gt.0.0d0) THEN
3402 C 9/25/99 Mixed third-order local-electrostatic terms. The local-interaction
3403 C energy of a peptide unit is assumed in the form of a second-order
3404 C Fourier series in the angles lambda1 and lambda2 (see Nishikawa et al.
3405 C Macromolecules, 1974, 7, 797-806 for definition). This correlation terms
3406 C are computed for EVERY pair of non-contiguous peptide groups.
3408 if (j.lt.nres-1) then
3419 muij(kkk)=mu(k,i)*mu(l,j)
3422 cd write (iout,*) 'EELEC: i',i,' j',j
3423 cd write (iout,*) 'j',j,' j1',j1,' j2',j2
3424 cd write(iout,*) 'muij',muij
3425 ury=scalar(uy(1,i),erij)
3426 urz=scalar(uz(1,i),erij)
3427 vry=scalar(uy(1,j),erij)
3428 vrz=scalar(uz(1,j),erij)
3429 a22=scalar(uy(1,i),uy(1,j))-3*ury*vry
3430 a23=scalar(uy(1,i),uz(1,j))-3*ury*vrz
3431 a32=scalar(uz(1,i),uy(1,j))-3*urz*vry
3432 a33=scalar(uz(1,i),uz(1,j))-3*urz*vrz
3433 fac=dsqrt(-ael6i)*r3ij
3438 cd write (iout,'(4i5,4f10.5)')
3439 cd & i,itortyp(itype(i)),j,itortyp(itype(j)),a22,a23,a32,a33
3440 cd write (iout,'(6f10.5)') (muij(k),k=1,4),fac,eel_loc_ij
3441 cd write (iout,'(2(3f10.5,5x)/2(3f10.5,5x))') uy(:,i),uz(:,i),
3442 cd & uy(:,j),uz(:,j)
3443 cd write (iout,'(4f10.5)')
3444 cd & scalar(uy(1,i),uy(1,j)),scalar(uy(1,i),uz(1,j)),
3445 cd & scalar(uz(1,i),uy(1,j)),scalar(uz(1,i),uz(1,j))
3446 cd write (iout,'(4f10.5)') ury,urz,vry,vrz
3447 cd write (iout,'(9f10.5/)')
3448 cd & fac22,a22,fac23,a23,fac32,a32,fac33,a33,eel_loc_ij
3449 C Derivatives of the elements of A in virtual-bond vectors
3450 call unormderiv(erij(1),unmat(1,1),rmij,erder(1,1))
3452 uryg(k,1)=scalar(erder(1,k),uy(1,i))
3453 uryg(k,2)=scalar(uygrad(1,k,1,i),erij(1))
3454 uryg(k,3)=scalar(uygrad(1,k,2,i),erij(1))
3455 urzg(k,1)=scalar(erder(1,k),uz(1,i))
3456 urzg(k,2)=scalar(uzgrad(1,k,1,i),erij(1))
3457 urzg(k,3)=scalar(uzgrad(1,k,2,i),erij(1))
3458 vryg(k,1)=scalar(erder(1,k),uy(1,j))
3459 vryg(k,2)=scalar(uygrad(1,k,1,j),erij(1))
3460 vryg(k,3)=scalar(uygrad(1,k,2,j),erij(1))
3461 vrzg(k,1)=scalar(erder(1,k),uz(1,j))
3462 vrzg(k,2)=scalar(uzgrad(1,k,1,j),erij(1))
3463 vrzg(k,3)=scalar(uzgrad(1,k,2,j),erij(1))
3465 C Compute radial contributions to the gradient
3483 C Add the contributions coming from er
3486 agg(k,1)=agg(k,1)+fac3*(uryg(k,1)*vry+vryg(k,1)*ury)
3487 agg(k,2)=agg(k,2)+fac3*(uryg(k,1)*vrz+vrzg(k,1)*ury)
3488 agg(k,3)=agg(k,3)+fac3*(urzg(k,1)*vry+vryg(k,1)*urz)
3489 agg(k,4)=agg(k,4)+fac3*(urzg(k,1)*vrz+vrzg(k,1)*urz)
3492 C Derivatives in DC(i)
3493 cgrad ghalf1=0.5d0*agg(k,1)
3494 cgrad ghalf2=0.5d0*agg(k,2)
3495 cgrad ghalf3=0.5d0*agg(k,3)
3496 cgrad ghalf4=0.5d0*agg(k,4)
3497 aggi(k,1)=fac*(scalar(uygrad(1,k,1,i),uy(1,j))
3498 & -3.0d0*uryg(k,2)*vry)!+ghalf1
3499 aggi(k,2)=fac*(scalar(uygrad(1,k,1,i),uz(1,j))
3500 & -3.0d0*uryg(k,2)*vrz)!+ghalf2
3501 aggi(k,3)=fac*(scalar(uzgrad(1,k,1,i),uy(1,j))
3502 & -3.0d0*urzg(k,2)*vry)!+ghalf3
3503 aggi(k,4)=fac*(scalar(uzgrad(1,k,1,i),uz(1,j))
3504 & -3.0d0*urzg(k,2)*vrz)!+ghalf4
3505 C Derivatives in DC(i+1)
3506 aggi1(k,1)=fac*(scalar(uygrad(1,k,2,i),uy(1,j))
3507 & -3.0d0*uryg(k,3)*vry)!+agg(k,1)
3508 aggi1(k,2)=fac*(scalar(uygrad(1,k,2,i),uz(1,j))
3509 & -3.0d0*uryg(k,3)*vrz)!+agg(k,2)
3510 aggi1(k,3)=fac*(scalar(uzgrad(1,k,2,i),uy(1,j))
3511 & -3.0d0*urzg(k,3)*vry)!+agg(k,3)
3512 aggi1(k,4)=fac*(scalar(uzgrad(1,k,2,i),uz(1,j))
3513 & -3.0d0*urzg(k,3)*vrz)!+agg(k,4)
3514 C Derivatives in DC(j)
3515 aggj(k,1)=fac*(scalar(uygrad(1,k,1,j),uy(1,i))
3516 & -3.0d0*vryg(k,2)*ury)!+ghalf1
3517 aggj(k,2)=fac*(scalar(uzgrad(1,k,1,j),uy(1,i))
3518 & -3.0d0*vrzg(k,2)*ury)!+ghalf2
3519 aggj(k,3)=fac*(scalar(uygrad(1,k,1,j),uz(1,i))
3520 & -3.0d0*vryg(k,2)*urz)!+ghalf3
3521 aggj(k,4)=fac*(scalar(uzgrad(1,k,1,j),uz(1,i))
3522 & -3.0d0*vrzg(k,2)*urz)!+ghalf4
3523 C Derivatives in DC(j+1) or DC(nres-1)
3524 aggj1(k,1)=fac*(scalar(uygrad(1,k,2,j),uy(1,i))
3525 & -3.0d0*vryg(k,3)*ury)
3526 aggj1(k,2)=fac*(scalar(uzgrad(1,k,2,j),uy(1,i))
3527 & -3.0d0*vrzg(k,3)*ury)
3528 aggj1(k,3)=fac*(scalar(uygrad(1,k,2,j),uz(1,i))
3529 & -3.0d0*vryg(k,3)*urz)
3530 aggj1(k,4)=fac*(scalar(uzgrad(1,k,2,j),uz(1,i))
3531 & -3.0d0*vrzg(k,3)*urz)
3532 cgrad if (j.eq.nres-1 .and. i.lt.j-2) then
3534 cgrad aggj1(k,l)=aggj1(k,l)+agg(k,l)
3547 aggi(k,l)=-aggi(k,l)
3548 aggi1(k,l)=-aggi1(k,l)
3549 aggj(k,l)=-aggj(k,l)
3550 aggj1(k,l)=-aggj1(k,l)
3553 if (j.lt.nres-1) then
3559 aggi(k,l)=-aggi(k,l)
3560 aggi1(k,l)=-aggi1(k,l)
3561 aggj(k,l)=-aggj(k,l)
3562 aggj1(k,l)=-aggj1(k,l)
3573 aggi(k,l)=-aggi(k,l)
3574 aggi1(k,l)=-aggi1(k,l)
3575 aggj(k,l)=-aggj(k,l)
3576 aggj1(k,l)=-aggj1(k,l)
3581 IF (wel_loc.gt.0.0d0) THEN
3582 C Contribution to the local-electrostatic energy coming from the i-j pair
3583 eel_loc_ij=a22*muij(1)+a23*muij(2)+a32*muij(3)
3585 cd write (iout,*) 'i',i,' j',j,' eel_loc_ij',eel_loc_ij
3587 if (energy_dec) write (iout,'(a6,2i5,0pf7.3)')
3588 & 'eelloc',i,j,eel_loc_ij
3590 eel_loc=eel_loc+eel_loc_ij
3591 C Partial derivatives in virtual-bond dihedral angles gamma
3593 & gel_loc_loc(i-1)=gel_loc_loc(i-1)+
3594 & a22*muder(1,i)*mu(1,j)+a23*muder(1,i)*mu(2,j)
3595 & +a32*muder(2,i)*mu(1,j)+a33*muder(2,i)*mu(2,j)
3596 gel_loc_loc(j-1)=gel_loc_loc(j-1)+
3597 & a22*mu(1,i)*muder(1,j)+a23*mu(1,i)*muder(2,j)
3598 & +a32*mu(2,i)*muder(1,j)+a33*mu(2,i)*muder(2,j)
3599 C Derivatives of eello in DC(i+1) thru DC(j-1) or DC(nres-2)
3601 ggg(l)=agg(l,1)*muij(1)+
3602 & agg(l,2)*muij(2)+agg(l,3)*muij(3)+agg(l,4)*muij(4)
3603 gel_loc_long(l,j)=gel_loc_long(l,j)+ggg(l)
3604 gel_loc_long(l,i)=gel_loc_long(l,i)-ggg(l)
3605 cgrad ghalf=0.5d0*ggg(l)
3606 cgrad gel_loc(l,i)=gel_loc(l,i)+ghalf
3607 cgrad gel_loc(l,j)=gel_loc(l,j)+ghalf
3611 cgrad gel_loc(l,k)=gel_loc(l,k)+ggg(l)
3614 C Remaining derivatives of eello
3616 gel_loc(l,i)=gel_loc(l,i)+aggi(l,1)*muij(1)+
3617 & aggi(l,2)*muij(2)+aggi(l,3)*muij(3)+aggi(l,4)*muij(4)
3618 gel_loc(l,i+1)=gel_loc(l,i+1)+aggi1(l,1)*muij(1)+
3619 & aggi1(l,2)*muij(2)+aggi1(l,3)*muij(3)+aggi1(l,4)*muij(4)
3620 gel_loc(l,j)=gel_loc(l,j)+aggj(l,1)*muij(1)+
3621 & aggj(l,2)*muij(2)+aggj(l,3)*muij(3)+aggj(l,4)*muij(4)
3622 gel_loc(l,j1)=gel_loc(l,j1)+aggj1(l,1)*muij(1)+
3623 & aggj1(l,2)*muij(2)+aggj1(l,3)*muij(3)+aggj1(l,4)*muij(4)
3626 C Change 12/26/95 to calculate four-body contributions to H-bonding energy
3627 c if (j.gt.i+1 .and. num_conti.le.maxconts) then
3628 if (wcorr+wcorr4+wcorr5+wcorr6.gt.0.0d0
3629 & .and. num_conti.le.maxconts) then
3630 c write (iout,*) i,j," entered corr"
3632 C Calculate the contact function. The ith column of the array JCONT will
3633 C contain the numbers of atoms that make contacts with the atom I (of numbers
3634 C greater than I). The arrays FACONT and GACONT will contain the values of
3635 C the contact function and its derivative.
3636 c r0ij=1.02D0*rpp(iteli,itelj)
3637 c r0ij=1.11D0*rpp(iteli,itelj)
3638 r0ij=2.20D0*rpp(iteli,itelj)
3639 c r0ij=1.55D0*rpp(iteli,itelj)
3640 call gcont(rij,r0ij,1.0D0,0.2d0*r0ij,fcont,fprimcont)
3641 if (fcont.gt.0.0D0) then
3642 num_conti=num_conti+1
3643 if (num_conti.gt.maxconts) then
3644 write (iout,*) 'WARNING - max. # of contacts exceeded;',
3645 & ' will skip next contacts for this conf.'
3647 jcont_hb(num_conti,i)=j
3648 cd write (iout,*) "i",i," j",j," num_conti",num_conti,
3649 cd & " jcont_hb",jcont_hb(num_conti,i)
3650 IF (wcorr4.gt.0.0d0 .or. wcorr5.gt.0.0d0 .or.
3651 & wcorr6.gt.0.0d0 .or. wturn6.gt.0.0d0) THEN
3652 C 9/30/99 (AL) - store components necessary to evaluate higher-order loc-el
3654 d_cont(num_conti,i)=rij
3655 cd write (2,'(3e15.5)') rij,r0ij+0.2d0*r0ij,rij
3656 C --- Electrostatic-interaction matrix ---
3657 a_chuj(1,1,num_conti,i)=a22
3658 a_chuj(1,2,num_conti,i)=a23
3659 a_chuj(2,1,num_conti,i)=a32
3660 a_chuj(2,2,num_conti,i)=a33
3661 C --- Gradient of rij
3663 grij_hb_cont(kkk,num_conti,i)=erij(kkk)
3670 a_chuj_der(k,l,m,1,num_conti,i)=agg(m,kkll)
3671 a_chuj_der(k,l,m,2,num_conti,i)=aggi(m,kkll)
3672 a_chuj_der(k,l,m,3,num_conti,i)=aggi1(m,kkll)
3673 a_chuj_der(k,l,m,4,num_conti,i)=aggj(m,kkll)
3674 a_chuj_der(k,l,m,5,num_conti,i)=aggj1(m,kkll)
3679 IF (wcorr4.eq.0.0d0 .and. wcorr.gt.0.0d0) THEN
3680 C Calculate contact energies
3682 wij=cosa-3.0D0*cosb*cosg
3685 c fac3=dsqrt(-ael6i)/r0ij**3
3686 fac3=dsqrt(-ael6i)*r3ij
3687 c ees0pij=dsqrt(4.0D0+cosa4+wij*wij-3.0D0*cosbg1*cosbg1)
3688 ees0tmp=4.0D0+cosa4+wij*wij-3.0D0*cosbg1*cosbg1
3689 if (ees0tmp.gt.0) then
3690 ees0pij=dsqrt(ees0tmp)
3694 c ees0mij=dsqrt(4.0D0-cosa4+wij*wij-3.0D0*cosbg2*cosbg2)
3695 ees0tmp=4.0D0-cosa4+wij*wij-3.0D0*cosbg2*cosbg2
3696 if (ees0tmp.gt.0) then
3697 ees0mij=dsqrt(ees0tmp)
3702 ees0p(num_conti,i)=0.5D0*fac3*(ees0pij+ees0mij)
3703 ees0m(num_conti,i)=0.5D0*fac3*(ees0pij-ees0mij)
3704 C Diagnostics. Comment out or remove after debugging!
3705 c ees0p(num_conti,i)=0.5D0*fac3*ees0pij
3706 c ees0m(num_conti,i)=0.5D0*fac3*ees0mij
3707 c ees0m(num_conti,i)=0.0D0
3709 c write (iout,*) 'i=',i,' j=',j,' rij=',rij,' r0ij=',r0ij,
3710 c & ' ees0ij=',ees0p(num_conti,i),ees0m(num_conti,i),' fcont=',fcont
3711 C Angular derivatives of the contact function
3712 ees0pij1=fac3/ees0pij
3713 ees0mij1=fac3/ees0mij
3714 fac3p=-3.0D0*fac3*rrmij
3715 ees0pijp=0.5D0*fac3p*(ees0pij+ees0mij)
3716 ees0mijp=0.5D0*fac3p*(ees0pij-ees0mij)
3718 ecosa1= ees0pij1*( 1.0D0+0.5D0*wij)
3719 ecosb1=-1.5D0*ees0pij1*(wij*cosg+cosbg1)
3720 ecosg1=-1.5D0*ees0pij1*(wij*cosb+cosbg1)
3721 ecosa2= ees0mij1*(-1.0D0+0.5D0*wij)
3722 ecosb2=-1.5D0*ees0mij1*(wij*cosg+cosbg2)
3723 ecosg2=-1.5D0*ees0mij1*(wij*cosb-cosbg2)
3724 ecosap=ecosa1+ecosa2
3725 ecosbp=ecosb1+ecosb2
3726 ecosgp=ecosg1+ecosg2
3727 ecosam=ecosa1-ecosa2
3728 ecosbm=ecosb1-ecosb2
3729 ecosgm=ecosg1-ecosg2
3738 facont_hb(num_conti,i)=fcont
3739 fprimcont=fprimcont/rij
3740 cd facont_hb(num_conti,i)=1.0D0
3741 C Following line is for diagnostics.
3744 dcosb(k)=rmij*(dc_norm(k,i)-erij(k)*cosb)
3745 dcosg(k)=rmij*(dc_norm(k,j)-erij(k)*cosg)
3748 gggp(k)=ecosbp*dcosb(k)+ecosgp*dcosg(k)
3749 gggm(k)=ecosbm*dcosb(k)+ecosgm*dcosg(k)
3751 gggp(1)=gggp(1)+ees0pijp*xj
3752 gggp(2)=gggp(2)+ees0pijp*yj
3753 gggp(3)=gggp(3)+ees0pijp*zj
3754 gggm(1)=gggm(1)+ees0mijp*xj
3755 gggm(2)=gggm(2)+ees0mijp*yj
3756 gggm(3)=gggm(3)+ees0mijp*zj
3757 C Derivatives due to the contact function
3758 gacont_hbr(1,num_conti,i)=fprimcont*xj
3759 gacont_hbr(2,num_conti,i)=fprimcont*yj
3760 gacont_hbr(3,num_conti,i)=fprimcont*zj
3763 c 10/24/08 cgrad and ! comments indicate the parts of the code removed
3764 c following the change of gradient-summation algorithm.
3766 cgrad ghalfp=0.5D0*gggp(k)
3767 cgrad ghalfm=0.5D0*gggm(k)
3768 gacontp_hb1(k,num_conti,i)=!ghalfp
3769 & +(ecosap*(dc_norm(k,j)-cosa*dc_norm(k,i))
3770 & + ecosbp*(erij(k)-cosb*dc_norm(k,i)))*vbld_inv(i+1)
3771 gacontp_hb2(k,num_conti,i)=!ghalfp
3772 & +(ecosap*(dc_norm(k,i)-cosa*dc_norm(k,j))
3773 & + ecosgp*(erij(k)-cosg*dc_norm(k,j)))*vbld_inv(j+1)
3774 gacontp_hb3(k,num_conti,i)=gggp(k)
3775 gacontm_hb1(k,num_conti,i)=!ghalfm
3776 & +(ecosam*(dc_norm(k,j)-cosa*dc_norm(k,i))
3777 & + ecosbm*(erij(k)-cosb*dc_norm(k,i)))*vbld_inv(i+1)
3778 gacontm_hb2(k,num_conti,i)=!ghalfm
3779 & +(ecosam*(dc_norm(k,i)-cosa*dc_norm(k,j))
3780 & + ecosgm*(erij(k)-cosg*dc_norm(k,j)))*vbld_inv(j+1)
3781 gacontm_hb3(k,num_conti,i)=gggm(k)
3783 C Diagnostics. Comment out or remove after debugging!
3785 cdiag gacontp_hb1(k,num_conti,i)=0.0D0
3786 cdiag gacontp_hb2(k,num_conti,i)=0.0D0
3787 cdiag gacontp_hb3(k,num_conti,i)=0.0D0
3788 cdiag gacontm_hb1(k,num_conti,i)=0.0D0
3789 cdiag gacontm_hb2(k,num_conti,i)=0.0D0
3790 cdiag gacontm_hb3(k,num_conti,i)=0.0D0
3793 endif ! num_conti.le.maxconts
3796 if (wturn3.gt.0.0d0 .or. wturn4.gt.0.0d0) then
3799 ghalf=0.5d0*agg(l,k)
3800 aggi(l,k)=aggi(l,k)+ghalf
3801 aggi1(l,k)=aggi1(l,k)+agg(l,k)
3802 aggj(l,k)=aggj(l,k)+ghalf
3805 if (j.eq.nres-1 .and. i.lt.j-2) then
3808 aggj1(l,k)=aggj1(l,k)+agg(l,k)
3813 c t_eelecij=t_eelecij+MPI_Wtime()-time00
3816 C-----------------------------------------------------------------------------
3817 subroutine eturn3(i,eello_turn3)
3818 C Third- and fourth-order contributions from turns
3819 implicit real*8 (a-h,o-z)
3820 include 'DIMENSIONS'
3821 include 'COMMON.IOUNITS'
3822 include 'COMMON.GEO'
3823 include 'COMMON.VAR'
3824 include 'COMMON.LOCAL'
3825 include 'COMMON.CHAIN'
3826 include 'COMMON.DERIV'
3827 include 'COMMON.INTERACT'
3828 include 'COMMON.CONTACTS'
3829 include 'COMMON.TORSION'
3830 include 'COMMON.VECTORS'
3831 include 'COMMON.FFIELD'
3832 include 'COMMON.CONTROL'
3834 double precision auxmat(2,2),auxmat1(2,2),auxmat2(2,2),pizda(2,2),
3835 & e1t(2,2),e2t(2,2),e3t(2,2),e1tder(2,2),e2tder(2,2),e3tder(2,2),
3836 & e1a(2,2),ae3(2,2),ae3e2(2,2),auxvec(2),auxvec1(2)
3837 double precision agg(3,4),aggi(3,4),aggi1(3,4),
3838 & aggj(3,4),aggj1(3,4),a_temp(2,2),auxmat3(2,2)
3839 common /locel/ a_temp,agg,aggi,aggi1,aggj,aggj1,a22,a23,a32,a33,
3840 & dxi,dyi,dzi,dx_normi,dy_normi,dz_normi,xmedi,ymedi,zmedi,
3843 c write (iout,*) "eturn3",i,j,j1,j2
3848 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
3850 C Third-order contributions
3857 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
3858 cd call checkint_turn3(i,a_temp,eello_turn3_num)
3859 call matmat2(EUg(1,1,i+1),EUg(1,1,i+2),auxmat(1,1))
3860 call transpose2(auxmat(1,1),auxmat1(1,1))
3861 call matmat2(a_temp(1,1),auxmat1(1,1),pizda(1,1))
3862 eello_turn3=eello_turn3+0.5d0*(pizda(1,1)+pizda(2,2))
3863 if (energy_dec) write (iout,'(a6,2i5,0pf7.3)')
3864 & 'eturn3',i,j,0.5d0*(pizda(1,1)+pizda(2,2))
3865 cd write (2,*) 'i,',i,' j',j,'eello_turn3',
3866 cd & 0.5d0*(pizda(1,1)+pizda(2,2)),
3867 cd & ' eello_turn3_num',4*eello_turn3_num
3868 C Derivatives in gamma(i)
3869 call matmat2(EUgder(1,1,i+1),EUg(1,1,i+2),auxmat2(1,1))
3870 call transpose2(auxmat2(1,1),auxmat3(1,1))
3871 call matmat2(a_temp(1,1),auxmat3(1,1),pizda(1,1))
3872 gel_loc_turn3(i)=gel_loc_turn3(i)+0.5d0*(pizda(1,1)+pizda(2,2))
3873 C Derivatives in gamma(i+1)
3874 call matmat2(EUg(1,1,i+1),EUgder(1,1,i+2),auxmat2(1,1))
3875 call transpose2(auxmat2(1,1),auxmat3(1,1))
3876 call matmat2(a_temp(1,1),auxmat3(1,1),pizda(1,1))
3877 gel_loc_turn3(i+1)=gel_loc_turn3(i+1)
3878 & +0.5d0*(pizda(1,1)+pizda(2,2))
3879 C Cartesian derivatives
3881 c ghalf1=0.5d0*agg(l,1)
3882 c ghalf2=0.5d0*agg(l,2)
3883 c ghalf3=0.5d0*agg(l,3)
3884 c ghalf4=0.5d0*agg(l,4)
3885 a_temp(1,1)=aggi(l,1)!+ghalf1
3886 a_temp(1,2)=aggi(l,2)!+ghalf2
3887 a_temp(2,1)=aggi(l,3)!+ghalf3
3888 a_temp(2,2)=aggi(l,4)!+ghalf4
3889 call matmat2(a_temp(1,1),auxmat1(1,1),pizda(1,1))
3890 gcorr3_turn(l,i)=gcorr3_turn(l,i)
3891 & +0.5d0*(pizda(1,1)+pizda(2,2))
3892 a_temp(1,1)=aggi1(l,1)!+agg(l,1)
3893 a_temp(1,2)=aggi1(l,2)!+agg(l,2)
3894 a_temp(2,1)=aggi1(l,3)!+agg(l,3)
3895 a_temp(2,2)=aggi1(l,4)!+agg(l,4)
3896 call matmat2(a_temp(1,1),auxmat1(1,1),pizda(1,1))
3897 gcorr3_turn(l,i+1)=gcorr3_turn(l,i+1)
3898 & +0.5d0*(pizda(1,1)+pizda(2,2))
3899 a_temp(1,1)=aggj(l,1)!+ghalf1
3900 a_temp(1,2)=aggj(l,2)!+ghalf2
3901 a_temp(2,1)=aggj(l,3)!+ghalf3
3902 a_temp(2,2)=aggj(l,4)!+ghalf4
3903 call matmat2(a_temp(1,1),auxmat1(1,1),pizda(1,1))
3904 gcorr3_turn(l,j)=gcorr3_turn(l,j)
3905 & +0.5d0*(pizda(1,1)+pizda(2,2))
3906 a_temp(1,1)=aggj1(l,1)
3907 a_temp(1,2)=aggj1(l,2)
3908 a_temp(2,1)=aggj1(l,3)
3909 a_temp(2,2)=aggj1(l,4)
3910 call matmat2(a_temp(1,1),auxmat1(1,1),pizda(1,1))
3911 gcorr3_turn(l,j1)=gcorr3_turn(l,j1)
3912 & +0.5d0*(pizda(1,1)+pizda(2,2))
3916 C-------------------------------------------------------------------------------
3917 subroutine eturn4(i,eello_turn4)
3918 C Third- and fourth-order contributions from turns
3919 implicit real*8 (a-h,o-z)
3920 include 'DIMENSIONS'
3921 include 'COMMON.IOUNITS'
3922 include 'COMMON.GEO'
3923 include 'COMMON.VAR'
3924 include 'COMMON.LOCAL'
3925 include 'COMMON.CHAIN'
3926 include 'COMMON.DERIV'
3927 include 'COMMON.INTERACT'
3928 include 'COMMON.CONTACTS'
3929 include 'COMMON.TORSION'
3930 include 'COMMON.VECTORS'
3931 include 'COMMON.FFIELD'
3932 include 'COMMON.CONTROL'
3934 double precision auxmat(2,2),auxmat1(2,2),auxmat2(2,2),pizda(2,2),
3935 & e1t(2,2),e2t(2,2),e3t(2,2),e1tder(2,2),e2tder(2,2),e3tder(2,2),
3936 & e1a(2,2),ae3(2,2),ae3e2(2,2),auxvec(2),auxvec1(2)
3937 double precision agg(3,4),aggi(3,4),aggi1(3,4),
3938 & aggj(3,4),aggj1(3,4),a_temp(2,2),auxmat3(2,2)
3939 common /locel/ a_temp,agg,aggi,aggi1,aggj,aggj1,a22,a23,a32,a33,
3940 & dxi,dyi,dzi,dx_normi,dy_normi,dz_normi,xmedi,ymedi,zmedi,
3943 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
3945 C Fourth-order contributions
3953 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
3954 cd call checkint_turn4(i,a_temp,eello_turn4_num)
3955 c write (iout,*) "eturn4 i",i," j",j," j1",j1," j2",j2
3960 iti1=itortyp(itype(i+1))
3961 iti2=itortyp(itype(i+2))
3962 iti3=itortyp(itype(i+3))
3963 c write(iout,*) "iti1",iti1," iti2",iti2," iti3",iti3
3964 call transpose2(EUg(1,1,i+1),e1t(1,1))
3965 call transpose2(Eug(1,1,i+2),e2t(1,1))
3966 call transpose2(Eug(1,1,i+3),e3t(1,1))
3967 call matmat2(e1t(1,1),a_temp(1,1),e1a(1,1))
3968 call matvec2(e1a(1,1),Ub2(1,i+3),auxvec(1))
3969 s1=scalar2(b1(1,iti2),auxvec(1))
3970 call matmat2(a_temp(1,1),e3t(1,1),ae3(1,1))
3971 call matvec2(ae3(1,1),Ub2(1,i+2),auxvec(1))
3972 s2=scalar2(b1(1,iti1),auxvec(1))
3973 call matmat2(ae3(1,1),e2t(1,1),ae3e2(1,1))
3974 call matmat2(ae3e2(1,1),e1t(1,1),pizda(1,1))
3975 s3=0.5d0*(pizda(1,1)+pizda(2,2))
3976 eello_turn4=eello_turn4-(s1+s2+s3)
3977 if (energy_dec) write (iout,'(a6,2i5,0pf7.3)')
3978 & 'eturn4',i,j,-(s1+s2+s3)
3979 cd write (2,*) 'i,',i,' j',j,'eello_turn4',-(s1+s2+s3),
3980 cd & ' eello_turn4_num',8*eello_turn4_num
3981 C Derivatives in gamma(i)
3982 call transpose2(EUgder(1,1,i+1),e1tder(1,1))
3983 call matmat2(e1tder(1,1),a_temp(1,1),auxmat(1,1))
3984 call matvec2(auxmat(1,1),Ub2(1,i+3),auxvec(1))
3985 s1=scalar2(b1(1,iti2),auxvec(1))
3986 call matmat2(ae3e2(1,1),e1tder(1,1),pizda(1,1))
3987 s3=0.5d0*(pizda(1,1)+pizda(2,2))
3988 gel_loc_turn4(i)=gel_loc_turn4(i)-(s1+s3)
3989 C Derivatives in gamma(i+1)
3990 call transpose2(EUgder(1,1,i+2),e2tder(1,1))
3991 call matvec2(ae3(1,1),Ub2der(1,i+2),auxvec(1))
3992 s2=scalar2(b1(1,iti1),auxvec(1))
3993 call matmat2(ae3(1,1),e2tder(1,1),auxmat(1,1))
3994 call matmat2(auxmat(1,1),e1t(1,1),pizda(1,1))
3995 s3=0.5d0*(pizda(1,1)+pizda(2,2))
3996 gel_loc_turn4(i+1)=gel_loc_turn4(i+1)-(s2+s3)
3997 C Derivatives in gamma(i+2)
3998 call transpose2(EUgder(1,1,i+3),e3tder(1,1))
3999 call matvec2(e1a(1,1),Ub2der(1,i+3),auxvec(1))
4000 s1=scalar2(b1(1,iti2),auxvec(1))
4001 call matmat2(a_temp(1,1),e3tder(1,1),auxmat(1,1))
4002 call matvec2(auxmat(1,1),Ub2(1,i+2),auxvec(1))
4003 s2=scalar2(b1(1,iti1),auxvec(1))
4004 call matmat2(auxmat(1,1),e2t(1,1),auxmat3(1,1))
4005 call matmat2(auxmat3(1,1),e1t(1,1),pizda(1,1))
4006 s3=0.5d0*(pizda(1,1)+pizda(2,2))
4007 gel_loc_turn4(i+2)=gel_loc_turn4(i+2)-(s1+s2+s3)
4008 C Cartesian derivatives
4009 C Derivatives of this turn contributions in DC(i+2)
4010 if (j.lt.nres-1) then
4012 a_temp(1,1)=agg(l,1)
4013 a_temp(1,2)=agg(l,2)
4014 a_temp(2,1)=agg(l,3)
4015 a_temp(2,2)=agg(l,4)
4016 call matmat2(e1t(1,1),a_temp(1,1),e1a(1,1))
4017 call matvec2(e1a(1,1),Ub2(1,i+3),auxvec(1))
4018 s1=scalar2(b1(1,iti2),auxvec(1))
4019 call matmat2(a_temp(1,1),e3t(1,1),ae3(1,1))
4020 call matvec2(ae3(1,1),Ub2(1,i+2),auxvec(1))
4021 s2=scalar2(b1(1,iti1),auxvec(1))
4022 call matmat2(ae3(1,1),e2t(1,1),ae3e2(1,1))
4023 call matmat2(ae3e2(1,1),e1t(1,1),pizda(1,1))
4024 s3=0.5d0*(pizda(1,1)+pizda(2,2))
4026 gcorr4_turn(l,i+2)=gcorr4_turn(l,i+2)-(s1+s2+s3)
4029 C Remaining derivatives of this turn contribution
4031 a_temp(1,1)=aggi(l,1)
4032 a_temp(1,2)=aggi(l,2)
4033 a_temp(2,1)=aggi(l,3)
4034 a_temp(2,2)=aggi(l,4)
4035 call matmat2(e1t(1,1),a_temp(1,1),e1a(1,1))
4036 call matvec2(e1a(1,1),Ub2(1,i+3),auxvec(1))
4037 s1=scalar2(b1(1,iti2),auxvec(1))
4038 call matmat2(a_temp(1,1),e3t(1,1),ae3(1,1))
4039 call matvec2(ae3(1,1),Ub2(1,i+2),auxvec(1))
4040 s2=scalar2(b1(1,iti1),auxvec(1))
4041 call matmat2(ae3(1,1),e2t(1,1),ae3e2(1,1))
4042 call matmat2(ae3e2(1,1),e1t(1,1),pizda(1,1))
4043 s3=0.5d0*(pizda(1,1)+pizda(2,2))
4044 gcorr4_turn(l,i)=gcorr4_turn(l,i)-(s1+s2+s3)
4045 a_temp(1,1)=aggi1(l,1)
4046 a_temp(1,2)=aggi1(l,2)
4047 a_temp(2,1)=aggi1(l,3)
4048 a_temp(2,2)=aggi1(l,4)
4049 call matmat2(e1t(1,1),a_temp(1,1),e1a(1,1))
4050 call matvec2(e1a(1,1),Ub2(1,i+3),auxvec(1))
4051 s1=scalar2(b1(1,iti2),auxvec(1))
4052 call matmat2(a_temp(1,1),e3t(1,1),ae3(1,1))
4053 call matvec2(ae3(1,1),Ub2(1,i+2),auxvec(1))
4054 s2=scalar2(b1(1,iti1),auxvec(1))
4055 call matmat2(ae3(1,1),e2t(1,1),ae3e2(1,1))
4056 call matmat2(ae3e2(1,1),e1t(1,1),pizda(1,1))
4057 s3=0.5d0*(pizda(1,1)+pizda(2,2))
4058 gcorr4_turn(l,i+1)=gcorr4_turn(l,i+1)-(s1+s2+s3)
4059 a_temp(1,1)=aggj(l,1)
4060 a_temp(1,2)=aggj(l,2)
4061 a_temp(2,1)=aggj(l,3)
4062 a_temp(2,2)=aggj(l,4)
4063 call matmat2(e1t(1,1),a_temp(1,1),e1a(1,1))
4064 call matvec2(e1a(1,1),Ub2(1,i+3),auxvec(1))
4065 s1=scalar2(b1(1,iti2),auxvec(1))
4066 call matmat2(a_temp(1,1),e3t(1,1),ae3(1,1))
4067 call matvec2(ae3(1,1),Ub2(1,i+2),auxvec(1))
4068 s2=scalar2(b1(1,iti1),auxvec(1))
4069 call matmat2(ae3(1,1),e2t(1,1),ae3e2(1,1))
4070 call matmat2(ae3e2(1,1),e1t(1,1),pizda(1,1))
4071 s3=0.5d0*(pizda(1,1)+pizda(2,2))
4072 gcorr4_turn(l,j)=gcorr4_turn(l,j)-(s1+s2+s3)
4073 a_temp(1,1)=aggj1(l,1)
4074 a_temp(1,2)=aggj1(l,2)
4075 a_temp(2,1)=aggj1(l,3)
4076 a_temp(2,2)=aggj1(l,4)
4077 call matmat2(e1t(1,1),a_temp(1,1),e1a(1,1))
4078 call matvec2(e1a(1,1),Ub2(1,i+3),auxvec(1))
4079 s1=scalar2(b1(1,iti2),auxvec(1))
4080 call matmat2(a_temp(1,1),e3t(1,1),ae3(1,1))
4081 call matvec2(ae3(1,1),Ub2(1,i+2),auxvec(1))
4082 s2=scalar2(b1(1,iti1),auxvec(1))
4083 call matmat2(ae3(1,1),e2t(1,1),ae3e2(1,1))
4084 call matmat2(ae3e2(1,1),e1t(1,1),pizda(1,1))
4085 s3=0.5d0*(pizda(1,1)+pizda(2,2))
4086 c write (iout,*) "s1",s1," s2",s2," s3",s3," s1+s2+s3",s1+s2+s3
4087 gcorr4_turn(l,j1)=gcorr4_turn(l,j1)-(s1+s2+s3)
4091 C-----------------------------------------------------------------------------
4092 subroutine vecpr(u,v,w)
4093 implicit real*8(a-h,o-z)
4094 dimension u(3),v(3),w(3)
4095 w(1)=u(2)*v(3)-u(3)*v(2)
4096 w(2)=-u(1)*v(3)+u(3)*v(1)
4097 w(3)=u(1)*v(2)-u(2)*v(1)
4100 C-----------------------------------------------------------------------------
4101 subroutine unormderiv(u,ugrad,unorm,ungrad)
4102 C This subroutine computes the derivatives of a normalized vector u, given
4103 C the derivatives computed without normalization conditions, ugrad. Returns
4106 double precision u(3),ugrad(3,3),unorm,ungrad(3,3)
4107 double precision vec(3)
4108 double precision scalar
4110 c write (2,*) 'ugrad',ugrad
4113 vec(i)=scalar(ugrad(1,i),u(1))
4115 c write (2,*) 'vec',vec
4118 ungrad(j,i)=(ugrad(j,i)-u(j)*vec(i))*unorm
4121 c write (2,*) 'ungrad',ungrad
4124 C-----------------------------------------------------------------------------
4125 subroutine escp_soft_sphere(evdw2,evdw2_14)
4127 C This subroutine calculates the excluded-volume interaction energy between
4128 C peptide-group centers and side chains and its gradient in virtual-bond and
4129 C side-chain vectors.
4131 implicit real*8 (a-h,o-z)
4132 include 'DIMENSIONS'
4133 include 'COMMON.GEO'
4134 include 'COMMON.VAR'
4135 include 'COMMON.LOCAL'
4136 include 'COMMON.CHAIN'
4137 include 'COMMON.DERIV'
4138 include 'COMMON.INTERACT'
4139 include 'COMMON.FFIELD'
4140 include 'COMMON.IOUNITS'
4141 include 'COMMON.CONTROL'
4146 cd print '(a)','Enter ESCP'
4147 cd write (iout,*) 'iatscp_s=',iatscp_s,' iatscp_e=',iatscp_e
4148 do i=iatscp_s,iatscp_e
4150 xi=0.5D0*(c(1,i)+c(1,i+1))
4151 yi=0.5D0*(c(2,i)+c(2,i+1))
4152 zi=0.5D0*(c(3,i)+c(3,i+1))
4154 do iint=1,nscp_gr(i)
4156 do j=iscpstart(i,iint),iscpend(i,iint)
4158 C Uncomment following three lines for SC-p interactions
4162 C Uncomment following three lines for Ca-p interactions
4166 rij=xj*xj+yj*yj+zj*zj
4169 if (rij.lt.r0ijsq) then
4170 evdwij=0.25d0*(rij-r0ijsq)**2
4178 C Calculate contributions to the gradient in the virtual-bond and SC vectors.
4183 cgrad if (j.lt.i) then
4184 cd write (iout,*) 'j<i'
4185 C Uncomment following three lines for SC-p interactions
4187 c gradx_scp(k,j)=gradx_scp(k,j)+ggg(k)
4190 cd write (iout,*) 'j>i'
4192 cgrad ggg(k)=-ggg(k)
4193 C Uncomment following line for SC-p interactions
4194 c gradx_scp(k,j)=gradx_scp(k,j)-ggg(k)
4198 cgrad gvdwc_scp(k,i)=gvdwc_scp(k,i)-0.5D0*ggg(k)
4200 cgrad kstart=min0(i+1,j)
4201 cgrad kend=max0(i-1,j-1)
4202 cd write (iout,*) 'i=',i,' j=',j,' kstart=',kstart,' kend=',kend
4203 cd write (iout,*) ggg(1),ggg(2),ggg(3)
4204 cgrad do k=kstart,kend
4206 cgrad gvdwc_scp(l,k)=gvdwc_scp(l,k)-ggg(l)
4210 gvdwc_scpp(k,i)=gvdwc_scpp(k,i)-ggg(k)
4211 gvdwc_scp(k,j)=gvdwc_scp(k,j)+ggg(k)
4219 C-----------------------------------------------------------------------------
4220 subroutine escp(evdw2,evdw2_14)
4222 C This subroutine calculates the excluded-volume interaction energy between
4223 C peptide-group centers and side chains and its gradient in virtual-bond and
4224 C side-chain vectors.
4226 implicit real*8 (a-h,o-z)
4227 include 'DIMENSIONS'
4228 include 'COMMON.GEO'
4229 include 'COMMON.VAR'
4230 include 'COMMON.LOCAL'
4231 include 'COMMON.CHAIN'
4232 include 'COMMON.DERIV'
4233 include 'COMMON.INTERACT'
4234 include 'COMMON.FFIELD'
4235 include 'COMMON.IOUNITS'
4236 include 'COMMON.CONTROL'
4240 cd print '(a)','Enter ESCP'
4241 cd write (iout,*) 'iatscp_s=',iatscp_s,' iatscp_e=',iatscp_e
4242 do i=iatscp_s,iatscp_e
4244 xi=0.5D0*(c(1,i)+c(1,i+1))
4245 yi=0.5D0*(c(2,i)+c(2,i+1))
4246 zi=0.5D0*(c(3,i)+c(3,i+1))
4248 do iint=1,nscp_gr(i)
4250 do j=iscpstart(i,iint),iscpend(i,iint)
4252 C Uncomment following three lines for SC-p interactions
4256 C Uncomment following three lines for Ca-p interactions
4260 rrij=1.0D0/(xj*xj+yj*yj+zj*zj)
4262 e1=fac*fac*aad(itypj,iteli)
4263 e2=fac*bad(itypj,iteli)
4264 if (iabs(j-i) .le. 2) then
4267 evdw2_14=evdw2_14+e1+e2
4271 if (energy_dec) write (iout,'(a6,2i5,0pf7.3)')
4272 & 'evdw2',i,j,evdwij
4274 C Calculate contributions to the gradient in the virtual-bond and SC vectors.
4276 fac=-(evdwij+e1)*rrij
4280 cgrad if (j.lt.i) then
4281 cd write (iout,*) 'j<i'
4282 C Uncomment following three lines for SC-p interactions
4284 c gradx_scp(k,j)=gradx_scp(k,j)+ggg(k)
4287 cd write (iout,*) 'j>i'
4289 cgrad ggg(k)=-ggg(k)
4290 C Uncomment following line for SC-p interactions
4291 ccgrad gradx_scp(k,j)=gradx_scp(k,j)-ggg(k)
4292 c gradx_scp(k,j)=gradx_scp(k,j)+ggg(k)
4296 cgrad gvdwc_scp(k,i)=gvdwc_scp(k,i)-0.5D0*ggg(k)
4298 cgrad kstart=min0(i+1,j)
4299 cgrad kend=max0(i-1,j-1)
4300 cd write (iout,*) 'i=',i,' j=',j,' kstart=',kstart,' kend=',kend
4301 cd write (iout,*) ggg(1),ggg(2),ggg(3)
4302 cgrad do k=kstart,kend
4304 cgrad gvdwc_scp(l,k)=gvdwc_scp(l,k)-ggg(l)
4308 gvdwc_scpp(k,i)=gvdwc_scpp(k,i)-ggg(k)
4309 gvdwc_scp(k,j)=gvdwc_scp(k,j)+ggg(k)
4317 gvdwc_scp(j,i)=expon*gvdwc_scp(j,i)
4318 gvdwc_scpp(j,i)=expon*gvdwc_scpp(j,i)
4319 gradx_scp(j,i)=expon*gradx_scp(j,i)
4322 C******************************************************************************
4326 C To save time the factor EXPON has been extracted from ALL components
4327 C of GVDWC and GRADX. Remember to multiply them by this factor before further
4330 C******************************************************************************
4333 C--------------------------------------------------------------------------
4334 subroutine edis(ehpb)
4336 C Evaluate bridge-strain energy and its gradient in virtual-bond and SC vectors.
4338 implicit real*8 (a-h,o-z)
4339 include 'DIMENSIONS'
4340 include 'COMMON.SBRIDGE'
4341 include 'COMMON.CHAIN'
4342 include 'COMMON.DERIV'
4343 include 'COMMON.VAR'
4344 include 'COMMON.INTERACT'
4345 include 'COMMON.IOUNITS'
4348 cd write(iout,*)'edis: nhpb=',nhpb,' fbr=',fbr
4349 cd write(iout,*)'link_start=',link_start,' link_end=',link_end
4350 if (link_end.eq.0) return
4351 do i=link_start,link_end
4352 C If ihpb(i) and jhpb(i) > NRES, this is a SC-SC distance, otherwise a
4353 C CA-CA distance used in regularization of structure.
4356 C iii and jjj point to the residues for which the distance is assigned.
4357 if (ii.gt.nres) then
4364 c write (iout,*) "i",i," ii",ii," iii",iii," jj",jj," jjj",jjj,
4365 c & dhpb(i),dhpb1(i),forcon(i)
4366 C 24/11/03 AL: SS bridges handled separately because of introducing a specific
4367 C distance and angle dependent SS bond potential.
4368 cmc if (ii.gt.nres .and. itype(iii).eq.1 .and. itype(jjj).eq.1) then
4369 C 18/07/06 MC: Use the convention that the first nss pairs are SS bonds
4370 if (.not.dyn_ss .and. i.le.nss) then
4371 C 15/02/13 CC dynamic SSbond - additional check
4373 & .and. itype(iii).eq.1 .and. itype(jjj).eq.1) then
4374 call ssbond_ene(iii,jjj,eij)
4377 cd write (iout,*) "eij",eij
4378 else if (ii.gt.nres .and. jj.gt.nres) then
4379 c Restraints from contact prediction
4381 if (dhpb1(i).gt.0.0d0) then
4382 ehpb=ehpb+2*forcon(i)*gnmr1(dd,dhpb(i),dhpb1(i))
4383 fac=forcon(i)*gnmr1prim(dd,dhpb(i),dhpb1(i))/dd
4384 c write (iout,*) "beta nmr",
4385 c & dd,2*forcon(i)*gnmr1(dd,dhpb(i),dhpb1(i))
4389 C Get the force constant corresponding to this distance.
4391 C Calculate the contribution to energy.
4392 ehpb=ehpb+waga*rdis*rdis
4393 c write (iout,*) "beta reg",dd,waga*rdis*rdis
4395 C Evaluate gradient.
4400 ggg(j)=fac*(c(j,jj)-c(j,ii))
4403 ghpbx(j,iii)=ghpbx(j,iii)-ggg(j)
4404 ghpbx(j,jjj)=ghpbx(j,jjj)+ggg(j)
4407 ghpbc(k,jjj)=ghpbc(k,jjj)+ggg(k)
4408 ghpbc(k,iii)=ghpbc(k,iii)-ggg(k)
4411 C Calculate the distance between the two points and its difference from the
4414 if (dhpb1(i).gt.0.0d0) then
4415 ehpb=ehpb+2*forcon(i)*gnmr1(dd,dhpb(i),dhpb1(i))
4416 fac=forcon(i)*gnmr1prim(dd,dhpb(i),dhpb1(i))/dd
4417 c write (iout,*) "alph nmr",
4418 c & dd,2*forcon(i)*gnmr1(dd,dhpb(i),dhpb1(i))
4421 C Get the force constant corresponding to this distance.
4423 C Calculate the contribution to energy.
4424 ehpb=ehpb+waga*rdis*rdis
4425 c write (iout,*) "alpha reg",dd,waga*rdis*rdis
4427 C Evaluate gradient.
4431 cd print *,'i=',i,' ii=',ii,' jj=',jj,' dhpb=',dhpb(i),' dd=',dd,
4432 cd & ' waga=',waga,' fac=',fac
4434 ggg(j)=fac*(c(j,jj)-c(j,ii))
4436 cd print '(i3,3(1pe14.5))',i,(ggg(j),j=1,3)
4437 C If this is a SC-SC distance, we need to calculate the contributions to the
4438 C Cartesian gradient in the SC vectors (ghpbx).
4441 ghpbx(j,iii)=ghpbx(j,iii)-ggg(j)
4442 ghpbx(j,jjj)=ghpbx(j,jjj)+ggg(j)
4445 cgrad do j=iii,jjj-1
4447 cgrad ghpbc(k,j)=ghpbc(k,j)+ggg(k)
4451 ghpbc(k,jjj)=ghpbc(k,jjj)+ggg(k)
4452 ghpbc(k,iii)=ghpbc(k,iii)-ggg(k)
4459 C--------------------------------------------------------------------------
4460 subroutine ssbond_ene(i,j,eij)
4462 C Calculate the distance and angle dependent SS-bond potential energy
4463 C using a free-energy function derived based on RHF/6-31G** ab initio
4464 C calculations of diethyl disulfide.
4466 C A. Liwo and U. Kozlowska, 11/24/03
4468 implicit real*8 (a-h,o-z)
4469 include 'DIMENSIONS'
4470 include 'COMMON.SBRIDGE'
4471 include 'COMMON.CHAIN'
4472 include 'COMMON.DERIV'
4473 include 'COMMON.LOCAL'
4474 include 'COMMON.INTERACT'
4475 include 'COMMON.VAR'
4476 include 'COMMON.IOUNITS'
4477 double precision erij(3),dcosom1(3),dcosom2(3),gg(3)
4482 dxi=dc_norm(1,nres+i)
4483 dyi=dc_norm(2,nres+i)
4484 dzi=dc_norm(3,nres+i)
4485 c dsci_inv=dsc_inv(itypi)
4486 dsci_inv=vbld_inv(nres+i)
4488 c dscj_inv=dsc_inv(itypj)
4489 dscj_inv=vbld_inv(nres+j)
4493 dxj=dc_norm(1,nres+j)
4494 dyj=dc_norm(2,nres+j)
4495 dzj=dc_norm(3,nres+j)
4496 rrij=1.0D0/(xj*xj+yj*yj+zj*zj)
4501 om1=dxi*erij(1)+dyi*erij(2)+dzi*erij(3)
4502 om2=dxj*erij(1)+dyj*erij(2)+dzj*erij(3)
4503 om12=dxi*dxj+dyi*dyj+dzi*dzj
4505 dcosom1(k)=rij*(dc_norm(k,nres+i)-om1*erij(k))
4506 dcosom2(k)=rij*(dc_norm(k,nres+j)-om2*erij(k))
4512 deltat12=om2-om1+2.0d0
4514 eij=akcm*deltad*deltad+akth*(deltat1*deltat1+deltat2*deltat2)
4515 & +akct*deltad*deltat12+ebr
4516 & +v1ss*cosphi+v2ss*cosphi*cosphi+v3ss*cosphi*cosphi*cosphi
4517 c write(iout,*) i,j,"rij",rij,"d0cm",d0cm," akcm",akcm," akth",akth,
4518 c & " akct",akct," deltad",deltad," deltat",deltat1,deltat2,
4519 c & " deltat12",deltat12," eij",eij
4520 ed=2*akcm*deltad+akct*deltat12
4522 pom2=v1ss+2*v2ss*cosphi+3*v3ss*cosphi*cosphi
4523 eom1=-2*akth*deltat1-pom1-om2*pom2
4524 eom2= 2*akth*deltat2+pom1-om1*pom2
4527 ggk=ed*erij(k)+eom1*dcosom1(k)+eom2*dcosom2(k)
4528 ghpbx(k,i)=ghpbx(k,i)-ggk
4529 & +(eom12*(dc_norm(k,nres+j)-om12*dc_norm(k,nres+i))
4530 & +eom1*(erij(k)-om1*dc_norm(k,nres+i)))*dsci_inv
4531 ghpbx(k,j)=ghpbx(k,j)+ggk
4532 & +(eom12*(dc_norm(k,nres+i)-om12*dc_norm(k,nres+j))
4533 & +eom2*(erij(k)-om2*dc_norm(k,nres+j)))*dscj_inv
4534 ghpbc(k,i)=ghpbc(k,i)-ggk
4535 ghpbc(k,j)=ghpbc(k,j)+ggk
4538 C Calculate the components of the gradient in DC and X
4542 cgrad ghpbc(l,k)=ghpbc(l,k)+gg(l)
4547 C--------------------------------------------------------------------------
4548 subroutine ebond(estr)
4550 c Evaluate the energy of stretching of the CA-CA and CA-SC virtual bonds
4552 implicit real*8 (a-h,o-z)
4553 include 'DIMENSIONS'
4554 include 'COMMON.LOCAL'
4555 include 'COMMON.GEO'
4556 include 'COMMON.INTERACT'
4557 include 'COMMON.DERIV'
4558 include 'COMMON.VAR'
4559 include 'COMMON.CHAIN'
4560 include 'COMMON.IOUNITS'
4561 include 'COMMON.NAMES'
4562 include 'COMMON.FFIELD'
4563 include 'COMMON.CONTROL'
4564 include 'COMMON.SETUP'
4565 double precision u(3),ud(3)
4567 do i=ibondp_start,ibondp_end
4568 diff = vbld(i)-vbldp0
4569 c write (iout,*) i,vbld(i),vbldp0,diff,AKP*diff*diff
4572 gradb(j,i-1)=AKP*diff*dc(j,i-1)/vbld(i)
4574 c write (iout,'(i5,3f10.5)') i,(gradb(j,i-1),j=1,3)
4578 c 09/18/07 AL: multimodal bond potential based on AM1 CA-SC PMF's included
4580 do i=ibond_start,ibond_end
4585 diff=vbld(i+nres)-vbldsc0(1,iti)
4586 c write (iout,*) i,iti,vbld(i+nres),vbldsc0(1,iti),diff,
4587 c & AKSC(1,iti),AKSC(1,iti)*diff*diff
4588 estr=estr+0.5d0*AKSC(1,iti)*diff*diff
4590 gradbx(j,i)=AKSC(1,iti)*diff*dc(j,i+nres)/vbld(i+nres)
4594 diff=vbld(i+nres)-vbldsc0(j,iti)
4595 ud(j)=aksc(j,iti)*diff
4596 u(j)=abond0(j,iti)+0.5d0*ud(j)*diff
4610 uprod2=uprod2*u(k)*u(k)
4614 usumsqder=usumsqder+ud(j)*uprod2
4616 estr=estr+uprod/usum
4618 gradbx(j,i)=usumsqder/(usum*usum)*dc(j,i+nres)/vbld(i+nres)
4626 C--------------------------------------------------------------------------
4627 subroutine ebend(etheta)
4629 C Evaluate the virtual-bond-angle energy given the virtual-bond dihedral
4630 C angles gamma and its derivatives in consecutive thetas and gammas.
4632 implicit real*8 (a-h,o-z)
4633 include 'DIMENSIONS'
4634 include 'COMMON.LOCAL'
4635 include 'COMMON.GEO'
4636 include 'COMMON.INTERACT'
4637 include 'COMMON.DERIV'
4638 include 'COMMON.VAR'
4639 include 'COMMON.CHAIN'
4640 include 'COMMON.IOUNITS'
4641 include 'COMMON.NAMES'
4642 include 'COMMON.FFIELD'
4643 include 'COMMON.CONTROL'
4644 common /calcthet/ term1,term2,termm,diffak,ratak,
4645 & ak,aktc,termpre,termexp,sigc,sig0i,time11,time12,sigcsq,
4646 & delthe0,sig0inv,sigtc,sigsqtc,delthec,it
4647 double precision y(2),z(2)
4649 c time11=dexp(-2*time)
4652 c write (*,'(a,i2)') 'EBEND ICG=',icg
4653 do i=ithet_start,ithet_end
4654 C Zero the energy function and its derivative at 0 or pi.
4655 call splinthet(theta(i),0.5d0*delta,ss,ssd)
4660 if (phii.ne.phii) phii=150.0
4673 if (phii1.ne.phii1) phii1=150.0
4685 C Calculate the "mean" value of theta from the part of the distribution
4686 C dependent on the adjacent virtual-bond-valence angles (gamma1 & gamma2).
4687 C In following comments this theta will be referred to as t_c.
4688 thet_pred_mean=0.0d0
4692 thet_pred_mean=thet_pred_mean+athetk*y(k)+bthetk*z(k)
4694 dthett=thet_pred_mean*ssd
4695 thet_pred_mean=thet_pred_mean*ss+a0thet(it)
4696 C Derivatives of the "mean" values in gamma1 and gamma2.
4697 dthetg1=(-athet(1,it)*y(2)+athet(2,it)*y(1))*ss
4698 dthetg2=(-bthet(1,it)*z(2)+bthet(2,it)*z(1))*ss
4699 if (theta(i).gt.pi-delta) then
4700 call theteng(pi-delta,thet_pred_mean,theta0(it),f0,fprim0,
4702 call mixder(pi-delta,thet_pred_mean,theta0(it),fprim_tc0)
4703 call theteng(pi,thet_pred_mean,theta0(it),f1,fprim1,E_tc1)
4704 call spline1(theta(i),pi-delta,delta,f0,f1,fprim0,ethetai,
4706 call spline2(theta(i),pi-delta,delta,E_tc0,E_tc1,fprim_tc0,
4708 else if (theta(i).lt.delta) then
4709 call theteng(delta,thet_pred_mean,theta0(it),f0,fprim0,E_tc0)
4710 call theteng(0.0d0,thet_pred_mean,theta0(it),f1,fprim1,E_tc1)
4711 call spline1(theta(i),delta,-delta,f0,f1,fprim0,ethetai,
4713 call mixder(delta,thet_pred_mean,theta0(it),fprim_tc0)
4714 call spline2(theta(i),delta,-delta,E_tc0,E_tc1,fprim_tc0,
4717 call theteng(theta(i),thet_pred_mean,theta0(it),ethetai,
4720 etheta=etheta+ethetai
4721 if (energy_dec) write (iout,'(a6,i5,0pf7.3)')
4723 if (i.gt.3) gloc(i-3,icg)=gloc(i-3,icg)+wang*E_tc*dthetg1
4724 if (i.lt.nres) gloc(i-2,icg)=gloc(i-2,icg)+wang*E_tc*dthetg2
4725 gloc(nphi+i-2,icg)=wang*(E_theta+E_tc*dthett)+gloc(nphi+i-2,icg)
4727 C Ufff.... We've done all this!!!
4730 C---------------------------------------------------------------------------
4731 subroutine theteng(thetai,thet_pred_mean,theta0i,ethetai,E_theta,
4733 implicit real*8 (a-h,o-z)
4734 include 'DIMENSIONS'
4735 include 'COMMON.LOCAL'
4736 include 'COMMON.IOUNITS'
4737 common /calcthet/ term1,term2,termm,diffak,ratak,
4738 & ak,aktc,termpre,termexp,sigc,sig0i,time11,time12,sigcsq,
4739 & delthe0,sig0inv,sigtc,sigsqtc,delthec,it
4740 C Calculate the contributions to both Gaussian lobes.
4741 C 6/6/97 - Deform the Gaussians using the factor of 1/(1+time)
4742 C The "polynomial part" of the "standard deviation" of this part of
4746 sig=sig*thet_pred_mean+polthet(j,it)
4748 C Derivative of the "interior part" of the "standard deviation of the"
4749 C gamma-dependent Gaussian lobe in t_c.
4750 sigtc=3*polthet(3,it)
4752 sigtc=sigtc*thet_pred_mean+j*polthet(j,it)
4755 C Set the parameters of both Gaussian lobes of the distribution.
4756 C "Standard deviation" of the gamma-dependent Gaussian lobe (sigtc)
4757 fac=sig*sig+sigc0(it)
4760 C Following variable (sigsqtc) is -(1/2)d[sigma(t_c)**(-2))]/dt_c
4761 sigsqtc=-4.0D0*sigcsq*sigtc
4762 c print *,i,sig,sigtc,sigsqtc
4763 C Following variable (sigtc) is d[sigma(t_c)]/dt_c
4764 sigtc=-sigtc/(fac*fac)
4765 C Following variable is sigma(t_c)**(-2)
4766 sigcsq=sigcsq*sigcsq
4768 sig0inv=1.0D0/sig0i**2
4769 delthec=thetai-thet_pred_mean
4770 delthe0=thetai-theta0i
4771 term1=-0.5D0*sigcsq*delthec*delthec
4772 term2=-0.5D0*sig0inv*delthe0*delthe0
4773 C Following fuzzy logic is to avoid underflows in dexp and subsequent INFs and
4774 C NaNs in taking the logarithm. We extract the largest exponent which is added
4775 C to the energy (this being the log of the distribution) at the end of energy
4776 C term evaluation for this virtual-bond angle.
4777 if (term1.gt.term2) then
4779 term2=dexp(term2-termm)
4783 term1=dexp(term1-termm)
4786 C The ratio between the gamma-independent and gamma-dependent lobes of
4787 C the distribution is a Gaussian function of thet_pred_mean too.
4788 diffak=gthet(2,it)-thet_pred_mean
4789 ratak=diffak/gthet(3,it)**2
4790 ak=dexp(gthet(1,it)-0.5D0*diffak*ratak)
4791 C Let's differentiate it in thet_pred_mean NOW.
4793 C Now put together the distribution terms to make complete distribution.
4794 termexp=term1+ak*term2
4795 termpre=sigc+ak*sig0i
4796 C Contribution of the bending energy from this theta is just the -log of
4797 C the sum of the contributions from the two lobes and the pre-exponential
4798 C factor. Simple enough, isn't it?
4799 ethetai=(-dlog(termexp)-termm+dlog(termpre))
4800 C NOW the derivatives!!!
4801 C 6/6/97 Take into account the deformation.
4802 E_theta=(delthec*sigcsq*term1
4803 & +ak*delthe0*sig0inv*term2)/termexp
4804 E_tc=((sigtc+aktc*sig0i)/termpre
4805 & -((delthec*sigcsq+delthec*delthec*sigsqtc)*term1+
4806 & aktc*term2)/termexp)
4809 c-----------------------------------------------------------------------------
4810 subroutine mixder(thetai,thet_pred_mean,theta0i,E_tc_t)
4811 implicit real*8 (a-h,o-z)
4812 include 'DIMENSIONS'
4813 include 'COMMON.LOCAL'
4814 include 'COMMON.IOUNITS'
4815 common /calcthet/ term1,term2,termm,diffak,ratak,
4816 & ak,aktc,termpre,termexp,sigc,sig0i,time11,time12,sigcsq,
4817 & delthe0,sig0inv,sigtc,sigsqtc,delthec,it
4818 delthec=thetai-thet_pred_mean
4819 delthe0=thetai-theta0i
4820 C "Thank you" to MAPLE (probably spared one day of hand-differentiation).
4821 t3 = thetai-thet_pred_mean
4825 t14 = t12+t6*sigsqtc
4827 t21 = thetai-theta0i
4833 E_tc_t = -((sigcsq+2.D0*t3*sigsqtc)*t9-t14*sigcsq*t3*t16*t9
4834 & -aktc*sig0inv*t27)/t32+(t14*t9+aktc*t26)/t40
4835 & *(-t12*t9-ak*sig0inv*t27)
4839 C--------------------------------------------------------------------------
4840 subroutine ebend(etheta)
4842 C Evaluate the virtual-bond-angle energy given the virtual-bond dihedral
4843 C angles gamma and its derivatives in consecutive thetas and gammas.
4844 C ab initio-derived potentials from
4845 c Kozlowska et al., J. Phys.: Condens. Matter 19 (2007) 285203
4847 implicit real*8 (a-h,o-z)
4848 include 'DIMENSIONS'
4849 include 'COMMON.LOCAL'
4850 include 'COMMON.GEO'
4851 include 'COMMON.INTERACT'
4852 include 'COMMON.DERIV'
4853 include 'COMMON.VAR'
4854 include 'COMMON.CHAIN'
4855 include 'COMMON.IOUNITS'
4856 include 'COMMON.NAMES'
4857 include 'COMMON.FFIELD'
4858 include 'COMMON.CONTROL'
4859 double precision coskt(mmaxtheterm),sinkt(mmaxtheterm),
4860 & cosph1(maxsingle),sinph1(maxsingle),cosph2(maxsingle),
4861 & sinph2(maxsingle),cosph1ph2(maxdouble,maxdouble),
4862 & sinph1ph2(maxdouble,maxdouble)
4863 logical lprn /.false./, lprn1 /.false./
4865 do i=ithet_start,ithet_end
4866 if ((itype(i-1).eq.ntyp1).or.(itype(i-2).eq.ntyp1).or.
4867 &(itype(i).eq.ntyp1)) cycle
4871 theti2=0.5d0*theta(i)
4872 ityp2=ithetyp(itype(i-1))
4874 coskt(k)=dcos(k*theti2)
4875 sinkt(k)=dsin(k*theti2)
4878 if (i.gt.3 .and. itype(i-3).ne.ntyp1) then
4881 if (phii.ne.phii) phii=150.0
4885 ityp1=ithetyp(itype(i-2))
4887 cosph1(k)=dcos(k*phii)
4888 sinph1(k)=dsin(k*phii)
4892 ityp1=ithetyp(itype(i-2))
4898 if ((i.lt.nres).and. itype(i+1).ne.ntyp1) then
4901 if (phii1.ne.phii1) phii1=150.0
4906 ityp3=ithetyp(itype(i))
4908 cosph2(k)=dcos(k*phii1)
4909 sinph2(k)=dsin(k*phii1)
4913 ityp3=ithetyp(itype(i))
4919 ethetai=aa0thet(ityp1,ityp2,ityp3)
4922 ccl=cosph1(l)*cosph2(k-l)
4923 ssl=sinph1(l)*sinph2(k-l)
4924 scl=sinph1(l)*cosph2(k-l)
4925 csl=cosph1(l)*sinph2(k-l)
4926 cosph1ph2(l,k)=ccl-ssl
4927 cosph1ph2(k,l)=ccl+ssl
4928 sinph1ph2(l,k)=scl+csl
4929 sinph1ph2(k,l)=scl-csl
4933 write (iout,*) "i",i," ityp1",ityp1," ityp2",ityp2,
4934 & " ityp3",ityp3," theti2",theti2," phii",phii," phii1",phii1
4935 write (iout,*) "coskt and sinkt"
4937 write (iout,*) k,coskt(k),sinkt(k)
4941 ethetai=ethetai+aathet(k,ityp1,ityp2,ityp3)*sinkt(k)
4942 dethetai=dethetai+0.5d0*k*aathet(k,ityp1,ityp2,ityp3)
4945 & write (iout,*) "k",k," aathet",aathet(k,ityp1,ityp2,ityp3),
4946 & " ethetai",ethetai
4949 write (iout,*) "cosph and sinph"
4951 write (iout,*) k,cosph1(k),sinph1(k),cosph2(k),sinph2(k)
4953 write (iout,*) "cosph1ph2 and sinph2ph2"
4956 write (iout,*) l,k,cosph1ph2(l,k),cosph1ph2(k,l),
4957 & sinph1ph2(l,k),sinph1ph2(k,l)
4960 write(iout,*) "ethetai",ethetai
4964 aux=bbthet(k,m,ityp1,ityp2,ityp3)*cosph1(k)
4965 & +ccthet(k,m,ityp1,ityp2,ityp3)*sinph1(k)
4966 & +ddthet(k,m,ityp1,ityp2,ityp3)*cosph2(k)
4967 & +eethet(k,m,ityp1,ityp2,ityp3)*sinph2(k)
4968 ethetai=ethetai+sinkt(m)*aux
4969 dethetai=dethetai+0.5d0*m*aux*coskt(m)
4970 dephii=dephii+k*sinkt(m)*(
4971 & ccthet(k,m,ityp1,ityp2,ityp3)*cosph1(k)-
4972 & bbthet(k,m,ityp1,ityp2,ityp3)*sinph1(k))
4973 dephii1=dephii1+k*sinkt(m)*(
4974 & eethet(k,m,ityp1,ityp2,ityp3)*cosph2(k)-
4975 & ddthet(k,m,ityp1,ityp2,ityp3)*sinph2(k))
4977 & write (iout,*) "m",m," k",k," bbthet",
4978 & bbthet(k,m,ityp1,ityp2,ityp3)," ccthet",
4979 & ccthet(k,m,ityp1,ityp2,ityp3)," ddthet",
4980 & ddthet(k,m,ityp1,ityp2,ityp3)," eethet",
4981 & eethet(k,m,ityp1,ityp2,ityp3)," ethetai",ethetai
4985 & write(iout,*) "ethetai",ethetai
4989 aux=ffthet(l,k,m,ityp1,ityp2,ityp3)*cosph1ph2(l,k)+
4990 & ffthet(k,l,m,ityp1,ityp2,ityp3)*cosph1ph2(k,l)+
4991 & ggthet(l,k,m,ityp1,ityp2,ityp3)*sinph1ph2(l,k)+
4992 & ggthet(k,l,m,ityp1,ityp2,ityp3)*sinph1ph2(k,l)
4993 ethetai=ethetai+sinkt(m)*aux
4994 dethetai=dethetai+0.5d0*m*coskt(m)*aux
4995 dephii=dephii+l*sinkt(m)*(
4996 & -ffthet(l,k,m,ityp1,ityp2,ityp3)*sinph1ph2(l,k)-
4997 & ffthet(k,l,m,ityp1,ityp2,ityp3)*sinph1ph2(k,l)+
4998 & ggthet(l,k,m,ityp1,ityp2,ityp3)*cosph1ph2(l,k)+
4999 & ggthet(k,l,m,ityp1,ityp2,ityp3)*cosph1ph2(k,l))
5000 dephii1=dephii1+(k-l)*sinkt(m)*(
5001 & -ffthet(l,k,m,ityp1,ityp2,ityp3)*sinph1ph2(l,k)+
5002 & ffthet(k,l,m,ityp1,ityp2,ityp3)*sinph1ph2(k,l)+
5003 & ggthet(l,k,m,ityp1,ityp2,ityp3)*cosph1ph2(l,k)-
5004 & ggthet(k,l,m,ityp1,ityp2,ityp3)*cosph1ph2(k,l))
5006 write (iout,*) "m",m," k",k," l",l," ffthet",
5007 & ffthet(l,k,m,ityp1,ityp2,ityp3),
5008 & ffthet(k,l,m,ityp1,ityp2,ityp3)," ggthet",
5009 & ggthet(l,k,m,ityp1,ityp2,ityp3),
5010 & ggthet(k,l,m,ityp1,ityp2,ityp3)," ethetai",ethetai
5011 write (iout,*) cosph1ph2(l,k)*sinkt(m),
5012 & cosph1ph2(k,l)*sinkt(m),
5013 & sinph1ph2(l,k)*sinkt(m),sinph1ph2(k,l)*sinkt(m)
5020 if (lprn1) write (iout,'(a4,i2,3f8.1,9h ethetai ,f10.5)')
5021 & 'ebe', i,theta(i)*rad2deg,phii*rad2deg,
5022 & phii1*rad2deg,ethetai
5024 etheta=etheta+ethetai
5025 if (i.gt.3) gloc(i-3,icg)=gloc(i-3,icg)+wang*dephii
5026 if (i.lt.nres) gloc(i-2,icg)=gloc(i-2,icg)+wang*dephii1
5027 gloc(nphi+i-2,icg)=gloc(nphi+i-2,icg)+wang*dethetai
5033 c-----------------------------------------------------------------------------
5034 subroutine esc(escloc)
5035 C Calculate the local energy of a side chain and its derivatives in the
5036 C corresponding virtual-bond valence angles THETA and the spherical angles
5038 implicit real*8 (a-h,o-z)
5039 include 'DIMENSIONS'
5040 include 'COMMON.GEO'
5041 include 'COMMON.LOCAL'
5042 include 'COMMON.VAR'
5043 include 'COMMON.INTERACT'
5044 include 'COMMON.DERIV'
5045 include 'COMMON.CHAIN'
5046 include 'COMMON.IOUNITS'
5047 include 'COMMON.NAMES'
5048 include 'COMMON.FFIELD'
5049 include 'COMMON.CONTROL'
5050 double precision x(3),dersc(3),xemp(3),dersc0(3),dersc1(3),
5051 & ddersc0(3),ddummy(3),xtemp(3),temp(3)
5052 common /sccalc/ time11,time12,time112,theti,it,nlobit
5055 c write (iout,'(a)') 'ESC'
5056 do i=loc_start,loc_end
5058 if (it.eq.10) goto 1
5060 c print *,'i=',i,' it=',it,' nlobit=',nlobit
5061 c write (iout,*) 'i=',i,' ssa=',ssa,' ssad=',ssad
5062 theti=theta(i+1)-pipol
5067 if (x(2).gt.pi-delta) then
5071 call enesc(xtemp,escloci0,dersc0,ddersc0,.true.)
5073 call enesc(xtemp,escloci1,dersc1,ddummy,.false.)
5074 call spline1(x(2),pi-delta,delta,escloci0,escloci1,dersc0(2),
5076 call spline2(x(2),pi-delta,delta,dersc0(1),dersc1(1),
5077 & ddersc0(1),dersc(1))
5078 call spline2(x(2),pi-delta,delta,dersc0(3),dersc1(3),
5079 & ddersc0(3),dersc(3))
5081 call enesc_bound(xtemp,esclocbi0,dersc0,dersc12,.true.)
5083 call enesc_bound(xtemp,esclocbi1,dersc1,chuju,.false.)
5084 call spline1(x(2),pi-delta,delta,esclocbi0,esclocbi1,
5085 & dersc0(2),esclocbi,dersc02)
5086 call spline2(x(2),pi-delta,delta,dersc0(1),dersc1(1),
5088 call splinthet(x(2),0.5d0*delta,ss,ssd)
5093 dersc(k)=ss*dersc(k)+(1.0d0-ss)*dersc0(k)
5095 dersc(2)=dersc(2)+ssd*(escloci-esclocbi)
5096 c write (iout,*) 'i=',i,x(2)*rad2deg,escloci0,escloci,
5098 escloci=ss*escloci+(1.0d0-ss)*esclocbi
5100 c write (iout,*) escloci
5101 else if (x(2).lt.delta) then
5105 call enesc(xtemp,escloci0,dersc0,ddersc0,.true.)
5107 call enesc(xtemp,escloci1,dersc1,ddummy,.false.)
5108 call spline1(x(2),delta,-delta,escloci0,escloci1,dersc0(2),
5110 call spline2(x(2),delta,-delta,dersc0(1),dersc1(1),
5111 & ddersc0(1),dersc(1))
5112 call spline2(x(2),delta,-delta,dersc0(3),dersc1(3),
5113 & ddersc0(3),dersc(3))
5115 call enesc_bound(xtemp,esclocbi0,dersc0,dersc12,.true.)
5117 call enesc_bound(xtemp,esclocbi1,dersc1,chuju,.false.)
5118 call spline1(x(2),delta,-delta,esclocbi0,esclocbi1,
5119 & dersc0(2),esclocbi,dersc02)
5120 call spline2(x(2),delta,-delta,dersc0(1),dersc1(1),
5125 call splinthet(x(2),0.5d0*delta,ss,ssd)
5127 dersc(k)=ss*dersc(k)+(1.0d0-ss)*dersc0(k)
5129 dersc(2)=dersc(2)+ssd*(escloci-esclocbi)
5130 c write (iout,*) 'i=',i,x(2)*rad2deg,escloci0,escloci,
5132 escloci=ss*escloci+(1.0d0-ss)*esclocbi
5133 c write (iout,*) escloci
5135 call enesc(x,escloci,dersc,ddummy,.false.)
5138 escloc=escloc+escloci
5139 if (energy_dec) write (iout,'(a6,i5,0pf7.3)')
5140 & 'escloc',i,escloci
5141 c write (iout,*) 'i=',i,' escloci=',escloci,' dersc=',dersc
5143 gloc(nphi+i-1,icg)=gloc(nphi+i-1,icg)+
5145 gloc(ialph(i,1),icg)=wscloc*dersc(2)
5146 gloc(ialph(i,1)+nside,icg)=wscloc*dersc(3)
5151 C---------------------------------------------------------------------------
5152 subroutine enesc(x,escloci,dersc,ddersc,mixed)
5153 implicit real*8 (a-h,o-z)
5154 include 'DIMENSIONS'
5155 include 'COMMON.GEO'
5156 include 'COMMON.LOCAL'
5157 include 'COMMON.IOUNITS'
5158 common /sccalc/ time11,time12,time112,theti,it,nlobit
5159 double precision x(3),z(3),Ax(3,maxlob,-1:1),dersc(3),ddersc(3)
5160 double precision contr(maxlob,-1:1)
5162 c write (iout,*) 'it=',it,' nlobit=',nlobit
5166 if (mixed) ddersc(j)=0.0d0
5170 C Because of periodicity of the dependence of the SC energy in omega we have
5171 C to add up the contributions from x(3)-2*pi, x(3), and x(3+2*pi).
5172 C To avoid underflows, first compute & store the exponents.
5180 z(k)=x(k)-censc(k,j,it)
5185 Axk=Axk+gaussc(l,k,j,it)*z(l)
5191 expfac=expfac+Ax(k,j,iii)*z(k)
5199 C As in the case of ebend, we want to avoid underflows in exponentiation and
5200 C subsequent NaNs and INFs in energy calculation.
5201 C Find the largest exponent
5205 if (emin.gt.contr(j,iii)) emin=contr(j,iii)
5209 cd print *,'it=',it,' emin=',emin
5211 C Compute the contribution to SC energy and derivatives
5216 adexp=bsc(j,it)-0.5D0*contr(j,iii)+emin
5217 if(adexp.ne.adexp) adexp=1.0
5220 expfac=dexp(bsc(j,it)-0.5D0*contr(j,iii)+emin)
5222 cd print *,'j=',j,' expfac=',expfac
5223 escloc_i=escloc_i+expfac
5225 dersc(k)=dersc(k)+Ax(k,j,iii)*expfac
5229 ddersc(k)=ddersc(k)+(-Ax(2,j,iii)*Ax(k,j,iii)
5230 & +gaussc(k,2,j,it))*expfac
5237 dersc(1)=dersc(1)/cos(theti)**2
5238 ddersc(1)=ddersc(1)/cos(theti)**2
5241 escloci=-(dlog(escloc_i)-emin)
5243 dersc(j)=dersc(j)/escloc_i
5247 ddersc(j)=(ddersc(j)/escloc_i+dersc(2)*dersc(j))
5252 C------------------------------------------------------------------------------
5253 subroutine enesc_bound(x,escloci,dersc,dersc12,mixed)
5254 implicit real*8 (a-h,o-z)
5255 include 'DIMENSIONS'
5256 include 'COMMON.GEO'
5257 include 'COMMON.LOCAL'
5258 include 'COMMON.IOUNITS'
5259 common /sccalc/ time11,time12,time112,theti,it,nlobit
5260 double precision x(3),z(3),Ax(3,maxlob),dersc(3)
5261 double precision contr(maxlob)
5272 z(k)=x(k)-censc(k,j,it)
5278 Axk=Axk+gaussc(l,k,j,it)*z(l)
5284 expfac=expfac+Ax(k,j)*z(k)
5289 C As in the case of ebend, we want to avoid underflows in exponentiation and
5290 C subsequent NaNs and INFs in energy calculation.
5291 C Find the largest exponent
5294 if (emin.gt.contr(j)) emin=contr(j)
5298 C Compute the contribution to SC energy and derivatives
5302 expfac=dexp(bsc(j,it)-0.5D0*contr(j)+emin)
5303 escloc_i=escloc_i+expfac
5305 dersc(k)=dersc(k)+Ax(k,j)*expfac
5307 if (mixed) dersc12=dersc12+(-Ax(2,j)*Ax(1,j)
5308 & +gaussc(1,2,j,it))*expfac
5312 dersc(1)=dersc(1)/cos(theti)**2
5313 dersc12=dersc12/cos(theti)**2
5314 escloci=-(dlog(escloc_i)-emin)
5316 dersc(j)=dersc(j)/escloc_i
5318 if (mixed) dersc12=(dersc12/escloc_i+dersc(2)*dersc(1))
5322 c----------------------------------------------------------------------------------
5323 subroutine esc(escloc)
5324 C Calculate the local energy of a side chain and its derivatives in the
5325 C corresponding virtual-bond valence angles THETA and the spherical angles
5326 C ALPHA and OMEGA derived from AM1 all-atom calculations.
5327 C added by Urszula Kozlowska. 07/11/2007
5329 implicit real*8 (a-h,o-z)
5330 include 'DIMENSIONS'
5331 include 'COMMON.GEO'
5332 include 'COMMON.LOCAL'
5333 include 'COMMON.VAR'
5334 include 'COMMON.SCROT'
5335 include 'COMMON.INTERACT'
5336 include 'COMMON.DERIV'
5337 include 'COMMON.CHAIN'
5338 include 'COMMON.IOUNITS'
5339 include 'COMMON.NAMES'
5340 include 'COMMON.FFIELD'
5341 include 'COMMON.CONTROL'
5342 include 'COMMON.VECTORS'
5343 double precision x_prime(3),y_prime(3),z_prime(3)
5344 & , sumene,dsc_i,dp2_i,x(65),
5345 & xx,yy,zz,sumene1,sumene2,sumene3,sumene4,s1,s1_6,s2,s2_6,
5346 & de_dxx,de_dyy,de_dzz,de_dt
5347 double precision s1_t,s1_6_t,s2_t,s2_6_t
5349 & dXX_Ci1(3),dYY_Ci1(3),dZZ_Ci1(3),dXX_Ci(3),
5350 & dYY_Ci(3),dZZ_Ci(3),dXX_XYZ(3),dYY_XYZ(3),dZZ_XYZ(3),
5351 & dt_dCi(3),dt_dCi1(3)
5352 common /sccalc/ time11,time12,time112,theti,it,nlobit
5355 c write(iout,*) "ESC: loc_start",loc_start," loc_end",loc_end
5356 do i=loc_start,loc_end
5357 costtab(i+1) =dcos(theta(i+1))
5358 sinttab(i+1) =dsqrt(1-costtab(i+1)*costtab(i+1))
5359 cost2tab(i+1)=dsqrt(0.5d0*(1.0d0+costtab(i+1)))
5360 sint2tab(i+1)=dsqrt(0.5d0*(1.0d0-costtab(i+1)))
5361 cosfac2=0.5d0/(1.0d0+costtab(i+1))
5362 cosfac=dsqrt(cosfac2)
5363 sinfac2=0.5d0/(1.0d0-costtab(i+1))
5364 sinfac=dsqrt(sinfac2)
5366 if (it.eq.10) goto 1
5368 C Compute the axes of tghe local cartesian coordinates system; store in
5369 c x_prime, y_prime and z_prime
5376 C write(2,*) "dc_norm", dc_norm(1,i+nres),dc_norm(2,i+nres),
5377 C & dc_norm(3,i+nres)
5379 x_prime(j) = (dc_norm(j,i) - dc_norm(j,i-1))*cosfac
5380 y_prime(j) = (dc_norm(j,i) + dc_norm(j,i-1))*sinfac
5383 z_prime(j) = -uz(j,i-1)
5386 c write (2,*) "x_prime",(x_prime(j),j=1,3)
5387 c write (2,*) "y_prime",(y_prime(j),j=1,3)
5388 c write (2,*) "z_prime",(z_prime(j),j=1,3)
5389 c write (2,*) "xx",scalar(x_prime(1),x_prime(1)),
5390 c & " xy",scalar(x_prime(1),y_prime(1)),
5391 c & " xz",scalar(x_prime(1),z_prime(1)),
5392 c & " yy",scalar(y_prime(1),y_prime(1)),
5393 c & " yz",scalar(y_prime(1),z_prime(1)),
5394 c & " zz",scalar(z_prime(1),z_prime(1))
5396 C Transform the unit vector of the ith side-chain centroid, dC_norm(*,i),
5397 C to local coordinate system. Store in xx, yy, zz.
5403 xx = xx + x_prime(j)*dc_norm(j,i+nres)
5404 yy = yy + y_prime(j)*dc_norm(j,i+nres)
5405 zz = zz + z_prime(j)*dc_norm(j,i+nres)
5412 C Compute the energy of the ith side cbain
5414 c write (2,*) "xx",xx," yy",yy," zz",zz
5417 x(j) = sc_parmin(j,it)
5420 Cc diagnostics - remove later
5422 yy1 = dsin(alph(2))*dcos(omeg(2))
5423 zz1 = -dsin(alph(2))*dsin(omeg(2))
5424 write(2,'(3f8.1,3f9.3,1x,3f9.3)')
5425 & alph(2)*rad2deg,omeg(2)*rad2deg,theta(3)*rad2deg,xx,yy,zz,
5427 C," --- ", xx_w,yy_w,zz_w
5430 sumene1= x(1)+ x(2)*xx+ x(3)*yy+ x(4)*zz+ x(5)*xx**2
5431 & + x(6)*yy**2+ x(7)*zz**2+ x(8)*xx*zz+ x(9)*xx*yy
5433 sumene2= x(11) + x(12)*xx + x(13)*yy + x(14)*zz + x(15)*xx**2
5434 & + x(16)*yy**2 + x(17)*zz**2 + x(18)*xx*zz + x(19)*xx*yy
5436 sumene3= x(21) +x(22)*xx +x(23)*yy +x(24)*zz +x(25)*xx**2
5437 & +x(26)*yy**2 +x(27)*zz**2 +x(28)*xx*zz +x(29)*xx*yy
5438 & +x(30)*yy*zz +x(31)*xx**3 +x(32)*yy**3 +x(33)*zz**3
5439 & +x(34)*(xx**2)*yy +x(35)*(xx**2)*zz +x(36)*(yy**2)*xx
5440 & +x(37)*(yy**2)*zz +x(38)*(zz**2)*xx +x(39)*(zz**2)*yy
5442 sumene4= x(41) +x(42)*xx +x(43)*yy +x(44)*zz +x(45)*xx**2
5443 & +x(46)*yy**2 +x(47)*zz**2 +x(48)*xx*zz +x(49)*xx*yy
5444 & +x(50)*yy*zz +x(51)*xx**3 +x(52)*yy**3 +x(53)*zz**3
5445 & +x(54)*(xx**2)*yy +x(55)*(xx**2)*zz +x(56)*(yy**2)*xx
5446 & +x(57)*(yy**2)*zz +x(58)*(zz**2)*xx +x(59)*(zz**2)*yy
5448 dsc_i = 0.743d0+x(61)
5450 dscp1=dsqrt(dsc_i**2+dp2_i**2-2*dsc_i*dp2_i
5451 & *(xx*cost2tab(i+1)+yy*sint2tab(i+1)))
5452 dscp2=dsqrt(dsc_i**2+dp2_i**2-2*dsc_i*dp2_i
5453 & *(xx*cost2tab(i+1)-yy*sint2tab(i+1)))
5454 s1=(1+x(63))/(0.1d0 + dscp1)
5455 s1_6=(1+x(64))/(0.1d0 + dscp1**6)
5456 s2=(1+x(65))/(0.1d0 + dscp2)
5457 s2_6=(1+x(65))/(0.1d0 + dscp2**6)
5458 sumene = ( sumene3*sint2tab(i+1) + sumene1)*(s1+s1_6)
5459 & + (sumene4*cost2tab(i+1) +sumene2)*(s2+s2_6)
5460 c write(2,'(i2," sumene",7f9.3)') i,sumene1,sumene2,sumene3,
5462 c & dscp1,dscp2,sumene
5463 c sumene = enesc(x,xx,yy,zz,cost2tab(i+1),sint2tab(i+1))
5464 escloc = escloc + sumene
5465 c write (2,*) "i",i," escloc",sumene,escloc
5468 C This section to check the numerical derivatives of the energy of ith side
5469 C chain in xx, yy, zz, and theta. Use the -DDEBUG compiler option or insert
5470 C #define DEBUG in the code to turn it on.
5472 write (2,*) "sumene =",sumene
5476 write (2,*) xx,yy,zz
5477 sumenep = enesc(x,xx,yy,zz,cost2tab(i+1),sint2tab(i+1))
5478 de_dxx_num=(sumenep-sumene)/aincr
5480 write (2,*) "xx+ sumene from enesc=",sumenep
5483 write (2,*) xx,yy,zz
5484 sumenep = enesc(x,xx,yy,zz,cost2tab(i+1),sint2tab(i+1))
5485 de_dyy_num=(sumenep-sumene)/aincr
5487 write (2,*) "yy+ sumene from enesc=",sumenep
5490 write (2,*) xx,yy,zz
5491 sumenep = enesc(x,xx,yy,zz,cost2tab(i+1),sint2tab(i+1))
5492 de_dzz_num=(sumenep-sumene)/aincr
5494 write (2,*) "zz+ sumene from enesc=",sumenep
5495 costsave=cost2tab(i+1)
5496 sintsave=sint2tab(i+1)
5497 cost2tab(i+1)=dcos(0.5d0*(theta(i+1)+aincr))
5498 sint2tab(i+1)=dsin(0.5d0*(theta(i+1)+aincr))
5499 sumenep = enesc(x,xx,yy,zz,cost2tab(i+1),sint2tab(i+1))
5500 de_dt_num=(sumenep-sumene)/aincr
5501 write (2,*) " t+ sumene from enesc=",sumenep
5502 cost2tab(i+1)=costsave
5503 sint2tab(i+1)=sintsave
5504 C End of diagnostics section.
5507 C Compute the gradient of esc
5509 pom_s1=(1.0d0+x(63))/(0.1d0 + dscp1)**2
5510 pom_s16=6*(1.0d0+x(64))/(0.1d0 + dscp1**6)**2
5511 pom_s2=(1.0d0+x(65))/(0.1d0 + dscp2)**2
5512 pom_s26=6*(1.0d0+x(65))/(0.1d0 + dscp2**6)**2
5513 pom_dx=dsc_i*dp2_i*cost2tab(i+1)
5514 pom_dy=dsc_i*dp2_i*sint2tab(i+1)
5515 pom_dt1=-0.5d0*dsc_i*dp2_i*(xx*sint2tab(i+1)-yy*cost2tab(i+1))
5516 pom_dt2=-0.5d0*dsc_i*dp2_i*(xx*sint2tab(i+1)+yy*cost2tab(i+1))
5517 pom1=(sumene3*sint2tab(i+1)+sumene1)
5518 & *(pom_s1/dscp1+pom_s16*dscp1**4)
5519 pom2=(sumene4*cost2tab(i+1)+sumene2)
5520 & *(pom_s2/dscp2+pom_s26*dscp2**4)
5521 sumene1x=x(2)+2*x(5)*xx+x(8)*zz+ x(9)*yy
5522 sumene3x=x(22)+2*x(25)*xx+x(28)*zz+x(29)*yy+3*x(31)*xx**2
5523 & +2*x(34)*xx*yy +2*x(35)*xx*zz +x(36)*(yy**2) +x(38)*(zz**2)
5525 sumene2x=x(12)+2*x(15)*xx+x(18)*zz+ x(19)*yy
5526 sumene4x=x(42)+2*x(45)*xx +x(48)*zz +x(49)*yy +3*x(51)*xx**2
5527 & +2*x(54)*xx*yy+2*x(55)*xx*zz+x(56)*(yy**2)+x(58)*(zz**2)
5529 de_dxx =(sumene1x+sumene3x*sint2tab(i+1))*(s1+s1_6)
5530 & +(sumene2x+sumene4x*cost2tab(i+1))*(s2+s2_6)
5531 & +(pom1+pom2)*pom_dx
5533 write(2,*), "de_dxx = ", de_dxx,de_dxx_num
5536 sumene1y=x(3) + 2*x(6)*yy + x(9)*xx + x(10)*zz
5537 sumene3y=x(23) +2*x(26)*yy +x(29)*xx +x(30)*zz +3*x(32)*yy**2
5538 & +x(34)*(xx**2) +2*x(36)*yy*xx +2*x(37)*yy*zz +x(39)*(zz**2)
5540 sumene2y=x(13) + 2*x(16)*yy + x(19)*xx + x(20)*zz
5541 sumene4y=x(43)+2*x(46)*yy+x(49)*xx +x(50)*zz
5542 & +3*x(52)*yy**2+x(54)*xx**2+2*x(56)*yy*xx +2*x(57)*yy*zz
5543 & +x(59)*zz**2 +x(60)*xx*zz
5544 de_dyy =(sumene1y+sumene3y*sint2tab(i+1))*(s1+s1_6)
5545 & +(sumene2y+sumene4y*cost2tab(i+1))*(s2+s2_6)
5546 & +(pom1-pom2)*pom_dy
5548 write(2,*), "de_dyy = ", de_dyy,de_dyy_num
5551 de_dzz =(x(24) +2*x(27)*zz +x(28)*xx +x(30)*yy
5552 & +3*x(33)*zz**2 +x(35)*xx**2 +x(37)*yy**2 +2*x(38)*zz*xx
5553 & +2*x(39)*zz*yy +x(40)*xx*yy)*sint2tab(i+1)*(s1+s1_6)
5554 & +(x(4) + 2*x(7)*zz+ x(8)*xx + x(10)*yy)*(s1+s1_6)
5555 & +(x(44)+2*x(47)*zz +x(48)*xx +x(50)*yy +3*x(53)*zz**2
5556 & +x(55)*xx**2 +x(57)*(yy**2)+2*x(58)*zz*xx +2*x(59)*zz*yy
5557 & +x(60)*xx*yy)*cost2tab(i+1)*(s2+s2_6)
5558 & + ( x(14) + 2*x(17)*zz+ x(18)*xx + x(20)*yy)*(s2+s2_6)
5560 write(2,*), "de_dzz = ", de_dzz,de_dzz_num
5563 de_dt = 0.5d0*sumene3*cost2tab(i+1)*(s1+s1_6)
5564 & -0.5d0*sumene4*sint2tab(i+1)*(s2+s2_6)
5565 & +pom1*pom_dt1+pom2*pom_dt2
5567 write(2,*), "de_dt = ", de_dt,de_dt_num
5571 cossc=scalar(dc_norm(1,i),dc_norm(1,i+nres))
5572 cossc1=scalar(dc_norm(1,i-1),dc_norm(1,i+nres))
5573 cosfac2xx=cosfac2*xx
5574 sinfac2yy=sinfac2*yy
5576 dt_dCi(k) = -(dc_norm(k,i-1)+costtab(i+1)*dc_norm(k,i))*
5578 dt_dCi1(k)= -(dc_norm(k,i)+costtab(i+1)*dc_norm(k,i-1))*
5580 pom=(dC_norm(k,i+nres)-cossc*dC_norm(k,i))*vbld_inv(i+1)
5581 pom1=(dC_norm(k,i+nres)-cossc1*dC_norm(k,i-1))*vbld_inv(i)
5582 c write (iout,*) "i",i," k",k," pom",pom," pom1",pom1,
5583 c & " dt_dCi",dt_dCi(k)," dt_dCi1",dt_dCi1(k)
5584 c write (iout,*) "dC_norm",(dC_norm(j,i),j=1,3),
5585 c & (dC_norm(j,i-1),j=1,3)," vbld_inv",vbld_inv(i+1),vbld_inv(i)
5586 dXX_Ci(k)=pom*cosfac-dt_dCi(k)*cosfac2xx
5587 dXX_Ci1(k)=-pom1*cosfac-dt_dCi1(k)*cosfac2xx
5588 dYY_Ci(k)=pom*sinfac+dt_dCi(k)*sinfac2yy
5589 dYY_Ci1(k)=pom1*sinfac+dt_dCi1(k)*sinfac2yy
5593 dZZ_Ci(k)=dZZ_Ci(k)-uzgrad(j,k,2,i-1)*dC_norm(j,i+nres)
5594 dZZ_Ci1(k)=dZZ_Ci1(k)-uzgrad(j,k,1,i-1)*dC_norm(j,i+nres)
5597 dXX_XYZ(k)=vbld_inv(i+nres)*(x_prime(k)-xx*dC_norm(k,i+nres))
5598 dYY_XYZ(k)=vbld_inv(i+nres)*(y_prime(k)-yy*dC_norm(k,i+nres))
5599 dZZ_XYZ(k)=vbld_inv(i+nres)*(z_prime(k)-zz*dC_norm(k,i+nres))
5601 dt_dCi(k) = -dt_dCi(k)/sinttab(i+1)
5602 dt_dCi1(k)= -dt_dCi1(k)/sinttab(i+1)
5606 dXX_Ctab(k,i)=dXX_Ci(k)
5607 dXX_C1tab(k,i)=dXX_Ci1(k)
5608 dYY_Ctab(k,i)=dYY_Ci(k)
5609 dYY_C1tab(k,i)=dYY_Ci1(k)
5610 dZZ_Ctab(k,i)=dZZ_Ci(k)
5611 dZZ_C1tab(k,i)=dZZ_Ci1(k)
5612 dXX_XYZtab(k,i)=dXX_XYZ(k)
5613 dYY_XYZtab(k,i)=dYY_XYZ(k)
5614 dZZ_XYZtab(k,i)=dZZ_XYZ(k)
5618 c write (iout,*) "k",k," dxx_ci1",dxx_ci1(k)," dyy_ci1",
5619 c & dyy_ci1(k)," dzz_ci1",dzz_ci1(k)
5620 c write (iout,*) "k",k," dxx_ci",dxx_ci(k)," dyy_ci",
5621 c & dyy_ci(k)," dzz_ci",dzz_ci(k)
5622 c write (iout,*) "k",k," dt_dci",dt_dci(k)," dt_dci",
5624 c write (iout,*) "k",k," dxx_XYZ",dxx_XYZ(k)," dyy_XYZ",
5625 c & dyy_XYZ(k)," dzz_XYZ",dzz_XYZ(k)
5626 gscloc(k,i-1)=gscloc(k,i-1)+de_dxx*dxx_ci1(k)
5627 & +de_dyy*dyy_ci1(k)+de_dzz*dzz_ci1(k)+de_dt*dt_dCi1(k)
5628 gscloc(k,i)=gscloc(k,i)+de_dxx*dxx_Ci(k)
5629 & +de_dyy*dyy_Ci(k)+de_dzz*dzz_Ci(k)+de_dt*dt_dCi(k)
5630 gsclocx(k,i)= de_dxx*dxx_XYZ(k)
5631 & +de_dyy*dyy_XYZ(k)+de_dzz*dzz_XYZ(k)
5633 c write(iout,*) "ENERGY GRAD = ", (gscloc(k,i-1),k=1,3),
5634 c & (gscloc(k,i),k=1,3),(gsclocx(k,i),k=1,3)
5636 C to check gradient call subroutine check_grad
5642 c------------------------------------------------------------------------------
5643 double precision function enesc(x,xx,yy,zz,cost2,sint2)
5645 double precision x(65),xx,yy,zz,cost2,sint2,sumene1,sumene2,
5646 & sumene3,sumene4,sumene,dsc_i,dp2_i,dscp1,dscp2,s1,s1_6,s2,s2_6
5647 sumene1= x(1)+ x(2)*xx+ x(3)*yy+ x(4)*zz+ x(5)*xx**2
5648 & + x(6)*yy**2+ x(7)*zz**2+ x(8)*xx*zz+ x(9)*xx*yy
5650 sumene2= x(11) + x(12)*xx + x(13)*yy + x(14)*zz + x(15)*xx**2
5651 & + x(16)*yy**2 + x(17)*zz**2 + x(18)*xx*zz + x(19)*xx*yy
5653 sumene3= x(21) +x(22)*xx +x(23)*yy +x(24)*zz +x(25)*xx**2
5654 & +x(26)*yy**2 +x(27)*zz**2 +x(28)*xx*zz +x(29)*xx*yy
5655 & +x(30)*yy*zz +x(31)*xx**3 +x(32)*yy**3 +x(33)*zz**3
5656 & +x(34)*(xx**2)*yy +x(35)*(xx**2)*zz +x(36)*(yy**2)*xx
5657 & +x(37)*(yy**2)*zz +x(38)*(zz**2)*xx +x(39)*(zz**2)*yy
5659 sumene4= x(41) +x(42)*xx +x(43)*yy +x(44)*zz +x(45)*xx**2
5660 & +x(46)*yy**2 +x(47)*zz**2 +x(48)*xx*zz +x(49)*xx*yy
5661 & +x(50)*yy*zz +x(51)*xx**3 +x(52)*yy**3 +x(53)*zz**3
5662 & +x(54)*(xx**2)*yy +x(55)*(xx**2)*zz +x(56)*(yy**2)*xx
5663 & +x(57)*(yy**2)*zz +x(58)*(zz**2)*xx +x(59)*(zz**2)*yy
5665 dsc_i = 0.743d0+x(61)
5667 dscp1=dsqrt(dsc_i**2+dp2_i**2-2*dsc_i*dp2_i
5668 & *(xx*cost2+yy*sint2))
5669 dscp2=dsqrt(dsc_i**2+dp2_i**2-2*dsc_i*dp2_i
5670 & *(xx*cost2-yy*sint2))
5671 s1=(1+x(63))/(0.1d0 + dscp1)
5672 s1_6=(1+x(64))/(0.1d0 + dscp1**6)
5673 s2=(1+x(65))/(0.1d0 + dscp2)
5674 s2_6=(1+x(65))/(0.1d0 + dscp2**6)
5675 sumene = ( sumene3*sint2 + sumene1)*(s1+s1_6)
5676 & + (sumene4*cost2 +sumene2)*(s2+s2_6)
5681 c------------------------------------------------------------------------------
5682 subroutine gcont(rij,r0ij,eps0ij,delta,fcont,fprimcont)
5684 C This procedure calculates two-body contact function g(rij) and its derivative:
5687 C g(rij) = esp0ij*(-0.9375*x+0.625*x**3-0.1875*x**5) ! -1 =< x =< 1
5690 C where x=(rij-r0ij)/delta
5692 C rij - interbody distance, r0ij - contact distance, eps0ij - contact energy
5695 double precision rij,r0ij,eps0ij,fcont,fprimcont
5696 double precision x,x2,x4,delta
5700 if (x.lt.-1.0D0) then
5703 else if (x.le.1.0D0) then
5706 fcont=eps0ij*(x*(-0.9375D0+0.6250D0*x2-0.1875D0*x4)+0.5D0)
5707 fprimcont=eps0ij * (-0.9375D0+1.8750D0*x2-0.9375D0*x4)/delta
5714 c------------------------------------------------------------------------------
5715 subroutine splinthet(theti,delta,ss,ssder)
5716 implicit real*8 (a-h,o-z)
5717 include 'DIMENSIONS'
5718 include 'COMMON.VAR'
5719 include 'COMMON.GEO'
5722 if (theti.gt.pipol) then
5723 call gcont(theti,thetup,1.0d0,delta,ss,ssder)
5725 call gcont(-theti,-thetlow,1.0d0,delta,ss,ssder)
5730 c------------------------------------------------------------------------------
5731 subroutine spline1(x,x0,delta,f0,f1,fprim0,f,fprim)
5733 double precision x,x0,delta,f0,f1,fprim0,f,fprim
5734 double precision ksi,ksi2,ksi3,a1,a2,a3
5735 a1=fprim0*delta/(f1-f0)
5741 f=f0+(f1-f0)*ksi*(a1+ksi*(a2+a3*ksi))
5742 fprim=(f1-f0)/delta*(a1+ksi*(2*a2+3*ksi*a3))
5745 c------------------------------------------------------------------------------
5746 subroutine spline2(x,x0,delta,f0x,f1x,fprim0x,fx)
5748 double precision x,x0,delta,f0x,f1x,fprim0x,fx
5749 double precision ksi,ksi2,ksi3,a1,a2,a3
5754 a2=3*(f1x-f0x)-2*fprim0x*delta
5755 a3=fprim0x*delta-2*(f1x-f0x)
5756 fx=f0x+a1*ksi+a2*ksi2+a3*ksi3
5759 C-----------------------------------------------------------------------------
5761 C-----------------------------------------------------------------------------
5762 subroutine etor(etors,edihcnstr)
5763 implicit real*8 (a-h,o-z)
5764 include 'DIMENSIONS'
5765 include 'COMMON.VAR'
5766 include 'COMMON.GEO'
5767 include 'COMMON.LOCAL'
5768 include 'COMMON.TORSION'
5769 include 'COMMON.INTERACT'
5770 include 'COMMON.DERIV'
5771 include 'COMMON.CHAIN'
5772 include 'COMMON.NAMES'
5773 include 'COMMON.IOUNITS'
5774 include 'COMMON.FFIELD'
5775 include 'COMMON.TORCNSTR'
5776 include 'COMMON.CONTROL'
5778 C Set lprn=.true. for debugging
5782 do i=iphi_start,iphi_end
5784 itori=itortyp(itype(i-2))
5785 itori1=itortyp(itype(i-1))
5788 C Proline-Proline pair is a special case...
5789 if (itori.eq.3 .and. itori1.eq.3) then
5790 if (phii.gt.-dwapi3) then
5792 fac=1.0D0/(1.0D0-cosphi)
5793 etorsi=v1(1,3,3)*fac
5794 etorsi=etorsi+etorsi
5795 etors=etors+etorsi-v1(1,3,3)
5796 if (energy_dec) etors_ii=etors_ii+etorsi-v1(1,3,3)
5797 gloci=gloci-3*fac*etorsi*dsin(3*phii)
5800 v1ij=v1(j+1,itori,itori1)
5801 v2ij=v2(j+1,itori,itori1)
5804 etors=etors+v1ij*cosphi+v2ij*sinphi+dabs(v1ij)+dabs(v2ij)
5805 if (energy_dec) etors_ii=etors_ii+
5806 & v2ij*sinphi+dabs(v1ij)+dabs(v2ij)
5807 gloci=gloci+j*(v2ij*cosphi-v1ij*sinphi)
5811 v1ij=v1(j,itori,itori1)
5812 v2ij=v2(j,itori,itori1)
5815 etors=etors+v1ij*cosphi+v2ij*sinphi+dabs(v1ij)+dabs(v2ij)
5816 if (energy_dec) etors_ii=etors_ii+
5817 & v1ij*cosphi+v2ij*sinphi+dabs(v1ij)+dabs(v2ij)
5818 gloci=gloci+j*(v2ij*cosphi-v1ij*sinphi)
5821 if (energy_dec) write (iout,'(a6,i5,0pf7.3)')
5824 & write (iout,'(2(a3,2x,i3,2x),2i3,6f8.3/26x,6f8.3/)')
5825 & restyp(itype(i-2)),i-2,restyp(itype(i-1)),i-1,itori,itori1,
5826 & (v1(j,itori,itori1),j=1,6),(v2(j,itori,itori1),j=1,6)
5827 gloc(i-3,icg)=gloc(i-3,icg)+wtor*gloci
5828 write (iout,*) 'i=',i,' gloc=',gloc(i-3,icg)
5830 ! 6/20/98 - dihedral angle constraints
5833 itori=idih_constr(i)
5836 if (difi.gt.drange(i)) then
5838 edihcnstr=edihcnstr+0.25d0*ftors*difi**4
5839 gloc(itori-3,icg)=gloc(itori-3,icg)+ftors*difi**3
5840 else if (difi.lt.-drange(i)) then
5842 edihcnstr=edihcnstr+0.25d0*ftors*difi**4
5843 gloc(itori-3,icg)=gloc(itori-3,icg)+ftors*difi**3
5845 ! write (iout,'(2i5,2f8.3,2e14.5)') i,itori,rad2deg*phii,
5846 ! & rad2deg*difi,0.25d0*ftors*difi**4,gloc(itori-3,icg)
5848 ! write (iout,*) 'edihcnstr',edihcnstr
5851 c------------------------------------------------------------------------------
5852 c LICZENIE WIEZOW Z ROWNANIA ENERGII MODELLERA
5853 subroutine e_modeller(ehomology_constr)
5854 ehomology_constr=0.0d0
5855 write (iout,*) "!!!!!UWAGA, JESTEM W DZIWNEJ PETLI, TEST!!!!!"
5858 C !!!!!!!! NIE CZYTANE !!!!!!!!!!!
5860 c------------------------------------------------------------------------------
5861 subroutine etor_d(etors_d)
5865 c----------------------------------------------------------------------------
5867 subroutine etor(etors,edihcnstr)
5868 implicit real*8 (a-h,o-z)
5869 include 'DIMENSIONS'
5870 include 'COMMON.VAR'
5871 include 'COMMON.GEO'
5872 include 'COMMON.LOCAL'
5873 include 'COMMON.TORSION'
5874 include 'COMMON.INTERACT'
5875 include 'COMMON.DERIV'
5876 include 'COMMON.CHAIN'
5877 include 'COMMON.NAMES'
5878 include 'COMMON.IOUNITS'
5879 include 'COMMON.FFIELD'
5880 include 'COMMON.TORCNSTR'
5881 include 'COMMON.CONTROL'
5883 C Set lprn=.true. for debugging
5887 do i=iphi_start,iphi_end
5889 itori=itortyp(itype(i-2))
5890 itori1=itortyp(itype(i-1))
5893 C Regular cosine and sine terms
5894 do j=1,nterm(itori,itori1)
5895 v1ij=v1(j,itori,itori1)
5896 v2ij=v2(j,itori,itori1)
5899 etors=etors+v1ij*cosphi+v2ij*sinphi
5900 if (energy_dec) etors_ii=etors_ii+
5901 & v1ij*cosphi+v2ij*sinphi
5902 gloci=gloci+j*(v2ij*cosphi-v1ij*sinphi)
5906 C E = SUM ----------------------------------- - v1
5907 C [v2 cos(phi/2)+v3 sin(phi/2)]^2 + 1
5909 cosphi=dcos(0.5d0*phii)
5910 sinphi=dsin(0.5d0*phii)
5911 do j=1,nlor(itori,itori1)
5912 vl1ij=vlor1(j,itori,itori1)
5913 vl2ij=vlor2(j,itori,itori1)
5914 vl3ij=vlor3(j,itori,itori1)
5915 pom=vl2ij*cosphi+vl3ij*sinphi
5916 pom1=1.0d0/(pom*pom+1.0d0)
5917 etors=etors+vl1ij*pom1
5918 if (energy_dec) etors_ii=etors_ii+
5921 gloci=gloci+vl1ij*(vl3ij*cosphi-vl2ij*sinphi)*pom
5923 C Subtract the constant term
5924 etors=etors-v0(itori,itori1)
5925 if (energy_dec) write (iout,'(a6,i5,0pf7.3)')
5926 & 'etor',i,etors_ii-v0(itori,itori1)
5928 & write (iout,'(2(a3,2x,i3,2x),2i3,6f8.3/26x,6f8.3/)')
5929 & restyp(itype(i-2)),i-2,restyp(itype(i-1)),i-1,itori,itori1,
5930 & (v1(j,itori,itori1),j=1,6),(v2(j,itori,itori1),j=1,6)
5931 gloc(i-3,icg)=gloc(i-3,icg)+wtor*gloci
5932 c write (iout,*) 'i=',i,' gloc=',gloc(i-3,icg)
5934 ! 6/20/98 - dihedral angle constraints
5936 c do i=1,ndih_constr
5937 do i=idihconstr_start,idihconstr_end
5938 itori=idih_constr(i)
5940 difi=pinorm(phii-phi0(i))
5941 if (difi.gt.drange(i)) then
5943 edihcnstr=edihcnstr+0.25d0*ftors*difi**4
5944 gloc(itori-3,icg)=gloc(itori-3,icg)+ftors*difi**3
5945 else if (difi.lt.-drange(i)) then
5947 edihcnstr=edihcnstr+0.25d0*ftors*difi**4
5948 gloc(itori-3,icg)=gloc(itori-3,icg)+ftors*difi**3
5952 c write (iout,*) "gloci", gloc(i-3,icg)
5953 cd write (iout,'(2i5,4f8.3,2e14.5)') i,itori,rad2deg*phii,
5954 cd & rad2deg*phi0(i), rad2deg*drange(i),
5955 cd & rad2deg*difi,0.25d0*ftors*difi**4,gloc(itori-3,icg)
5957 cd write (iout,*) 'edihcnstr',edihcnstr
5960 c----------------------------------------------------------------------------
5961 c MODELLER restraint function
5962 subroutine e_modeller(ehomology_constr)
5963 implicit real*8 (a-h,o-z)
5964 include 'DIMENSIONS'
5966 integer nnn, i, j, k, ki, irec, l
5967 integer katy, odleglosci, test7
5968 real*8 odleg, odleg2, odleg3, kat, kat2, kat3, gdih(max_template)
5970 real*8 distance(max_template),distancek(max_template),
5971 & min_odl,godl(max_template),dih_diff(max_template)
5974 c FP - 30/10/2014 Temporary specifications for homology restraints
5976 double precision utheta_i,gutheta_i,sum_gtheta,sum_sgtheta,
5978 double precision, dimension (maxres) :: guscdiff,usc_diff
5979 double precision, dimension (max_template) ::
5980 & gtheta,dscdiff,uscdiffk,guscdiff2,guscdiff3,
5984 include 'COMMON.SBRIDGE'
5985 include 'COMMON.CHAIN'
5986 include 'COMMON.GEO'
5987 include 'COMMON.DERIV'
5988 include 'COMMON.LOCAL'
5989 include 'COMMON.INTERACT'
5990 include 'COMMON.VAR'
5991 include 'COMMON.IOUNITS'
5993 include 'COMMON.CONTROL'
5995 c From subroutine Econstr_back
5997 include 'COMMON.NAMES'
5998 include 'COMMON.TIME1'
6003 distancek(i)=9999999.9
6009 c Pseudo-energy and gradient from homology restraints (MODELLER-like
6011 C AL 5/2/14 - Introduce list of restraints
6012 c write(iout,*) "waga_theta",waga_theta,"waga_d",waga_d
6014 write(iout,*) "------- dist restrs start -------"
6016 do ii = link_start_homo,link_end_homo
6020 c write (iout,*) "dij(",i,j,") =",dij
6021 do k=1,constr_homology
6022 distance(k)=odl(k,ii)-dij
6023 c write (iout,*) "distance(",k,") =",distance(k)
6025 c For Gaussian-type Urestr
6027 distancek(k)=0.5d0*distance(k)**2*sigma_odl(k,ii) ! waga_dist rmvd from Gaussian argument
6028 c write (iout,*) "sigma_odl(",k,ii,") =",sigma_odl(k,ii)
6029 c write (iout,*) "distancek(",k,") =",distancek(k)
6030 c distancek(k)=0.5d0*waga_dist*distance(k)**2*sigma_odl(k,ii)
6032 c For Lorentzian-type Urestr
6034 if (waga_dist.lt.0.0d0) then
6035 sigma_odlir(k,ii)=dsqrt(1/sigma_odl(k,ii))
6036 distancek(k)=distance(k)**2/(sigma_odlir(k,ii)*
6037 & (distance(k)**2+sigma_odlir(k,ii)**2))
6041 min_odl=minval(distancek)
6042 c write (iout,* )"min_odl",min_odl
6044 write (iout,*) "ij dij",i,j,dij
6045 write (iout,*) "distance",(distance(k),k=1,constr_homology)
6046 write (iout,*) "distancek",(distancek(k),k=1,constr_homology)
6047 write (iout,* )"min_odl",min_odl
6050 do k=1,constr_homology
6051 c Nie wiem po co to liczycie jeszcze raz!
6052 c odleg3=-waga_dist(iset)*((distance(i,j,k)**2)/
6053 c & (2*(sigma_odl(i,j,k))**2))
6054 if (waga_dist.ge.0.0d0) then
6056 c For Gaussian-type Urestr
6058 godl(k)=dexp(-distancek(k)+min_odl)
6059 odleg2=odleg2+godl(k)
6061 c For Lorentzian-type Urestr
6064 odleg2=odleg2+distancek(k)
6067 ccc write(iout,779) i,j,k, "odleg2=",odleg2, "odleg3=", odleg3,
6068 ccc & "dEXP(odleg3)=", dEXP(odleg3),"distance(i,j,k)^2=",
6069 ccc & distance(i,j,k)**2, "dist(i+1,j+1)=", dist(i+1,j+1),
6070 ccc & "sigma_odl(i,j,k)=", sigma_odl(i,j,k)
6073 c write (iout,*) "godl",(godl(k),k=1,constr_homology) ! exponents
6074 c write (iout,*) "ii i j",ii,i,j," odleg2",odleg2 ! sum of exps
6076 write (iout,*) "godl",(godl(k),k=1,constr_homology) ! exponents
6077 write (iout,*) "ii i j",ii,i,j," odleg2",odleg2 ! sum of exps
6079 if (waga_dist.ge.0.0d0) then
6081 c For Gaussian-type Urestr
6083 odleg=odleg-dLOG(odleg2/constr_homology)+min_odl
6085 c For Lorentzian-type Urestr
6088 odleg=odleg+odleg2/constr_homology
6091 c write (iout,*) "odleg",odleg ! sum of -ln-s
6094 c For Gaussian-type Urestr
6096 if (waga_dist.ge.0.0d0) sum_godl=odleg2
6098 do k=1,constr_homology
6099 c godl=dexp(((-(distance(i,j,k)**2)/(2*(sigma_odl(i,j,k))**2))
6100 c & *waga_dist)+min_odl
6101 c sgodl=-godl(k)*distance(k)*sigma_odl(k,ii)*waga_dist
6103 if (waga_dist.ge.0.0d0) then
6104 c For Gaussian-type Urestr
6106 sgodl=-godl(k)*distance(k)*sigma_odl(k,ii) ! waga_dist rmvd
6108 c For Lorentzian-type Urestr
6111 sgodl=-2*sigma_odlir(k,ii)*(distance(k)/(distance(k)**2+
6112 & sigma_odlir(k,ii)**2)**2)
6114 sum_sgodl=sum_sgodl+sgodl
6116 c sgodl2=sgodl2+sgodl
6117 c write(iout,*) i, j, k, distance(i,j,k), "W GRADIENCIE1"
6118 c write(iout,*) "constr_homology=",constr_homology
6119 c write(iout,*) i, j, k, "TEST K"
6121 if (waga_dist.ge.0.0d0) then
6123 c For Gaussian-type Urestr
6125 grad_odl3=waga_homology(iset)*waga_dist
6126 & *sum_sgodl/(sum_godl*dij)
6128 c For Lorentzian-type Urestr
6131 c Original grad expr modified by analogy w Gaussian-type Urestr grad
6132 c grad_odl3=-waga_homology(iset)*waga_dist*sum_sgodl
6133 grad_odl3=-waga_homology(iset)*waga_dist*
6134 & sum_sgodl/(constr_homology*dij)
6137 c grad_odl3=sum_sgodl/(sum_godl*dij)
6140 c write(iout,*) i, j, k, distance(i,j,k), "W GRADIENCIE2"
6141 c write(iout,*) (distance(i,j,k)**2), (2*(sigma_odl(i,j,k))**2),
6142 c & (-(distance(i,j,k)**2)/(2*(sigma_odl(i,j,k))**2))
6144 ccc write(iout,*) godl, sgodl, grad_odl3
6146 c grad_odl=grad_odl+grad_odl3
6149 ggodl=grad_odl3*(c(jik,i)-c(jik,j))
6150 ccc write(iout,*) c(jik,i+1), c(jik,j+1), (c(jik,i+1)-c(jik,j+1))
6151 ccc write(iout,746) "GRAD_ODL_1", i, j, jik, ggodl,
6152 ccc & ghpbc(jik,i+1), ghpbc(jik,j+1)
6153 ghpbc(jik,i)=ghpbc(jik,i)+ggodl
6154 ghpbc(jik,j)=ghpbc(jik,j)-ggodl
6155 ccc write(iout,746) "GRAD_ODL_2", i, j, jik, ggodl,
6156 ccc & ghpbc(jik,i+1), ghpbc(jik,j+1)
6157 c if (i.eq.25.and.j.eq.27) then
6158 c write(iout,*) "jik",jik,"i",i,"j",j
6159 c write(iout,*) "sum_sgodl",sum_sgodl,"sgodl",sgodl
6160 c write(iout,*) "grad_odl3",grad_odl3
6161 c write(iout,*) "c(",jik,i,")",c(jik,i),"c(",jik,j,")",c(jik,j)
6162 c write(iout,*) "ggodl",ggodl
6163 c write(iout,*) "ghpbc(",jik,i,")",
6164 c & ghpbc(jik,i),"ghpbc(",jik,j,")",
6168 ccc write(iout,778)"TEST: odleg2=", odleg2, "DLOG(odleg2)=",
6169 ccc & dLOG(odleg2),"-odleg=", -odleg
6171 enddo ! ii-loop for dist
6173 write(iout,*) "------- dist restrs end -------"
6174 c if (waga_angle.eq.1.0d0 .or. waga_theta.eq.1.0d0 .or.
6175 c & waga_d.eq.1.0d0) call sum_gradient
6177 c Pseudo-energy and gradient from dihedral-angle restraints from
6178 c homology templates
6179 c write (iout,*) "End of distance loop"
6182 c write (iout,*) idihconstr_start_homo,idihconstr_end_homo
6184 write(iout,*) "------- dih restrs start -------"
6185 do i=idihconstr_start_homo,idihconstr_end_homo
6186 write (iout,*) "gloc_init(",i,icg,")",gloc(i,icg)
6189 do i=idihconstr_start_homo,idihconstr_end_homo
6191 c betai=beta(i,i+1,i+2,i+3)
6193 c write (iout,*) "betai =",betai
6194 do k=1,constr_homology
6195 dih_diff(k)=pinorm(dih(k,i)-betai)
6196 c write (iout,*) "dih_diff(",k,") =",dih_diff(k)
6197 c if (dih_diff(i,k).gt.3.14159) dih_diff(i,k)=
6198 c & -(6.28318-dih_diff(i,k))
6199 c if (dih_diff(i,k).lt.-3.14159) dih_diff(i,k)=
6200 c & 6.28318+dih_diff(i,k)
6202 kat3=-0.5d0*dih_diff(k)**2*sigma_dih(k,i) ! waga_angle rmvd from Gaussian argument
6203 c kat3=-0.5d0*waga_angle*dih_diff(k)**2*sigma_dih(k,i)
6206 c write(iout,*) "kat2=", kat2, "exp(kat3)=", exp(kat3)
6209 c write (iout,*) "gdih",(gdih(k),k=1,constr_homology) ! exps
6210 c write (iout,*) "i",i," betai",betai," kat2",kat2 ! sum of exps
6212 write (iout,*) "i",i," betai",betai," kat2",kat2
6213 write (iout,*) "gdih",(gdih(k),k=1,constr_homology)
6215 if (kat2.le.1.0d-14) cycle
6216 kat=kat-dLOG(kat2/constr_homology)
6217 c write (iout,*) "kat",kat ! sum of -ln-s
6219 ccc write(iout,778)"TEST: kat2=", kat2, "DLOG(kat2)=",
6220 ccc & dLOG(kat2), "-kat=", -kat
6222 c ----------------------------------------------------------------------
6224 c ----------------------------------------------------------------------
6228 do k=1,constr_homology
6229 sgdih=-gdih(k)*dih_diff(k)*sigma_dih(k,i) ! waga_angle rmvd
6230 c sgdih=-gdih(k)*dih_diff(k)*sigma_dih(k,i)*waga_angle
6231 sum_sgdih=sum_sgdih+sgdih
6233 c grad_dih3=sum_sgdih/sum_gdih
6234 grad_dih3=waga_homology(iset)*waga_angle*sum_sgdih/sum_gdih
6236 c write(iout,*)i,k,gdih,sgdih,beta(i+1,i+2,i+3,i+4),grad_dih3
6237 ccc write(iout,747) "GRAD_KAT_1", i, nphi, icg, grad_dih3,
6238 ccc & gloc(nphi+i-3,icg)
6239 gloc(i,icg)=gloc(i,icg)+grad_dih3
6241 c write(iout,*) "i",i,"icg",icg,"gloc(",i,icg,")",gloc(i,icg)
6243 ccc write(iout,747) "GRAD_KAT_2", i, nphi, icg, grad_dih3,
6244 ccc & gloc(nphi+i-3,icg)
6246 enddo ! i-loop for dih
6248 write(iout,*) "------- dih restrs end -------"
6251 c Pseudo-energy and gradient for theta angle restraints from
6252 c homology templates
6253 c FP 01/15 - inserted from econstr_local_test.F, loop structure
6257 c For constr_homology reference structures (FP)
6259 c Uconst_back_tot=0.0d0
6262 c Econstr_back legacy
6264 c do i=ithet_start,ithet_end
6267 c do i=loc_start,loc_end
6270 duscdiffx(j,i)=0.0d0
6275 c write (iout,*) "ithet_start =",ithet_start,"ithet_end =",ithet_end
6276 c write (iout,*) "waga_theta",waga_theta
6277 if (waga_theta.gt.0.0d0) then
6279 write (iout,*) "usampl",usampl
6280 write(iout,*) "------- theta restrs start -------"
6281 c do i=ithet_start,ithet_end
6282 c write (iout,*) "gloc_init(",nphi+i,icg,")",gloc(nphi+i,icg)
6285 c write (iout,*) "maxres",maxres,"nres",nres
6287 do i=ithet_start,ithet_end
6290 c ii = ifrag_back(2,i,iset)-ifrag_back(1,i,iset)
6292 c Deviation of theta angles wrt constr_homology ref structures
6294 utheta_i=0.0d0 ! argument of Gaussian for single k
6295 gutheta_i=0.0d0 ! Sum of Gaussians over constr_homology ref structures
6296 c do j=ifrag_back(1,i,iset)+2,ifrag_back(2,i,iset) ! original loop
6297 c over residues in a fragment
6298 c write (iout,*) "theta(",i,")=",theta(i)
6299 do k=1,constr_homology
6301 c dtheta_i=theta(j)-thetaref(j,iref)
6302 c dtheta_i=thetaref(k,i)-theta(i) ! original form without indexing
6303 theta_diff(k)=thetatpl(k,i)-theta(i)
6305 utheta_i=-0.5d0*theta_diff(k)**2*sigma_theta(k,i) ! waga_theta rmvd from Gaussian argument
6306 c utheta_i=-0.5d0*waga_theta*theta_diff(k)**2*sigma_theta(k,i) ! waga_theta?
6307 gtheta(k)=dexp(utheta_i) ! + min_utheta_i?
6308 gutheta_i=gutheta_i+dexp(utheta_i) ! Sum of Gaussians (pk)
6309 c Gradient for single Gaussian restraint in subr Econstr_back
6310 c dutheta(j-2)=dutheta(j-2)+wfrag_back(1,i,iset)*dtheta_i/(ii-1)
6313 c write (iout,*) "gtheta",(gtheta(k),k=1,constr_homology) ! exps
6314 c write (iout,*) "i",i," gutheta_i",gutheta_i ! sum of exps
6317 c Gradient for multiple Gaussian restraint
6318 sum_gtheta=gutheta_i
6320 do k=1,constr_homology
6321 c New generalized expr for multiple Gaussian from Econstr_back
6322 sgtheta=-gtheta(k)*theta_diff(k)*sigma_theta(k,i) ! waga_theta rmvd
6324 c sgtheta=-gtheta(k)*theta_diff(k)*sigma_theta(k,i)*waga_theta ! right functional form?
6325 sum_sgtheta=sum_sgtheta+sgtheta ! cum variable
6327 c grad_theta3=sum_sgtheta/sum_gtheta 1/*theta(i)? s. line below
6328 c grad_theta3=sum_sgtheta/sum_gtheta
6330 c Final value of gradient using same var as in Econstr_back
6331 dutheta(i-2)=sum_sgtheta/sum_gtheta*waga_theta
6332 & *waga_homology(iset)
6333 c dutheta(i)=sum_sgtheta/sum_gtheta
6335 c Uconst_back=Uconst_back+waga_theta*utheta(i) ! waga_theta added as weight
6336 Eval=Eval-dLOG(gutheta_i/constr_homology)
6337 c write (iout,*) "utheta(",i,")=",utheta(i) ! -ln of sum of exps
6338 c write (iout,*) "Uconst_back",Uconst_back ! sum of -ln-s
6339 c Uconst_back=Uconst_back+utheta(i)
6340 enddo ! (i-loop for theta)
6342 write(iout,*) "------- theta restrs end -------"
6346 c Deviation of local SC geometry
6348 c Separation of two i-loops (instructed by AL - 11/3/2014)
6350 c write (iout,*) "loc_start =",loc_start,"loc_end =",loc_end
6351 c write (iout,*) "waga_d",waga_d
6354 write(iout,*) "------- SC restrs start -------"
6355 write (iout,*) "Initial duscdiff,duscdiffx"
6356 do i=loc_start,loc_end
6357 write (iout,*) i,(duscdiff(jik,i),jik=1,3),
6358 & (duscdiffx(jik,i),jik=1,3)
6361 do i=loc_start,loc_end
6362 usc_diff_i=0.0d0 ! argument of Gaussian for single k
6363 guscdiff(i)=0.0d0 ! Sum of Gaussians over constr_homology ref structures
6364 c do j=ifrag_back(1,i,iset)+1,ifrag_back(2,i,iset)-1 ! Econstr_back legacy
6365 c write(iout,*) "xxtab, yytab, zztab"
6366 c write(iout,'(i5,3f8.2)') i,xxtab(i),yytab(i),zztab(i)
6367 do k=1,constr_homology
6369 dxx=-xxtpl(k,i)+xxtab(i) ! Diff b/w x component of ith SC vector in model and kth ref str?
6370 c Original sign inverted for calc of gradients (s. Econstr_back)
6371 dyy=-yytpl(k,i)+yytab(i) ! ibid y
6372 dzz=-zztpl(k,i)+zztab(i) ! ibid z
6373 c write(iout,*) "dxx, dyy, dzz"
6374 c write(iout,'(2i5,3f8.2)') k,i,dxx,dyy,dzz
6376 usc_diff_i=-0.5d0*(dxx**2+dyy**2+dzz**2)*sigma_d(k,i) ! waga_d rmvd from Gaussian argument
6377 c usc_diff(i)=-0.5d0*waga_d*(dxx**2+dyy**2+dzz**2)*sigma_d(k,i) ! waga_d?
6378 c uscdiffk(k)=usc_diff(i)
6379 guscdiff2(k)=dexp(usc_diff_i) ! without min_scdiff
6380 guscdiff(i)=guscdiff(i)+dexp(usc_diff_i) !Sum of Gaussians (pk)
6381 c write (iout,'(i5,6f10.5)') j,xxtab(j),yytab(j),zztab(j),
6382 c & xxref(j),yyref(j),zzref(j)
6387 c Generalized expression for multiple Gaussian acc to that for a single
6388 c Gaussian in Econstr_back as instructed by AL (FP - 03/11/2014)
6390 c Original implementation
6391 c sum_guscdiff=guscdiff(i)
6393 c sum_sguscdiff=0.0d0
6394 c do k=1,constr_homology
6395 c sguscdiff=-guscdiff2(k)*dscdiff(k)*sigma_d(k,i)*waga_d !waga_d?
6396 c sguscdiff=-guscdiff3(k)*dscdiff(k)*sigma_d(k,i)*waga_d ! w min_uscdiff
6397 c sum_sguscdiff=sum_sguscdiff+sguscdiff
6400 c Implementation of new expressions for gradient (Jan. 2015)
6402 c grad_uscdiff=sum_sguscdiff/(sum_guscdiff*dtab) !?
6403 do k=1,constr_homology
6405 c New calculation of dxx, dyy, and dzz corrected by AL (07/11), was missing and wrong
6406 c before. Now the drivatives should be correct
6408 dxx=-xxtpl(k,i)+xxtab(i) ! Diff b/w x component of ith SC vector in model and kth ref str?
6409 c Original sign inverted for calc of gradients (s. Econstr_back)
6410 dyy=-yytpl(k,i)+yytab(i) ! ibid y
6411 dzz=-zztpl(k,i)+zztab(i) ! ibid z
6413 c New implementation
6415 sum_guscdiff=guscdiff2(k)*!(dsqrt(dxx*dxx+dyy*dyy+dzz*dzz))* -> wrong!
6416 & sigma_d(k,i) ! for the grad wrt r'
6417 c sum_sguscdiff=sum_sguscdiff+sum_guscdiff
6420 c New implementation
6421 sum_guscdiff = waga_homology(iset)*waga_d*sum_guscdiff
6423 duscdiff(jik,i-1)=duscdiff(jik,i-1)+
6424 & sum_guscdiff*(dXX_C1tab(jik,i)*dxx+
6425 & dYY_C1tab(jik,i)*dyy+dZZ_C1tab(jik,i)*dzz)/guscdiff(i)
6426 duscdiff(jik,i)=duscdiff(jik,i)+
6427 & sum_guscdiff*(dXX_Ctab(jik,i)*dxx+
6428 & dYY_Ctab(jik,i)*dyy+dZZ_Ctab(jik,i)*dzz)/guscdiff(i)
6429 duscdiffx(jik,i)=duscdiffx(jik,i)+
6430 & sum_guscdiff*(dXX_XYZtab(jik,i)*dxx+
6431 & dYY_XYZtab(jik,i)*dyy+dZZ_XYZtab(jik,i)*dzz)/guscdiff(i)
6434 write(iout,*) "jik",jik,"i",i
6435 write(iout,*) "dxx, dyy, dzz"
6436 write(iout,'(2i5,3f8.2)') k,i,dxx,dyy,dzz
6437 write(iout,*) "guscdiff2(",k,")",guscdiff2(k)
6438 c write(iout,*) "sum_sguscdiff",sum_sguscdiff
6439 cc write(iout,*) "dXX_Ctab(",jik,i,")",dXX_Ctab(jik,i)
6440 c write(iout,*) "dYY_Ctab(",jik,i,")",dYY_Ctab(jik,i)
6441 c write(iout,*) "dZZ_Ctab(",jik,i,")",dZZ_Ctab(jik,i)
6442 c write(iout,*) "dXX_C1tab(",jik,i,")",dXX_C1tab(jik,i)
6443 c write(iout,*) "dYY_C1tab(",jik,i,")",dYY_C1tab(jik,i)
6444 c write(iout,*) "dZZ_C1tab(",jik,i,")",dZZ_C1tab(jik,i)
6445 c write(iout,*) "dXX_XYZtab(",jik,i,")",dXX_XYZtab(jik,i)
6446 c write(iout,*) "dYY_XYZtab(",jik,i,")",dYY_XYZtab(jik,i)
6447 c write(iout,*) "dZZ_XYZtab(",jik,i,")",dZZ_XYZtab(jik,i)
6448 c write(iout,*) "duscdiff(",jik,i-1,")",duscdiff(jik,i-1)
6449 c write(iout,*) "duscdiff(",jik,i,")",duscdiff(jik,i)
6450 c write(iout,*) "duscdiffx(",jik,i,")",duscdiffx(jik,i)
6456 c uscdiff(i)=-dLOG(guscdiff(i)/(ii-1)) ! Weighting by (ii-1) required?
6457 c usc_diff(i)=-dLOG(guscdiff(i)/constr_homology) ! + min_uscdiff ?
6459 c write (iout,*) i," uscdiff",uscdiff(i)
6461 c Put together deviations from local geometry
6463 c Uconst_back=Uconst_back+wfrag_back(1,i,iset)*utheta(i)+
6464 c & wfrag_back(3,i,iset)*uscdiff(i)
6465 Erot=Erot-dLOG(guscdiff(i)/constr_homology)
6466 c write (iout,*) "usc_diff(",i,")=",usc_diff(i) ! -ln of sum of exps
6467 c write (iout,*) "Uconst_back",Uconst_back ! cum sum of -ln-s
6468 c Uconst_back=Uconst_back+usc_diff(i)
6470 c Gradient of multiple Gaussian restraint (FP - 04/11/2014 - right?)
6472 c New implment: multiplied by sum_sguscdiff
6475 enddo ! (i-loop for dscdiff)
6480 write(iout,*) "------- SC restrs end -------"
6481 write (iout,*) "------ After SC loop in e_modeller ------"
6482 do i=loc_start,loc_end
6483 write (iout,*) "i",i," gradc",(gradc(j,i,icg),j=1,3)
6484 write (iout,*) "i",i," gradx",(gradx(j,i,icg),j=1,3)
6486 if (waga_theta.eq.1.0d0) then
6487 write (iout,*) "in e_modeller after SC restr end: dutheta"
6488 do i=ithet_start,ithet_end
6489 write (iout,*) i,dutheta(i)
6492 if (waga_d.eq.1.0d0) then
6493 write (iout,*) "e_modeller after SC loop: duscdiff/x"
6495 write (iout,*) i,(duscdiff(j,i),j=1,3)
6496 write (iout,*) i,(duscdiffx(j,i),j=1,3)
6501 c Total energy from homology restraints
6503 write (iout,*) "odleg",odleg," kat",kat
6506 c Addition of energy of theta angle and SC local geom over constr_homologs ref strs
6508 c ehomology_constr=odleg+kat
6510 c For Lorentzian-type Urestr
6513 if (waga_dist.ge.0.0d0) then
6515 c For Gaussian-type Urestr
6517 ehomology_constr=(waga_dist*odleg+waga_angle*kat+
6518 & waga_theta*Eval+waga_d*Erot)*waga_homology(iset)
6519 c write (iout,*) "ehomology_constr=",ehomology_constr
6522 c For Lorentzian-type Urestr
6524 ehomology_constr=(-waga_dist*odleg+waga_angle*kat+
6525 & waga_theta*Eval+waga_d*Erot)*waga_homology(iset)
6526 c write (iout,*) "ehomology_constr=",ehomology_constr
6528 c write (iout,*) "odleg",odleg," kat",kat," Uconst_back",Uconst_back
6529 c write (iout,*) "ehomology_constr",ehomology_constr
6530 c ehomology_constr=odleg+kat+Uconst_back
6535 748 format(a8,f12.3,a6,f12.3,a7,f12.3)
6536 747 format(a12,i4,i4,i4,f8.3,f8.3)
6537 746 format(a12,i4,i4,i4,f8.3,f8.3,f8.3)
6538 778 format(a7,1X,f10.3,1X,a4,1X,f10.3,1X,a5,1X,f10.3)
6539 779 format(i3,1X,i3,1X,i2,1X,a7,1X,f7.3,1X,a7,1X,f7.3,1X,a13,1X,
6540 & f7.3,1X,a17,1X,f9.3,1X,a10,1X,f8.3,1X,a10,1X,f8.3)
6543 c------------------------------------------------------------------------------
6544 subroutine etor_d(etors_d)
6545 C 6/23/01 Compute double torsional energy
6546 implicit real*8 (a-h,o-z)
6547 include 'DIMENSIONS'
6548 include 'COMMON.VAR'
6549 include 'COMMON.GEO'
6550 include 'COMMON.LOCAL'
6551 include 'COMMON.TORSION'
6552 include 'COMMON.INTERACT'
6553 include 'COMMON.DERIV'
6554 include 'COMMON.CHAIN'
6555 include 'COMMON.NAMES'
6556 include 'COMMON.IOUNITS'
6557 include 'COMMON.FFIELD'
6558 include 'COMMON.TORCNSTR'
6560 C Set lprn=.true. for debugging
6564 do i=iphid_start,iphid_end
6565 itori=itortyp(itype(i-2))
6566 itori1=itortyp(itype(i-1))
6567 itori2=itortyp(itype(i))
6572 do j=1,ntermd_1(itori,itori1,itori2)
6573 v1cij=v1c(1,j,itori,itori1,itori2)
6574 v1sij=v1s(1,j,itori,itori1,itori2)
6575 v2cij=v1c(2,j,itori,itori1,itori2)
6576 v2sij=v1s(2,j,itori,itori1,itori2)
6577 cosphi1=dcos(j*phii)
6578 sinphi1=dsin(j*phii)
6579 cosphi2=dcos(j*phii1)
6580 sinphi2=dsin(j*phii1)
6581 etors_d=etors_d+v1cij*cosphi1+v1sij*sinphi1+
6582 & v2cij*cosphi2+v2sij*sinphi2
6583 gloci1=gloci1+j*(v1sij*cosphi1-v1cij*sinphi1)
6584 gloci2=gloci2+j*(v2sij*cosphi2-v2cij*sinphi2)
6586 do k=2,ntermd_2(itori,itori1,itori2)
6588 v1cdij = v2c(k,l,itori,itori1,itori2)
6589 v2cdij = v2c(l,k,itori,itori1,itori2)
6590 v1sdij = v2s(k,l,itori,itori1,itori2)
6591 v2sdij = v2s(l,k,itori,itori1,itori2)
6592 cosphi1p2=dcos(l*phii+(k-l)*phii1)
6593 cosphi1m2=dcos(l*phii-(k-l)*phii1)
6594 sinphi1p2=dsin(l*phii+(k-l)*phii1)
6595 sinphi1m2=dsin(l*phii-(k-l)*phii1)
6596 etors_d=etors_d+v1cdij*cosphi1p2+v2cdij*cosphi1m2+
6597 & v1sdij*sinphi1p2+v2sdij*sinphi1m2
6598 gloci1=gloci1+l*(v1sdij*cosphi1p2+v2sdij*cosphi1m2
6599 & -v1cdij*sinphi1p2-v2cdij*sinphi1m2)
6600 gloci2=gloci2+(k-l)*(v1sdij*cosphi1p2-v2sdij*cosphi1m2
6601 & -v1cdij*sinphi1p2+v2cdij*sinphi1m2)
6604 gloc(i-3,icg)=gloc(i-3,icg)+wtor_d*gloci1
6605 gloc(i-2,icg)=gloc(i-2,icg)+wtor_d*gloci2
6606 c write (iout,*) "gloci", gloc(i-3,icg)
6611 c------------------------------------------------------------------------------
6612 subroutine eback_sc_corr(esccor)
6613 c 7/21/2007 Correlations between the backbone-local and side-chain-local
6614 c conformational states; temporarily implemented as differences
6615 c between UNRES torsional potentials (dependent on three types of
6616 c residues) and the torsional potentials dependent on all 20 types
6617 c of residues computed from AM1 energy surfaces of terminally-blocked
6618 c amino-acid residues.
6619 implicit real*8 (a-h,o-z)
6620 include 'DIMENSIONS'
6621 include 'COMMON.VAR'
6622 include 'COMMON.GEO'
6623 include 'COMMON.LOCAL'
6624 include 'COMMON.TORSION'
6625 include 'COMMON.SCCOR'
6626 include 'COMMON.INTERACT'
6627 include 'COMMON.DERIV'
6628 include 'COMMON.CHAIN'
6629 include 'COMMON.NAMES'
6630 include 'COMMON.IOUNITS'
6631 include 'COMMON.FFIELD'
6632 include 'COMMON.CONTROL'
6634 C Set lprn=.true. for debugging
6637 c write (iout,*) "EBACK_SC_COR",iphi_start,iphi_end,nterm_sccor
6639 do i=itau_start,itau_end
6641 if ((itype(i-2).eq.ntyp1).or.(itype(i-1).eq.ntyp1)) cycle
6642 isccori=isccortyp(itype(i-2))
6643 isccori1=isccortyp(itype(i-1))
6645 cccc Added 9 May 2012
6646 cc Tauangle is torsional engle depending on the value of first digit
6647 c(see comment below)
6648 cc Omicron is flat angle depending on the value of first digit
6649 c(see comment below)
6652 do intertyp=1,3 !intertyp
6653 cc Added 09 May 2012 (Adasko)
6654 cc Intertyp means interaction type of backbone mainchain correlation:
6655 c 1 = SC...Ca...Ca...Ca
6656 c 2 = Ca...Ca...Ca...SC
6657 c 3 = SC...Ca...Ca...SCi
6659 if (((intertyp.eq.3).and.((itype(i-2).eq.10).or.
6660 & (itype(i-1).eq.10).or.(itype(i-2).eq.21).or.
6661 & (itype(i-1).eq.21)))
6662 & .or. ((intertyp.eq.1).and.((itype(i-2).eq.10)
6663 & .or.(itype(i-2).eq.21)))
6664 & .or.((intertyp.eq.2).and.((itype(i-1).eq.10).or.
6665 & (itype(i-1).eq.21)))) cycle
6666 if ((intertyp.eq.2).and.(i.eq.4).and.(itype(1).eq.21)) cycle
6667 if ((intertyp.eq.1).and.(i.eq.nres).and.(itype(nres).eq.21))
6669 do j=1,nterm_sccor(isccori,isccori1)
6670 v1ij=v1sccor(j,intertyp,isccori,isccori1)
6671 v2ij=v2sccor(j,intertyp,isccori,isccori1)
6672 cosphi=dcos(j*tauangle(intertyp,i))
6673 sinphi=dsin(j*tauangle(intertyp,i))
6674 esccor=esccor+v1ij*cosphi+v2ij*sinphi
6675 gloci=gloci+j*(v2ij*cosphi-v1ij*sinphi)
6677 gloc_sc(intertyp,i-3,icg)=gloc_sc(intertyp,i-3,icg)+wsccor*gloci
6678 c write (iout,*) "WTF",intertyp,i,itype(i),v1ij*cosphi+v2ij*sinphi
6679 c &gloc_sc(intertyp,i-3,icg)
6681 & write (iout,'(2(a3,2x,i3,2x),2i3,6f8.3/26x,6f8.3/)')
6682 & restyp(itype(i-2)),i-2,restyp(itype(i-1)),i-1,itori,itori1,
6683 & (v1sccor(j,intertyp,itori,itori1),j=1,6)
6684 & ,(v2sccor(j,intertyp,itori,itori1),j=1,6)
6685 gsccor_loc(i-3)=gsccor_loc(i-3)+gloci
6689 c write (iout,*) "W@T@F", gloc_sc(1,i,icg),gloc(i,icg)
6693 c----------------------------------------------------------------------------
6694 subroutine multibody(ecorr)
6695 C This subroutine calculates multi-body contributions to energy following
6696 C the idea of Skolnick et al. If side chains I and J make a contact and
6697 C at the same time side chains I+1 and J+1 make a contact, an extra
6698 C contribution equal to sqrt(eps(i,j)*eps(i+1,j+1)) is added.
6699 implicit real*8 (a-h,o-z)
6700 include 'DIMENSIONS'
6701 include 'COMMON.IOUNITS'
6702 include 'COMMON.DERIV'
6703 include 'COMMON.INTERACT'
6704 include 'COMMON.CONTACTS'
6705 double precision gx(3),gx1(3)
6708 C Set lprn=.true. for debugging
6712 write (iout,'(a)') 'Contact function values:'
6714 write (iout,'(i2,20(1x,i2,f10.5))')
6715 & i,(jcont(j,i),facont(j,i),j=1,num_cont(i))
6730 num_conti=num_cont(i)
6731 num_conti1=num_cont(i1)
6736 if (j1.eq.j+ishift .or. j1.eq.j-ishift) then
6737 cd write(iout,*)'i=',i,' j=',j,' i1=',i1,' j1=',j1,
6738 cd & ' ishift=',ishift
6739 C Contacts I--J and I+ISHIFT--J+-ISHIFT1 occur simultaneously.
6740 C The system gains extra energy.
6741 ecorr=ecorr+esccorr(i,j,i1,j1,jj,kk)
6742 endif ! j1==j+-ishift
6751 c------------------------------------------------------------------------------
6752 double precision function esccorr(i,j,k,l,jj,kk)
6753 implicit real*8 (a-h,o-z)
6754 include 'DIMENSIONS'
6755 include 'COMMON.IOUNITS'
6756 include 'COMMON.DERIV'
6757 include 'COMMON.INTERACT'
6758 include 'COMMON.CONTACTS'
6759 double precision gx(3),gx1(3)
6764 cd write (iout,'(4i5,3f10.5)') i,j,k,l,eij,ekl,-eij*ekl
6765 C Calculate the multi-body contribution to energy.
6766 C Calculate multi-body contributions to the gradient.
6767 cd write (iout,'(2(2i3,3f10.5))')i,j,(gacont(m,jj,i),m=1,3),
6768 cd & k,l,(gacont(m,kk,k),m=1,3)
6770 gx(m) =ekl*gacont(m,jj,i)
6771 gx1(m)=eij*gacont(m,kk,k)
6772 gradxorr(m,i)=gradxorr(m,i)-gx(m)
6773 gradxorr(m,j)=gradxorr(m,j)+gx(m)
6774 gradxorr(m,k)=gradxorr(m,k)-gx1(m)
6775 gradxorr(m,l)=gradxorr(m,l)+gx1(m)
6779 gradcorr(ll,m)=gradcorr(ll,m)+gx(ll)
6784 gradcorr(ll,m)=gradcorr(ll,m)+gx1(ll)
6790 c------------------------------------------------------------------------------
6791 subroutine multibody_hb(ecorr,ecorr5,ecorr6,n_corr,n_corr1)
6792 C This subroutine calculates multi-body contributions to hydrogen-bonding
6793 implicit real*8 (a-h,o-z)
6794 include 'DIMENSIONS'
6795 include 'COMMON.IOUNITS'
6798 parameter (max_cont=maxconts)
6799 parameter (max_dim=26)
6800 integer source,CorrelType,CorrelID,CorrelType1,CorrelID1,Error
6801 double precision zapas(max_dim,maxconts,max_fg_procs),
6802 & zapas_recv(max_dim,maxconts,max_fg_procs)
6803 common /przechowalnia/ zapas
6804 integer status(MPI_STATUS_SIZE),req(maxconts*2),
6805 & status_array(MPI_STATUS_SIZE,maxconts*2)
6807 include 'COMMON.SETUP'
6808 include 'COMMON.FFIELD'
6809 include 'COMMON.DERIV'
6810 include 'COMMON.INTERACT'
6811 include 'COMMON.CONTACTS'
6812 include 'COMMON.CONTROL'
6813 include 'COMMON.LOCAL'
6814 double precision gx(3),gx1(3),time00
6817 C Set lprn=.true. for debugging
6822 if (nfgtasks.le.1) goto 30
6824 write (iout,'(a)') 'Contact function values before RECEIVE:'
6826 write (iout,'(2i3,50(1x,i2,f5.2))')
6827 & i,num_cont_hb(i),(jcont_hb(j,i),facont_hb(j,i),
6828 & j=1,num_cont_hb(i))
6832 do i=1,ntask_cont_from
6835 do i=1,ntask_cont_to
6838 c write (iout,*) "ntask_cont_from",ntask_cont_from," ntask_cont_to",
6840 C Make the list of contacts to send to send to other procesors
6841 c write (iout,*) "limits",max0(iturn4_end-1,iatel_s),iturn3_end
6843 do i=iturn3_start,iturn3_end
6844 c write (iout,*) "make contact list turn3",i," num_cont",
6846 call add_hb_contact(i,i+2,iturn3_sent_local(1,i))
6848 do i=iturn4_start,iturn4_end
6849 c write (iout,*) "make contact list turn4",i," num_cont",
6851 call add_hb_contact(i,i+3,iturn4_sent_local(1,i))
6855 c write (iout,*) "make contact list longrange",i,ii," num_cont",
6857 do j=1,num_cont_hb(i)
6860 iproc=iint_sent_local(k,jjc,ii)
6861 c write (iout,*) "i",i," j",j," k",k," jjc",jjc," iproc",iproc
6862 if (iproc.gt.0) then
6863 ncont_sent(iproc)=ncont_sent(iproc)+1
6864 nn=ncont_sent(iproc)
6866 zapas(2,nn,iproc)=jjc
6867 zapas(3,nn,iproc)=facont_hb(j,i)
6868 zapas(4,nn,iproc)=ees0p(j,i)
6869 zapas(5,nn,iproc)=ees0m(j,i)
6870 zapas(6,nn,iproc)=gacont_hbr(1,j,i)
6871 zapas(7,nn,iproc)=gacont_hbr(2,j,i)
6872 zapas(8,nn,iproc)=gacont_hbr(3,j,i)
6873 zapas(9,nn,iproc)=gacontm_hb1(1,j,i)
6874 zapas(10,nn,iproc)=gacontm_hb1(2,j,i)
6875 zapas(11,nn,iproc)=gacontm_hb1(3,j,i)
6876 zapas(12,nn,iproc)=gacontp_hb1(1,j,i)
6877 zapas(13,nn,iproc)=gacontp_hb1(2,j,i)
6878 zapas(14,nn,iproc)=gacontp_hb1(3,j,i)
6879 zapas(15,nn,iproc)=gacontm_hb2(1,j,i)
6880 zapas(16,nn,iproc)=gacontm_hb2(2,j,i)
6881 zapas(17,nn,iproc)=gacontm_hb2(3,j,i)
6882 zapas(18,nn,iproc)=gacontp_hb2(1,j,i)
6883 zapas(19,nn,iproc)=gacontp_hb2(2,j,i)
6884 zapas(20,nn,iproc)=gacontp_hb2(3,j,i)
6885 zapas(21,nn,iproc)=gacontm_hb3(1,j,i)
6886 zapas(22,nn,iproc)=gacontm_hb3(2,j,i)
6887 zapas(23,nn,iproc)=gacontm_hb3(3,j,i)
6888 zapas(24,nn,iproc)=gacontp_hb3(1,j,i)
6889 zapas(25,nn,iproc)=gacontp_hb3(2,j,i)
6890 zapas(26,nn,iproc)=gacontp_hb3(3,j,i)
6897 & "Numbers of contacts to be sent to other processors",
6898 & (ncont_sent(i),i=1,ntask_cont_to)
6899 write (iout,*) "Contacts sent"
6900 do ii=1,ntask_cont_to
6902 iproc=itask_cont_to(ii)
6903 write (iout,*) nn," contacts to processor",iproc,
6904 & " of CONT_TO_COMM group"
6906 write(iout,'(2f5.0,4f10.5)')(zapas(j,i,ii),j=1,5)
6914 CorrelID1=nfgtasks+fg_rank+1
6916 C Receive the numbers of needed contacts from other processors
6917 do ii=1,ntask_cont_from
6918 iproc=itask_cont_from(ii)
6920 call MPI_Irecv(ncont_recv(ii),1,MPI_INTEGER,iproc,CorrelType,
6921 & FG_COMM,req(ireq),IERR)
6923 c write (iout,*) "IRECV ended"
6925 C Send the number of contacts needed by other processors
6926 do ii=1,ntask_cont_to
6927 iproc=itask_cont_to(ii)
6929 call MPI_Isend(ncont_sent(ii),1,MPI_INTEGER,iproc,CorrelType,
6930 & FG_COMM,req(ireq),IERR)
6932 c write (iout,*) "ISEND ended"
6933 c write (iout,*) "number of requests (nn)",ireq
6936 & call MPI_Waitall(ireq,req,status_array,ierr)
6938 c & "Numbers of contacts to be received from other processors",
6939 c & (ncont_recv(i),i=1,ntask_cont_from)
6943 do ii=1,ntask_cont_from
6944 iproc=itask_cont_from(ii)
6946 c write (iout,*) "Receiving",nn," contacts from processor",iproc,
6947 c & " of CONT_TO_COMM group"
6951 call MPI_Irecv(zapas_recv(1,1,ii),nn*max_dim,
6952 & MPI_DOUBLE_PRECISION,iproc,CorrelType1,FG_COMM,req(ireq),IERR)
6953 c write (iout,*) "ireq,req",ireq,req(ireq)
6956 C Send the contacts to processors that need them
6957 do ii=1,ntask_cont_to
6958 iproc=itask_cont_to(ii)
6960 c write (iout,*) nn," contacts to processor",iproc,
6961 c & " of CONT_TO_COMM group"
6964 call MPI_Isend(zapas(1,1,ii),nn*max_dim,MPI_DOUBLE_PRECISION,
6965 & iproc,CorrelType1,FG_COMM,req(ireq),IERR)
6966 c write (iout,*) "ireq,req",ireq,req(ireq)
6968 c write(iout,'(2f5.0,4f10.5)')(zapas(j,i,ii),j=1,5)
6972 c write (iout,*) "number of requests (contacts)",ireq
6973 c write (iout,*) "req",(req(i),i=1,4)
6976 & call MPI_Waitall(ireq,req,status_array,ierr)
6977 do iii=1,ntask_cont_from
6978 iproc=itask_cont_from(iii)
6981 write (iout,*) "Received",nn," contacts from processor",iproc,
6982 & " of CONT_FROM_COMM group"
6985 write(iout,'(2f5.0,4f10.5)')(zapas_recv(j,i,iii),j=1,5)
6990 ii=zapas_recv(1,i,iii)
6991 c Flag the received contacts to prevent double-counting
6992 jj=-zapas_recv(2,i,iii)
6993 c write (iout,*) "iii",iii," i",i," ii",ii," jj",jj
6995 nnn=num_cont_hb(ii)+1
6998 facont_hb(nnn,ii)=zapas_recv(3,i,iii)
6999 ees0p(nnn,ii)=zapas_recv(4,i,iii)
7000 ees0m(nnn,ii)=zapas_recv(5,i,iii)
7001 gacont_hbr(1,nnn,ii)=zapas_recv(6,i,iii)
7002 gacont_hbr(2,nnn,ii)=zapas_recv(7,i,iii)
7003 gacont_hbr(3,nnn,ii)=zapas_recv(8,i,iii)
7004 gacontm_hb1(1,nnn,ii)=zapas_recv(9,i,iii)
7005 gacontm_hb1(2,nnn,ii)=zapas_recv(10,i,iii)
7006 gacontm_hb1(3,nnn,ii)=zapas_recv(11,i,iii)
7007 gacontp_hb1(1,nnn,ii)=zapas_recv(12,i,iii)
7008 gacontp_hb1(2,nnn,ii)=zapas_recv(13,i,iii)
7009 gacontp_hb1(3,nnn,ii)=zapas_recv(14,i,iii)
7010 gacontm_hb2(1,nnn,ii)=zapas_recv(15,i,iii)
7011 gacontm_hb2(2,nnn,ii)=zapas_recv(16,i,iii)
7012 gacontm_hb2(3,nnn,ii)=zapas_recv(17,i,iii)
7013 gacontp_hb2(1,nnn,ii)=zapas_recv(18,i,iii)
7014 gacontp_hb2(2,nnn,ii)=zapas_recv(19,i,iii)
7015 gacontp_hb2(3,nnn,ii)=zapas_recv(20,i,iii)
7016 gacontm_hb3(1,nnn,ii)=zapas_recv(21,i,iii)
7017 gacontm_hb3(2,nnn,ii)=zapas_recv(22,i,iii)
7018 gacontm_hb3(3,nnn,ii)=zapas_recv(23,i,iii)
7019 gacontp_hb3(1,nnn,ii)=zapas_recv(24,i,iii)
7020 gacontp_hb3(2,nnn,ii)=zapas_recv(25,i,iii)
7021 gacontp_hb3(3,nnn,ii)=zapas_recv(26,i,iii)
7026 write (iout,'(a)') 'Contact function values after receive:'
7028 write (iout,'(2i3,50(1x,i3,f5.2))')
7029 & i,num_cont_hb(i),(jcont_hb(j,i),facont_hb(j,i),
7030 & j=1,num_cont_hb(i))
7037 write (iout,'(a)') 'Contact function values:'
7039 write (iout,'(2i3,50(1x,i3,f5.2))')
7040 & i,num_cont_hb(i),(jcont_hb(j,i),facont_hb(j,i),
7041 & j=1,num_cont_hb(i))
7045 C Remove the loop below after debugging !!!
7052 C Calculate the local-electrostatic correlation terms
7053 do i=min0(iatel_s,iturn4_start),max0(iatel_e,iturn3_end)
7055 num_conti=num_cont_hb(i)
7056 num_conti1=num_cont_hb(i+1)
7063 c write (iout,*) 'i=',i,' j=',j,' i1=',i1,' j1=',j1,
7064 c & ' jj=',jj,' kk=',kk
7065 if ((j.gt.0 .and. j1.gt.0 .or. j.gt.0 .and. j1.lt.0
7066 & .or. j.lt.0 .and. j1.gt.0) .and.
7067 & (jp1.eq.jp+1 .or. jp1.eq.jp-1)) then
7068 C Contacts I-J and (I+1)-(J+1) or (I+1)-(J-1) occur simultaneously.
7069 C The system gains extra energy.
7070 ecorr=ecorr+ehbcorr(i,jp,i+1,jp1,jj,kk,0.72D0,0.32D0)
7071 if (energy_dec) write (iout,'(a6,2i5,0pf7.3)')
7072 & 'ecorrh',i,j,ehbcorr(i,j,i+1,j1,jj,kk,0.72D0,0.32D0)
7074 else if (j1.eq.j) then
7075 C Contacts I-J and I-(J+1) occur simultaneously.
7076 C The system loses extra energy.
7077 c ecorr=ecorr+ehbcorr(i,j,i+1,j,jj,kk,0.60D0,-0.40D0)
7082 c write (iout,*) 'i=',i,' j=',j,' i1=',i1,' j1=',j1,
7083 c & ' jj=',jj,' kk=',kk
7085 C Contacts I-J and (I+1)-J occur simultaneously.
7086 C The system loses extra energy.
7087 c ecorr=ecorr+ehbcorr(i,j,i,j+1,jj,kk,0.60D0,-0.40D0)
7094 c------------------------------------------------------------------------------
7095 subroutine add_hb_contact(ii,jj,itask)
7096 implicit real*8 (a-h,o-z)
7097 include "DIMENSIONS"
7098 include "COMMON.IOUNITS"
7101 parameter (max_cont=maxconts)
7102 parameter (max_dim=26)
7103 include "COMMON.CONTACTS"
7104 double precision zapas(max_dim,maxconts,max_fg_procs),
7105 & zapas_recv(max_dim,maxconts,max_fg_procs)
7106 common /przechowalnia/ zapas
7107 integer i,j,ii,jj,iproc,itask(4),nn
7108 c write (iout,*) "itask",itask
7111 if (iproc.gt.0) then
7112 do j=1,num_cont_hb(ii)
7114 c write (iout,*) "i",ii," j",jj," jjc",jjc
7116 ncont_sent(iproc)=ncont_sent(iproc)+1
7117 nn=ncont_sent(iproc)
7118 zapas(1,nn,iproc)=ii
7119 zapas(2,nn,iproc)=jjc
7120 zapas(3,nn,iproc)=facont_hb(j,ii)
7121 zapas(4,nn,iproc)=ees0p(j,ii)
7122 zapas(5,nn,iproc)=ees0m(j,ii)
7123 zapas(6,nn,iproc)=gacont_hbr(1,j,ii)
7124 zapas(7,nn,iproc)=gacont_hbr(2,j,ii)
7125 zapas(8,nn,iproc)=gacont_hbr(3,j,ii)
7126 zapas(9,nn,iproc)=gacontm_hb1(1,j,ii)
7127 zapas(10,nn,iproc)=gacontm_hb1(2,j,ii)
7128 zapas(11,nn,iproc)=gacontm_hb1(3,j,ii)
7129 zapas(12,nn,iproc)=gacontp_hb1(1,j,ii)
7130 zapas(13,nn,iproc)=gacontp_hb1(2,j,ii)
7131 zapas(14,nn,iproc)=gacontp_hb1(3,j,ii)
7132 zapas(15,nn,iproc)=gacontm_hb2(1,j,ii)
7133 zapas(16,nn,iproc)=gacontm_hb2(2,j,ii)
7134 zapas(17,nn,iproc)=gacontm_hb2(3,j,ii)
7135 zapas(18,nn,iproc)=gacontp_hb2(1,j,ii)
7136 zapas(19,nn,iproc)=gacontp_hb2(2,j,ii)
7137 zapas(20,nn,iproc)=gacontp_hb2(3,j,ii)
7138 zapas(21,nn,iproc)=gacontm_hb3(1,j,ii)
7139 zapas(22,nn,iproc)=gacontm_hb3(2,j,ii)
7140 zapas(23,nn,iproc)=gacontm_hb3(3,j,ii)
7141 zapas(24,nn,iproc)=gacontp_hb3(1,j,ii)
7142 zapas(25,nn,iproc)=gacontp_hb3(2,j,ii)
7143 zapas(26,nn,iproc)=gacontp_hb3(3,j,ii)
7151 c------------------------------------------------------------------------------
7152 subroutine multibody_eello(ecorr,ecorr5,ecorr6,eturn6,n_corr,
7154 C This subroutine calculates multi-body contributions to hydrogen-bonding
7155 implicit real*8 (a-h,o-z)
7156 include 'DIMENSIONS'
7157 include 'COMMON.IOUNITS'
7160 parameter (max_cont=maxconts)
7161 parameter (max_dim=70)
7162 integer source,CorrelType,CorrelID,CorrelType1,CorrelID1,Error
7163 double precision zapas(max_dim,maxconts,max_fg_procs),
7164 & zapas_recv(max_dim,maxconts,max_fg_procs)
7165 common /przechowalnia/ zapas
7166 integer status(MPI_STATUS_SIZE),req(maxconts*2),
7167 & status_array(MPI_STATUS_SIZE,maxconts*2)
7169 include 'COMMON.SETUP'
7170 include 'COMMON.FFIELD'
7171 include 'COMMON.DERIV'
7172 include 'COMMON.LOCAL'
7173 include 'COMMON.INTERACT'
7174 include 'COMMON.CONTACTS'
7175 include 'COMMON.CHAIN'
7176 include 'COMMON.CONTROL'
7177 double precision gx(3),gx1(3)
7178 integer num_cont_hb_old(maxres)
7180 double precision eello4,eello5,eelo6,eello_turn6
7181 external eello4,eello5,eello6,eello_turn6
7182 C Set lprn=.true. for debugging
7187 num_cont_hb_old(i)=num_cont_hb(i)
7191 if (nfgtasks.le.1) goto 30
7193 write (iout,'(a)') 'Contact function values before RECEIVE:'
7195 write (iout,'(2i3,50(1x,i2,f5.2))')
7196 & i,num_cont_hb(i),(jcont_hb(j,i),facont_hb(j,i),
7197 & j=1,num_cont_hb(i))
7201 do i=1,ntask_cont_from
7204 do i=1,ntask_cont_to
7207 c write (iout,*) "ntask_cont_from",ntask_cont_from," ntask_cont_to",
7209 C Make the list of contacts to send to send to other procesors
7210 do i=iturn3_start,iturn3_end
7211 c write (iout,*) "make contact list turn3",i," num_cont",
7213 call add_hb_contact_eello(i,i+2,iturn3_sent_local(1,i))
7215 do i=iturn4_start,iturn4_end
7216 c write (iout,*) "make contact list turn4",i," num_cont",
7218 call add_hb_contact_eello(i,i+3,iturn4_sent_local(1,i))
7222 c write (iout,*) "make contact list longrange",i,ii," num_cont",
7224 do j=1,num_cont_hb(i)
7227 iproc=iint_sent_local(k,jjc,ii)
7228 c write (iout,*) "i",i," j",j," k",k," jjc",jjc," iproc",iproc
7229 if (iproc.ne.0) then
7230 ncont_sent(iproc)=ncont_sent(iproc)+1
7231 nn=ncont_sent(iproc)
7233 zapas(2,nn,iproc)=jjc
7234 zapas(3,nn,iproc)=d_cont(j,i)
7238 zapas(ind,nn,iproc)=grij_hb_cont(kk,j,i)
7243 zapas(ind,nn,iproc)=a_chuj(ll,kk,j,i)
7251 zapas(ind,nn,iproc)=a_chuj_der(mm,ll,kk,jj,j,i)
7262 & "Numbers of contacts to be sent to other processors",
7263 & (ncont_sent(i),i=1,ntask_cont_to)
7264 write (iout,*) "Contacts sent"
7265 do ii=1,ntask_cont_to
7267 iproc=itask_cont_to(ii)
7268 write (iout,*) nn," contacts to processor",iproc,
7269 & " of CONT_TO_COMM group"
7271 write(iout,'(2f5.0,10f10.5)')(zapas(j,i,ii),j=1,10)
7279 CorrelID1=nfgtasks+fg_rank+1
7281 C Receive the numbers of needed contacts from other processors
7282 do ii=1,ntask_cont_from
7283 iproc=itask_cont_from(ii)
7285 call MPI_Irecv(ncont_recv(ii),1,MPI_INTEGER,iproc,CorrelType,
7286 & FG_COMM,req(ireq),IERR)
7288 c write (iout,*) "IRECV ended"
7290 C Send the number of contacts needed by other processors
7291 do ii=1,ntask_cont_to
7292 iproc=itask_cont_to(ii)
7294 call MPI_Isend(ncont_sent(ii),1,MPI_INTEGER,iproc,CorrelType,
7295 & FG_COMM,req(ireq),IERR)
7297 c write (iout,*) "ISEND ended"
7298 c write (iout,*) "number of requests (nn)",ireq
7301 & call MPI_Waitall(ireq,req,status_array,ierr)
7303 c & "Numbers of contacts to be received from other processors",
7304 c & (ncont_recv(i),i=1,ntask_cont_from)
7308 do ii=1,ntask_cont_from
7309 iproc=itask_cont_from(ii)
7311 c write (iout,*) "Receiving",nn," contacts from processor",iproc,
7312 c & " of CONT_TO_COMM group"
7316 call MPI_Irecv(zapas_recv(1,1,ii),nn*max_dim,
7317 & MPI_DOUBLE_PRECISION,iproc,CorrelType1,FG_COMM,req(ireq),IERR)
7318 c write (iout,*) "ireq,req",ireq,req(ireq)
7321 C Send the contacts to processors that need them
7322 do ii=1,ntask_cont_to
7323 iproc=itask_cont_to(ii)
7325 c write (iout,*) nn," contacts to processor",iproc,
7326 c & " of CONT_TO_COMM group"
7329 call MPI_Isend(zapas(1,1,ii),nn*max_dim,MPI_DOUBLE_PRECISION,
7330 & iproc,CorrelType1,FG_COMM,req(ireq),IERR)
7331 c write (iout,*) "ireq,req",ireq,req(ireq)
7333 c write(iout,'(2f5.0,4f10.5)')(zapas(j,i,ii),j=1,5)
7337 c write (iout,*) "number of requests (contacts)",ireq
7338 c write (iout,*) "req",(req(i),i=1,4)
7341 & call MPI_Waitall(ireq,req,status_array,ierr)
7342 do iii=1,ntask_cont_from
7343 iproc=itask_cont_from(iii)
7346 write (iout,*) "Received",nn," contacts from processor",iproc,
7347 & " of CONT_FROM_COMM group"
7350 write(iout,'(2f5.0,10f10.5)')(zapas_recv(j,i,iii),j=1,10)
7355 ii=zapas_recv(1,i,iii)
7356 c Flag the received contacts to prevent double-counting
7357 jj=-zapas_recv(2,i,iii)
7358 c write (iout,*) "iii",iii," i",i," ii",ii," jj",jj
7360 nnn=num_cont_hb(ii)+1
7363 d_cont(nnn,ii)=zapas_recv(3,i,iii)
7367 grij_hb_cont(kk,nnn,ii)=zapas_recv(ind,i,iii)
7372 a_chuj(ll,kk,nnn,ii)=zapas_recv(ind,i,iii)
7380 a_chuj_der(mm,ll,kk,jj,nnn,ii)=zapas_recv(ind,i,iii)
7389 write (iout,'(a)') 'Contact function values after receive:'
7391 write (iout,'(2i3,50(1x,i3,5f6.3))')
7392 & i,num_cont_hb(i),(jcont_hb(j,i),d_cont(j,i),
7393 & ((a_chuj(ll,kk,j,i),ll=1,2),kk=1,2),j=1,num_cont_hb(i))
7400 write (iout,'(a)') 'Contact function values:'
7402 write (iout,'(2i3,50(1x,i2,5f6.3))')
7403 & i,num_cont_hb(i),(jcont_hb(j,i),d_cont(j,i),
7404 & ((a_chuj(ll,kk,j,i),ll=1,2),kk=1,2),j=1,num_cont_hb(i))
7410 C Remove the loop below after debugging !!!
7417 C Calculate the dipole-dipole interaction energies
7418 if (wcorr6.gt.0.0d0 .or. wturn6.gt.0.0d0) then
7419 do i=iatel_s,iatel_e+1
7420 num_conti=num_cont_hb(i)
7429 C Calculate the local-electrostatic correlation terms
7430 c write (iout,*) "gradcorr5 in eello5 before loop"
7432 c write (iout,'(i5,3f10.5)')
7433 c & iii,(gradcorr5(jjj,iii),jjj=1,3)
7435 do i=min0(iatel_s,iturn4_start),max0(iatel_e+1,iturn3_end+1)
7436 c write (iout,*) "corr loop i",i
7438 num_conti=num_cont_hb(i)
7439 num_conti1=num_cont_hb(i+1)
7446 c write (iout,*) 'i=',i,' j=',j,' i1=',i1,' j1=',j1,
7447 c & ' jj=',jj,' kk=',kk
7448 c if (j1.eq.j+1 .or. j1.eq.j-1) then
7449 if ((j.gt.0 .and. j1.gt.0 .or. j.gt.0 .and. j1.lt.0
7450 & .or. j.lt.0 .and. j1.gt.0) .and.
7451 & (jp1.eq.jp+1 .or. jp1.eq.jp-1)) then
7452 C Contacts I-J and (I+1)-(J+1) or (I+1)-(J-1) occur simultaneously.
7453 C The system gains extra energy.
7455 sqd1=dsqrt(d_cont(jj,i))
7456 sqd2=dsqrt(d_cont(kk,i1))
7457 sred_geom = sqd1*sqd2
7458 IF (sred_geom.lt.cutoff_corr) THEN
7459 call gcont(sred_geom,r0_corr,1.0D0,delt_corr,
7461 cd write (iout,*) 'i=',i,' j=',jp,' i1=',i1,' j1=',jp1,
7462 cd & ' jj=',jj,' kk=',kk
7463 fac_prim1=0.5d0*sqd2/sqd1*fprimcont
7464 fac_prim2=0.5d0*sqd1/sqd2*fprimcont
7466 g_contij(l,1)=fac_prim1*grij_hb_cont(l,jj,i)
7467 g_contij(l,2)=fac_prim2*grij_hb_cont(l,kk,i1)
7470 cd write (iout,*) 'sred_geom=',sred_geom,
7471 cd & ' ekont=',ekont,' fprim=',fprimcont,
7472 cd & ' fac_prim1',fac_prim1,' fac_prim2',fac_prim2
7473 cd write (iout,*) "g_contij",g_contij
7474 cd write (iout,*) "grij_hb_cont i",grij_hb_cont(:,jj,i)
7475 cd write (iout,*) "grij_hb_cont i1",grij_hb_cont(:,jj,i1)
7476 call calc_eello(i,jp,i+1,jp1,jj,kk)
7477 if (wcorr4.gt.0.0d0)
7478 & ecorr=ecorr+eello4(i,jp,i+1,jp1,jj,kk)
7479 if (energy_dec.and.wcorr4.gt.0.0d0)
7480 1 write (iout,'(a6,4i5,0pf7.3)')
7481 2 'ecorr4',i,j,i+1,j1,eello4(i,jp,i+1,jp1,jj,kk)
7482 c write (iout,*) "gradcorr5 before eello5"
7484 c write (iout,'(i5,3f10.5)')
7485 c & iii,(gradcorr5(jjj,iii),jjj=1,3)
7487 if (wcorr5.gt.0.0d0)
7488 & ecorr5=ecorr5+eello5(i,jp,i+1,jp1,jj,kk)
7489 c write (iout,*) "gradcorr5 after eello5"
7491 c write (iout,'(i5,3f10.5)')
7492 c & iii,(gradcorr5(jjj,iii),jjj=1,3)
7494 if (energy_dec.and.wcorr5.gt.0.0d0)
7495 1 write (iout,'(a6,4i5,0pf7.3)')
7496 2 'ecorr5',i,j,i+1,j1,eello5(i,jp,i+1,jp1,jj,kk)
7497 cd write(2,*)'wcorr6',wcorr6,' wturn6',wturn6
7498 cd write(2,*)'ijkl',i,jp,i+1,jp1
7499 if (wcorr6.gt.0.0d0 .and. (jp.ne.i+4 .or. jp1.ne.i+3
7500 & .or. wturn6.eq.0.0d0))then
7501 cd write (iout,*) '******ecorr6: i,j,i+1,j1',i,j,i+1,j1
7502 ecorr6=ecorr6+eello6(i,jp,i+1,jp1,jj,kk)
7503 if (energy_dec) write (iout,'(a6,4i5,0pf7.3)')
7504 1 'ecorr6',i,j,i+1,j1,eello6(i,jp,i+1,jp1,jj,kk)
7505 cd write (iout,*) 'ecorr',ecorr,' ecorr5=',ecorr5,
7506 cd & 'ecorr6=',ecorr6
7507 cd write (iout,'(4e15.5)') sred_geom,
7508 cd & dabs(eello4(i,jp,i+1,jp1,jj,kk)),
7509 cd & dabs(eello5(i,jp,i+1,jp1,jj,kk)),
7510 cd & dabs(eello6(i,jp,i+1,jp1,jj,kk))
7511 else if (wturn6.gt.0.0d0
7512 & .and. (jp.eq.i+4 .and. jp1.eq.i+3)) then
7513 cd write (iout,*) '******eturn6: i,j,i+1,j1',i,jip,i+1,jp1
7514 eturn6=eturn6+eello_turn6(i,jj,kk)
7515 if (energy_dec) write (iout,'(a6,4i5,0pf7.3)')
7516 1 'eturn6',i,j,i+1,j1,eello_turn6(i,jj,kk)
7517 cd write (2,*) 'multibody_eello:eturn6',eturn6
7526 num_cont_hb(i)=num_cont_hb_old(i)
7528 c write (iout,*) "gradcorr5 in eello5"
7530 c write (iout,'(i5,3f10.5)')
7531 c & iii,(gradcorr5(jjj,iii),jjj=1,3)
7535 c------------------------------------------------------------------------------
7536 subroutine add_hb_contact_eello(ii,jj,itask)
7537 implicit real*8 (a-h,o-z)
7538 include "DIMENSIONS"
7539 include "COMMON.IOUNITS"
7542 parameter (max_cont=maxconts)
7543 parameter (max_dim=70)
7544 include "COMMON.CONTACTS"
7545 double precision zapas(max_dim,maxconts,max_fg_procs),
7546 & zapas_recv(max_dim,maxconts,max_fg_procs)
7547 common /przechowalnia/ zapas
7548 integer i,j,ii,jj,iproc,itask(4),nn
7549 c write (iout,*) "itask",itask
7552 if (iproc.gt.0) then
7553 do j=1,num_cont_hb(ii)
7555 c write (iout,*) "send turns i",ii," j",jj," jjc",jjc
7557 ncont_sent(iproc)=ncont_sent(iproc)+1
7558 nn=ncont_sent(iproc)
7559 zapas(1,nn,iproc)=ii
7560 zapas(2,nn,iproc)=jjc
7561 zapas(3,nn,iproc)=d_cont(j,ii)
7565 zapas(ind,nn,iproc)=grij_hb_cont(kk,j,ii)
7570 zapas(ind,nn,iproc)=a_chuj(ll,kk,j,ii)
7578 zapas(ind,nn,iproc)=a_chuj_der(mm,ll,kk,jj,j,ii)
7590 c------------------------------------------------------------------------------
7591 double precision function ehbcorr(i,j,k,l,jj,kk,coeffp,coeffm)
7592 implicit real*8 (a-h,o-z)
7593 include 'DIMENSIONS'
7594 include 'COMMON.IOUNITS'
7595 include 'COMMON.DERIV'
7596 include 'COMMON.INTERACT'
7597 include 'COMMON.CONTACTS'
7598 double precision gx(3),gx1(3)
7608 ees=-(coeffp*ees0pij*ees0pkl+coeffm*ees0mij*ees0mkl)
7609 cd ees=-(coeffp*ees0pkl+coeffm*ees0mkl)
7610 C Following 4 lines for diagnostics.
7615 c write (iout,'(2(a,2i3,a,f10.5,a,2f10.5),a,f10.5,a,$)')
7616 c & 'Contacts ',i,j,
7617 c & ' eij',eij,' eesij',ees0pij,ees0mij,' and ',k,l
7618 c & ,' fcont ',ekl,' eeskl',ees0pkl,ees0mkl,' energy=',ekont*ees,
7620 C Calculate the multi-body contribution to energy.
7621 c ecorr=ecorr+ekont*ees
7622 C Calculate multi-body contributions to the gradient.
7623 coeffpees0pij=coeffp*ees0pij
7624 coeffmees0mij=coeffm*ees0mij
7625 coeffpees0pkl=coeffp*ees0pkl
7626 coeffmees0mkl=coeffm*ees0mkl
7628 cgrad ghalfi=ees*ekl*gacont_hbr(ll,jj,i)
7629 gradcorr(ll,i)=gradcorr(ll,i)!+0.5d0*ghalfi
7630 & -ekont*(coeffpees0pkl*gacontp_hb1(ll,jj,i)+
7631 & coeffmees0mkl*gacontm_hb1(ll,jj,i))
7632 gradcorr(ll,j)=gradcorr(ll,j)!+0.5d0*ghalfi
7633 & -ekont*(coeffpees0pkl*gacontp_hb2(ll,jj,i)+
7634 & coeffmees0mkl*gacontm_hb2(ll,jj,i))
7635 cgrad ghalfk=ees*eij*gacont_hbr(ll,kk,k)
7636 gradcorr(ll,k)=gradcorr(ll,k)!+0.5d0*ghalfk
7637 & -ekont*(coeffpees0pij*gacontp_hb1(ll,kk,k)+
7638 & coeffmees0mij*gacontm_hb1(ll,kk,k))
7639 gradcorr(ll,l)=gradcorr(ll,l)!+0.5d0*ghalfk
7640 & -ekont*(coeffpees0pij*gacontp_hb2(ll,kk,k)+
7641 & coeffmees0mij*gacontm_hb2(ll,kk,k))
7642 gradlongij=ees*ekl*gacont_hbr(ll,jj,i)-
7643 & ekont*(coeffpees0pkl*gacontp_hb3(ll,jj,i)+
7644 & coeffmees0mkl*gacontm_hb3(ll,jj,i))
7645 gradcorr_long(ll,j)=gradcorr_long(ll,j)+gradlongij
7646 gradcorr_long(ll,i)=gradcorr_long(ll,i)-gradlongij
7647 gradlongkl=ees*eij*gacont_hbr(ll,kk,k)-
7648 & ekont*(coeffpees0pij*gacontp_hb3(ll,kk,k)+
7649 & coeffmees0mij*gacontm_hb3(ll,kk,k))
7650 gradcorr_long(ll,l)=gradcorr_long(ll,l)+gradlongkl
7651 gradcorr_long(ll,k)=gradcorr_long(ll,k)-gradlongkl
7652 c write (iout,'(2f10.5,2x,$)') gradlongij,gradlongkl
7657 cgrad gradcorr(ll,m)=gradcorr(ll,m)+
7658 cgrad & ees*ekl*gacont_hbr(ll,jj,i)-
7659 cgrad & ekont*(coeffp*ees0pkl*gacontp_hb3(ll,jj,i)+
7660 cgrad & coeffm*ees0mkl*gacontm_hb3(ll,jj,i))
7665 cgrad gradcorr(ll,m)=gradcorr(ll,m)+
7666 cgrad & ees*eij*gacont_hbr(ll,kk,k)-
7667 cgrad & ekont*(coeffp*ees0pij*gacontp_hb3(ll,kk,k)+
7668 cgrad & coeffm*ees0mij*gacontm_hb3(ll,kk,k))
7671 c write (iout,*) "ehbcorr",ekont*ees
7676 C---------------------------------------------------------------------------
7677 subroutine dipole(i,j,jj)
7678 implicit real*8 (a-h,o-z)
7679 include 'DIMENSIONS'
7680 include 'COMMON.IOUNITS'
7681 include 'COMMON.CHAIN'
7682 include 'COMMON.FFIELD'
7683 include 'COMMON.DERIV'
7684 include 'COMMON.INTERACT'
7685 include 'COMMON.CONTACTS'
7686 include 'COMMON.TORSION'
7687 include 'COMMON.VAR'
7688 include 'COMMON.GEO'
7689 dimension dipi(2,2),dipj(2,2),dipderi(2),dipderj(2),auxvec(2),
7691 iti1 = itortyp(itype(i+1))
7692 if (j.lt.nres-1) then
7693 itj1 = itortyp(itype(j+1))
7698 dipi(iii,1)=Ub2(iii,i)
7699 dipderi(iii)=Ub2der(iii,i)
7700 dipi(iii,2)=b1(iii,iti1)
7701 dipj(iii,1)=Ub2(iii,j)
7702 dipderj(iii)=Ub2der(iii,j)
7703 dipj(iii,2)=b1(iii,itj1)
7707 call matvec2(a_chuj(1,1,jj,i),dipj(1,iii),auxvec(1))
7710 dip(kkk,jj,i)=scalar2(dipi(1,jjj),auxvec(1))
7717 call matvec2(a_chuj_der(1,1,lll,kkk,jj,i),dipj(1,iii),
7721 dipderx(lll,kkk,mmm,jj,i)=scalar2(dipi(1,jjj),auxvec(1))
7726 call transpose2(a_chuj(1,1,jj,i),auxmat(1,1))
7727 call matvec2(auxmat(1,1),dipderi(1),auxvec(1))
7729 dipderg(iii,jj,i)=scalar2(auxvec(1),dipj(1,iii))
7731 call matvec2(a_chuj(1,1,jj,i),dipderj(1),auxvec(1))
7733 dipderg(iii+2,jj,i)=scalar2(auxvec(1),dipi(1,iii))
7738 C---------------------------------------------------------------------------
7739 subroutine calc_eello(i,j,k,l,jj,kk)
7741 C This subroutine computes matrices and vectors needed to calculate
7742 C the fourth-, fifth-, and sixth-order local-electrostatic terms.
7744 implicit real*8 (a-h,o-z)
7745 include 'DIMENSIONS'
7746 include 'COMMON.IOUNITS'
7747 include 'COMMON.CHAIN'
7748 include 'COMMON.DERIV'
7749 include 'COMMON.INTERACT'
7750 include 'COMMON.CONTACTS'
7751 include 'COMMON.TORSION'
7752 include 'COMMON.VAR'
7753 include 'COMMON.GEO'
7754 include 'COMMON.FFIELD'
7755 double precision aa1(2,2),aa2(2,2),aa1t(2,2),aa2t(2,2),
7756 & aa1tder(2,2,3,5),aa2tder(2,2,3,5),auxmat(2,2)
7759 cd write (iout,*) 'calc_eello: i=',i,' j=',j,' k=',k,' l=',l,
7760 cd & ' jj=',jj,' kk=',kk
7761 cd if (i.ne.2 .or. j.ne.4 .or. k.ne.3 .or. l.ne.5) return
7762 cd write (iout,*) "a_chujij",((a_chuj(iii,jjj,jj,i),iii=1,2),jjj=1,2)
7763 cd write (iout,*) "a_chujkl",((a_chuj(iii,jjj,kk,k),iii=1,2),jjj=1,2)
7766 aa1(iii,jjj)=a_chuj(iii,jjj,jj,i)
7767 aa2(iii,jjj)=a_chuj(iii,jjj,kk,k)
7770 call transpose2(aa1(1,1),aa1t(1,1))
7771 call transpose2(aa2(1,1),aa2t(1,1))
7774 call transpose2(a_chuj_der(1,1,lll,kkk,jj,i),
7775 & aa1tder(1,1,lll,kkk))
7776 call transpose2(a_chuj_der(1,1,lll,kkk,kk,k),
7777 & aa2tder(1,1,lll,kkk))
7781 C parallel orientation of the two CA-CA-CA frames.
7783 iti=itortyp(itype(i))
7787 itk1=itortyp(itype(k+1))
7788 itj=itortyp(itype(j))
7789 if (l.lt.nres-1) then
7790 itl1=itortyp(itype(l+1))
7794 C A1 kernel(j+1) A2T
7796 cd write (iout,'(3f10.5,5x,3f10.5)')
7797 cd & (EUg(iii,jjj,k),jjj=1,2),(EUg(iii,jjj,l),jjj=1,2)
7799 call kernel(aa1(1,1),aa2t(1,1),a_chuj_der(1,1,1,1,jj,i),
7800 & aa2tder(1,1,1,1),1,.false.,EUg(1,1,l),EUgder(1,1,l),
7801 & AEA(1,1,1),AEAderg(1,1,1),AEAderx(1,1,1,1,1,1))
7802 C Following matrices are needed only for 6-th order cumulants
7803 IF (wcorr6.gt.0.0d0) THEN
7804 call kernel(aa1(1,1),aa2t(1,1),a_chuj_der(1,1,1,1,jj,i),
7805 & aa2tder(1,1,1,1),1,.false.,EUgC(1,1,l),EUgCder(1,1,l),
7806 & AECA(1,1,1),AECAderg(1,1,1),AECAderx(1,1,1,1,1,1))
7807 call kernel(aa1(1,1),aa2t(1,1),a_chuj_der(1,1,1,1,jj,i),
7808 & aa2tder(1,1,1,1),2,.false.,Ug2DtEUg(1,1,l),
7809 & Ug2DtEUgder(1,1,1,l),ADtEA(1,1,1),ADtEAderg(1,1,1,1),
7810 & ADtEAderx(1,1,1,1,1,1))
7812 call kernel(aa1(1,1),aa2t(1,1),a_chuj_der(1,1,1,1,jj,i),
7813 & aa2tder(1,1,1,1),2,.false.,DtUg2EUg(1,1,l),
7814 & DtUg2EUgder(1,1,1,l),ADtEA1(1,1,1),ADtEA1derg(1,1,1,1),
7815 & ADtEA1derx(1,1,1,1,1,1))
7817 C End 6-th order cumulants
7820 cd write (2,*) 'In calc_eello6'
7822 cd write (2,*) 'iii=',iii
7824 cd write (2,*) 'kkk=',kkk
7826 cd write (2,'(3(2f10.5),5x)')
7827 cd & ((ADtEA1derx(jjj,mmm,lll,kkk,iii,1),mmm=1,2),lll=1,3)
7832 call transpose2(EUgder(1,1,k),auxmat(1,1))
7833 call matmat2(auxmat(1,1),AEA(1,1,1),EAEAderg(1,1,1,1))
7834 call transpose2(EUg(1,1,k),auxmat(1,1))
7835 call matmat2(auxmat(1,1),AEA(1,1,1),EAEA(1,1,1))
7836 call matmat2(auxmat(1,1),AEAderg(1,1,1),EAEAderg(1,1,2,1))
7840 call matmat2(auxmat(1,1),AEAderx(1,1,lll,kkk,iii,1),
7841 & EAEAderx(1,1,lll,kkk,iii,1))
7845 C A1T kernel(i+1) A2
7846 call kernel(aa1t(1,1),aa2(1,1),aa1tder(1,1,1,1),
7847 & a_chuj_der(1,1,1,1,kk,k),1,.false.,EUg(1,1,k),EUgder(1,1,k),
7848 & AEA(1,1,2),AEAderg(1,1,2),AEAderx(1,1,1,1,1,2))
7849 C Following matrices are needed only for 6-th order cumulants
7850 IF (wcorr6.gt.0.0d0) THEN
7851 call kernel(aa1t(1,1),aa2(1,1),aa1tder(1,1,1,1),
7852 & a_chuj_der(1,1,1,1,kk,k),1,.false.,EUgC(1,1,k),EUgCder(1,1,k),
7853 & AECA(1,1,2),AECAderg(1,1,2),AECAderx(1,1,1,1,1,2))
7854 call kernel(aa1t(1,1),aa2(1,1),aa1tder(1,1,1,1),
7855 & a_chuj_der(1,1,1,1,kk,k),2,.false.,Ug2DtEUg(1,1,k),
7856 & Ug2DtEUgder(1,1,1,k),ADtEA(1,1,2),ADtEAderg(1,1,1,2),
7857 & ADtEAderx(1,1,1,1,1,2))
7858 call kernel(aa1t(1,1),aa2(1,1),aa1tder(1,1,1,1),
7859 & a_chuj_der(1,1,1,1,kk,k),2,.false.,DtUg2EUg(1,1,k),
7860 & DtUg2EUgder(1,1,1,k),ADtEA1(1,1,2),ADtEA1derg(1,1,1,2),
7861 & ADtEA1derx(1,1,1,1,1,2))
7863 C End 6-th order cumulants
7864 call transpose2(EUgder(1,1,l),auxmat(1,1))
7865 call matmat2(auxmat(1,1),AEA(1,1,2),EAEAderg(1,1,1,2))
7866 call transpose2(EUg(1,1,l),auxmat(1,1))
7867 call matmat2(auxmat(1,1),AEA(1,1,2),EAEA(1,1,2))
7868 call matmat2(auxmat(1,1),AEAderg(1,1,2),EAEAderg(1,1,2,2))
7872 call matmat2(auxmat(1,1),AEAderx(1,1,lll,kkk,iii,2),
7873 & EAEAderx(1,1,lll,kkk,iii,2))
7878 C Calculate the vectors and their derivatives in virtual-bond dihedral angles.
7879 C They are needed only when the fifth- or the sixth-order cumulants are
7881 IF (wcorr5.gt.0.0d0 .or. wcorr6.gt.0.0d0) THEN
7882 call transpose2(AEA(1,1,1),auxmat(1,1))
7883 call matvec2(auxmat(1,1),b1(1,iti),AEAb1(1,1,1))
7884 call matvec2(auxmat(1,1),Ub2(1,i),AEAb2(1,1,1))
7885 call matvec2(auxmat(1,1),Ub2der(1,i),AEAb2derg(1,2,1,1))
7886 call transpose2(AEAderg(1,1,1),auxmat(1,1))
7887 call matvec2(auxmat(1,1),b1(1,iti),AEAb1derg(1,1,1))
7888 call matvec2(auxmat(1,1),Ub2(1,i),AEAb2derg(1,1,1,1))
7889 call matvec2(AEA(1,1,1),b1(1,itk1),AEAb1(1,2,1))
7890 call matvec2(AEAderg(1,1,1),b1(1,itk1),AEAb1derg(1,2,1))
7891 call matvec2(AEA(1,1,1),Ub2(1,k+1),AEAb2(1,2,1))
7892 call matvec2(AEAderg(1,1,1),Ub2(1,k+1),AEAb2derg(1,1,2,1))
7893 call matvec2(AEA(1,1,1),Ub2der(1,k+1),AEAb2derg(1,2,2,1))
7894 call transpose2(AEA(1,1,2),auxmat(1,1))
7895 call matvec2(auxmat(1,1),b1(1,itj),AEAb1(1,1,2))
7896 call matvec2(auxmat(1,1),Ub2(1,j),AEAb2(1,1,2))
7897 call matvec2(auxmat(1,1),Ub2der(1,j),AEAb2derg(1,2,1,2))
7898 call transpose2(AEAderg(1,1,2),auxmat(1,1))
7899 call matvec2(auxmat(1,1),b1(1,itj),AEAb1derg(1,1,2))
7900 call matvec2(auxmat(1,1),Ub2(1,j),AEAb2derg(1,1,1,2))
7901 call matvec2(AEA(1,1,2),b1(1,itl1),AEAb1(1,2,2))
7902 call matvec2(AEAderg(1,1,2),b1(1,itl1),AEAb1derg(1,2,2))
7903 call matvec2(AEA(1,1,2),Ub2(1,l+1),AEAb2(1,2,2))
7904 call matvec2(AEAderg(1,1,2),Ub2(1,l+1),AEAb2derg(1,1,2,2))
7905 call matvec2(AEA(1,1,2),Ub2der(1,l+1),AEAb2derg(1,2,2,2))
7906 C Calculate the Cartesian derivatives of the vectors.
7910 call transpose2(AEAderx(1,1,lll,kkk,iii,1),auxmat(1,1))
7911 call matvec2(auxmat(1,1),b1(1,iti),
7912 & AEAb1derx(1,lll,kkk,iii,1,1))
7913 call matvec2(auxmat(1,1),Ub2(1,i),
7914 & AEAb2derx(1,lll,kkk,iii,1,1))
7915 call matvec2(AEAderx(1,1,lll,kkk,iii,1),b1(1,itk1),
7916 & AEAb1derx(1,lll,kkk,iii,2,1))
7917 call matvec2(AEAderx(1,1,lll,kkk,iii,1),Ub2(1,k+1),
7918 & AEAb2derx(1,lll,kkk,iii,2,1))
7919 call transpose2(AEAderx(1,1,lll,kkk,iii,2),auxmat(1,1))
7920 call matvec2(auxmat(1,1),b1(1,itj),
7921 & AEAb1derx(1,lll,kkk,iii,1,2))
7922 call matvec2(auxmat(1,1),Ub2(1,j),
7923 & AEAb2derx(1,lll,kkk,iii,1,2))
7924 call matvec2(AEAderx(1,1,lll,kkk,iii,2),b1(1,itl1),
7925 & AEAb1derx(1,lll,kkk,iii,2,2))
7926 call matvec2(AEAderx(1,1,lll,kkk,iii,2),Ub2(1,l+1),
7927 & AEAb2derx(1,lll,kkk,iii,2,2))
7934 C Antiparallel orientation of the two CA-CA-CA frames.
7936 iti=itortyp(itype(i))
7940 itk1=itortyp(itype(k+1))
7941 itl=itortyp(itype(l))
7942 itj=itortyp(itype(j))
7943 if (j.lt.nres-1) then
7944 itj1=itortyp(itype(j+1))
7948 C A2 kernel(j-1)T A1T
7949 call kernel(aa1(1,1),aa2t(1,1),a_chuj_der(1,1,1,1,jj,i),
7950 & aa2tder(1,1,1,1),1,.true.,EUg(1,1,j),EUgder(1,1,j),
7951 & AEA(1,1,1),AEAderg(1,1,1),AEAderx(1,1,1,1,1,1))
7952 C Following matrices are needed only for 6-th order cumulants
7953 IF (wcorr6.gt.0.0d0 .or. (wturn6.gt.0.0d0 .and.
7954 & j.eq.i+4 .and. l.eq.i+3)) THEN
7955 call kernel(aa1(1,1),aa2t(1,1),a_chuj_der(1,1,1,1,jj,i),
7956 & aa2tder(1,1,1,1),1,.true.,EUgC(1,1,j),EUgCder(1,1,j),
7957 & AECA(1,1,1),AECAderg(1,1,1),AECAderx(1,1,1,1,1,1))
7958 call kernel(aa2(1,1),aa2t(1,1),a_chuj_der(1,1,1,1,jj,i),
7959 & aa2tder(1,1,1,1),2,.true.,Ug2DtEUg(1,1,j),
7960 & Ug2DtEUgder(1,1,1,j),ADtEA(1,1,1),ADtEAderg(1,1,1,1),
7961 & ADtEAderx(1,1,1,1,1,1))
7962 call kernel(aa1(1,1),aa2t(1,1),a_chuj_der(1,1,1,1,jj,i),
7963 & aa2tder(1,1,1,1),2,.true.,DtUg2EUg(1,1,j),
7964 & DtUg2EUgder(1,1,1,j),ADtEA1(1,1,1),ADtEA1derg(1,1,1,1),
7965 & ADtEA1derx(1,1,1,1,1,1))
7967 C End 6-th order cumulants
7968 call transpose2(EUgder(1,1,k),auxmat(1,1))
7969 call matmat2(auxmat(1,1),AEA(1,1,1),EAEAderg(1,1,1,1))
7970 call transpose2(EUg(1,1,k),auxmat(1,1))
7971 call matmat2(auxmat(1,1),AEA(1,1,1),EAEA(1,1,1))
7972 call matmat2(auxmat(1,1),AEAderg(1,1,1),EAEAderg(1,1,2,1))
7976 call matmat2(auxmat(1,1),AEAderx(1,1,lll,kkk,iii,1),
7977 & EAEAderx(1,1,lll,kkk,iii,1))
7981 C A2T kernel(i+1)T A1
7982 call kernel(aa2t(1,1),aa1(1,1),aa2tder(1,1,1,1),
7983 & a_chuj_der(1,1,1,1,jj,i),1,.true.,EUg(1,1,k),EUgder(1,1,k),
7984 & AEA(1,1,2),AEAderg(1,1,2),AEAderx(1,1,1,1,1,2))
7985 C Following matrices are needed only for 6-th order cumulants
7986 IF (wcorr6.gt.0.0d0 .or. (wturn6.gt.0.0d0 .and.
7987 & j.eq.i+4 .and. l.eq.i+3)) THEN
7988 call kernel(aa2t(1,1),aa1(1,1),aa2tder(1,1,1,1),
7989 & a_chuj_der(1,1,1,1,jj,i),1,.true.,EUgC(1,1,k),EUgCder(1,1,k),
7990 & AECA(1,1,2),AECAderg(1,1,2),AECAderx(1,1,1,1,1,2))
7991 call kernel(aa2t(1,1),aa1(1,1),aa2tder(1,1,1,1),
7992 & a_chuj_der(1,1,1,1,jj,i),2,.true.,Ug2DtEUg(1,1,k),
7993 & Ug2DtEUgder(1,1,1,k),ADtEA(1,1,2),ADtEAderg(1,1,1,2),
7994 & ADtEAderx(1,1,1,1,1,2))
7995 call kernel(aa2t(1,1),aa1(1,1),aa2tder(1,1,1,1),
7996 & a_chuj_der(1,1,1,1,jj,i),2,.true.,DtUg2EUg(1,1,k),
7997 & DtUg2EUgder(1,1,1,k),ADtEA1(1,1,2),ADtEA1derg(1,1,1,2),
7998 & ADtEA1derx(1,1,1,1,1,2))
8000 C End 6-th order cumulants
8001 call transpose2(EUgder(1,1,j),auxmat(1,1))
8002 call matmat2(auxmat(1,1),AEA(1,1,1),EAEAderg(1,1,2,2))
8003 call transpose2(EUg(1,1,j),auxmat(1,1))
8004 call matmat2(auxmat(1,1),AEA(1,1,2),EAEA(1,1,2))
8005 call matmat2(auxmat(1,1),AEAderg(1,1,2),EAEAderg(1,1,2,2))
8009 call matmat2(auxmat(1,1),AEAderx(1,1,lll,kkk,iii,2),
8010 & EAEAderx(1,1,lll,kkk,iii,2))
8015 C Calculate the vectors and their derivatives in virtual-bond dihedral angles.
8016 C They are needed only when the fifth- or the sixth-order cumulants are
8018 IF (wcorr5.gt.0.0d0 .or. wcorr6.gt.0.0d0 .or.
8019 & (wturn6.gt.0.0d0 .and. j.eq.i+4 .and. l.eq.i+3)) THEN
8020 call transpose2(AEA(1,1,1),auxmat(1,1))
8021 call matvec2(auxmat(1,1),b1(1,iti),AEAb1(1,1,1))
8022 call matvec2(auxmat(1,1),Ub2(1,i),AEAb2(1,1,1))
8023 call matvec2(auxmat(1,1),Ub2der(1,i),AEAb2derg(1,2,1,1))
8024 call transpose2(AEAderg(1,1,1),auxmat(1,1))
8025 call matvec2(auxmat(1,1),b1(1,iti),AEAb1derg(1,1,1))
8026 call matvec2(auxmat(1,1),Ub2(1,i),AEAb2derg(1,1,1,1))
8027 call matvec2(AEA(1,1,1),b1(1,itk1),AEAb1(1,2,1))
8028 call matvec2(AEAderg(1,1,1),b1(1,itk1),AEAb1derg(1,2,1))
8029 call matvec2(AEA(1,1,1),Ub2(1,k+1),AEAb2(1,2,1))
8030 call matvec2(AEAderg(1,1,1),Ub2(1,k+1),AEAb2derg(1,1,2,1))
8031 call matvec2(AEA(1,1,1),Ub2der(1,k+1),AEAb2derg(1,2,2,1))
8032 call transpose2(AEA(1,1,2),auxmat(1,1))
8033 call matvec2(auxmat(1,1),b1(1,itj1),AEAb1(1,1,2))
8034 call matvec2(auxmat(1,1),Ub2(1,l),AEAb2(1,1,2))
8035 call matvec2(auxmat(1,1),Ub2der(1,l),AEAb2derg(1,2,1,2))
8036 call transpose2(AEAderg(1,1,2),auxmat(1,1))
8037 call matvec2(auxmat(1,1),b1(1,itl),AEAb1(1,1,2))
8038 call matvec2(auxmat(1,1),Ub2(1,l),AEAb2derg(1,1,1,2))
8039 call matvec2(AEA(1,1,2),b1(1,itj1),AEAb1(1,2,2))
8040 call matvec2(AEAderg(1,1,2),b1(1,itj1),AEAb1derg(1,2,2))
8041 call matvec2(AEA(1,1,2),Ub2(1,j),AEAb2(1,2,2))
8042 call matvec2(AEAderg(1,1,2),Ub2(1,j),AEAb2derg(1,1,2,2))
8043 call matvec2(AEA(1,1,2),Ub2der(1,j),AEAb2derg(1,2,2,2))
8044 C Calculate the Cartesian derivatives of the vectors.
8048 call transpose2(AEAderx(1,1,lll,kkk,iii,1),auxmat(1,1))
8049 call matvec2(auxmat(1,1),b1(1,iti),
8050 & AEAb1derx(1,lll,kkk,iii,1,1))
8051 call matvec2(auxmat(1,1),Ub2(1,i),
8052 & AEAb2derx(1,lll,kkk,iii,1,1))
8053 call matvec2(AEAderx(1,1,lll,kkk,iii,1),b1(1,itk1),
8054 & AEAb1derx(1,lll,kkk,iii,2,1))
8055 call matvec2(AEAderx(1,1,lll,kkk,iii,1),Ub2(1,k+1),
8056 & AEAb2derx(1,lll,kkk,iii,2,1))
8057 call transpose2(AEAderx(1,1,lll,kkk,iii,2),auxmat(1,1))
8058 call matvec2(auxmat(1,1),b1(1,itl),
8059 & AEAb1derx(1,lll,kkk,iii,1,2))
8060 call matvec2(auxmat(1,1),Ub2(1,l),
8061 & AEAb2derx(1,lll,kkk,iii,1,2))
8062 call matvec2(AEAderx(1,1,lll,kkk,iii,2),b1(1,itj1),
8063 & AEAb1derx(1,lll,kkk,iii,2,2))
8064 call matvec2(AEAderx(1,1,lll,kkk,iii,2),Ub2(1,j),
8065 & AEAb2derx(1,lll,kkk,iii,2,2))
8074 C---------------------------------------------------------------------------
8075 subroutine kernel(aa1,aa2t,aa1derx,aa2tderx,nderg,transp,
8076 & KK,KKderg,AKA,AKAderg,AKAderx)
8080 double precision aa1(2,2),aa2t(2,2),aa1derx(2,2,3,5),
8081 & aa2tderx(2,2,3,5),KK(2,2),KKderg(2,2,nderg),AKA(2,2),
8082 & AKAderg(2,2,nderg),AKAderx(2,2,3,5,2)
8087 call prodmat3(aa1(1,1),aa2t(1,1),KK(1,1),transp,AKA(1,1))
8089 call prodmat3(aa1(1,1),aa2t(1,1),KKderg(1,1,iii),transp,
8092 cd if (lprn) write (2,*) 'In kernel'
8094 cd if (lprn) write (2,*) 'kkk=',kkk
8096 call prodmat3(aa1derx(1,1,lll,kkk),aa2t(1,1),
8097 & KK(1,1),transp,AKAderx(1,1,lll,kkk,1))
8099 cd write (2,*) 'lll=',lll
8100 cd write (2,*) 'iii=1'
8102 cd write (2,'(3(2f10.5),5x)')
8103 cd & (AKAderx(jjj,mmm,lll,kkk,1),mmm=1,2)
8106 call prodmat3(aa1(1,1),aa2tderx(1,1,lll,kkk),
8107 & KK(1,1),transp,AKAderx(1,1,lll,kkk,2))
8109 cd write (2,*) 'lll=',lll
8110 cd write (2,*) 'iii=2'
8112 cd write (2,'(3(2f10.5),5x)')
8113 cd & (AKAderx(jjj,mmm,lll,kkk,2),mmm=1,2)
8120 C---------------------------------------------------------------------------
8121 double precision function eello4(i,j,k,l,jj,kk)
8122 implicit real*8 (a-h,o-z)
8123 include 'DIMENSIONS'
8124 include 'COMMON.IOUNITS'
8125 include 'COMMON.CHAIN'
8126 include 'COMMON.DERIV'
8127 include 'COMMON.INTERACT'
8128 include 'COMMON.CONTACTS'
8129 include 'COMMON.TORSION'
8130 include 'COMMON.VAR'
8131 include 'COMMON.GEO'
8132 double precision pizda(2,2),ggg1(3),ggg2(3)
8133 cd if (i.ne.1 .or. j.ne.5 .or. k.ne.2 .or.l.ne.4) then
8137 cd print *,'eello4:',i,j,k,l,jj,kk
8138 cd write (2,*) 'i',i,' j',j,' k',k,' l',l
8139 cd call checkint4(i,j,k,l,jj,kk,eel4_num)
8140 cold eij=facont_hb(jj,i)
8141 cold ekl=facont_hb(kk,k)
8143 eel4=-EAEA(1,1,1)-EAEA(2,2,1)
8144 cd eel41=-EAEA(1,1,2)-EAEA(2,2,2)
8145 gcorr_loc(k-1)=gcorr_loc(k-1)
8146 & -ekont*(EAEAderg(1,1,1,1)+EAEAderg(2,2,1,1))
8148 gcorr_loc(l-1)=gcorr_loc(l-1)
8149 & -ekont*(EAEAderg(1,1,2,1)+EAEAderg(2,2,2,1))
8151 gcorr_loc(j-1)=gcorr_loc(j-1)
8152 & -ekont*(EAEAderg(1,1,2,1)+EAEAderg(2,2,2,1))
8157 derx(lll,kkk,iii)=-EAEAderx(1,1,lll,kkk,iii,1)
8158 & -EAEAderx(2,2,lll,kkk,iii,1)
8159 cd derx(lll,kkk,iii)=0.0d0
8163 cd gcorr_loc(l-1)=0.0d0
8164 cd gcorr_loc(j-1)=0.0d0
8165 cd gcorr_loc(k-1)=0.0d0
8167 cd write (iout,*)'Contacts have occurred for peptide groups',
8168 cd & i,j,' fcont:',eij,' eij',' and ',k,l,
8169 cd & ' fcont ',ekl,' eel4=',eel4,' eel4_num',16*eel4_num
8170 if (j.lt.nres-1) then
8177 if (l.lt.nres-1) then
8185 cgrad ggg1(ll)=eel4*g_contij(ll,1)
8186 cgrad ggg2(ll)=eel4*g_contij(ll,2)
8187 glongij=eel4*g_contij(ll,1)+ekont*derx(ll,1,1)
8188 glongkl=eel4*g_contij(ll,2)+ekont*derx(ll,1,2)
8189 cgrad ghalf=0.5d0*ggg1(ll)
8190 gradcorr(ll,i)=gradcorr(ll,i)+ekont*derx(ll,2,1)
8191 gradcorr(ll,i+1)=gradcorr(ll,i+1)+ekont*derx(ll,3,1)
8192 gradcorr(ll,j)=gradcorr(ll,j)+ekont*derx(ll,4,1)
8193 gradcorr(ll,j1)=gradcorr(ll,j1)+ekont*derx(ll,5,1)
8194 gradcorr_long(ll,j)=gradcorr_long(ll,j)+glongij
8195 gradcorr_long(ll,i)=gradcorr_long(ll,i)-glongij
8196 cgrad ghalf=0.5d0*ggg2(ll)
8197 gradcorr(ll,k)=gradcorr(ll,k)+ekont*derx(ll,2,2)
8198 gradcorr(ll,k+1)=gradcorr(ll,k+1)+ekont*derx(ll,3,2)
8199 gradcorr(ll,l)=gradcorr(ll,l)+ekont*derx(ll,4,2)
8200 gradcorr(ll,l1)=gradcorr(ll,l1)+ekont*derx(ll,5,2)
8201 gradcorr_long(ll,l)=gradcorr_long(ll,l)+glongkl
8202 gradcorr_long(ll,k)=gradcorr_long(ll,k)-glongkl
8206 cgrad gradcorr(ll,m)=gradcorr(ll,m)+ggg1(ll)
8211 cgrad gradcorr(ll,m)=gradcorr(ll,m)+ggg2(ll)
8216 cgrad gradcorr(ll,m)=gradcorr(ll,m)+ekont*derx(ll,1,1)
8221 cgrad gradcorr(ll,m)=gradcorr(ll,m)+ekont*derx(ll,1,2)
8225 cd write (2,*) iii,gcorr_loc(iii)
8228 cd write (2,*) 'ekont',ekont
8229 cd write (iout,*) 'eello4',ekont*eel4
8232 C---------------------------------------------------------------------------
8233 double precision function eello5(i,j,k,l,jj,kk)
8234 implicit real*8 (a-h,o-z)
8235 include 'DIMENSIONS'
8236 include 'COMMON.IOUNITS'
8237 include 'COMMON.CHAIN'
8238 include 'COMMON.DERIV'
8239 include 'COMMON.INTERACT'
8240 include 'COMMON.CONTACTS'
8241 include 'COMMON.TORSION'
8242 include 'COMMON.VAR'
8243 include 'COMMON.GEO'
8244 double precision pizda(2,2),auxmat(2,2),auxmat1(2,2),vv(2)
8245 double precision ggg1(3),ggg2(3)
8246 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
8251 C /l\ / \ \ / \ / \ / C
8252 C / \ / \ \ / \ / \ / C
8253 C j| o |l1 | o | o| o | | o |o C
8254 C \ |/k\| |/ \| / |/ \| |/ \| C
8255 C \i/ \ / \ / / \ / \ C
8257 C (I) (II) (III) (IV) C
8259 C eello5_1 eello5_2 eello5_3 eello5_4 C
8261 C Antiparallel chains C
8264 C /j\ / \ \ / \ / \ / C
8265 C / \ / \ \ / \ / \ / C
8266 C j1| o |l | o | o| o | | o |o C
8267 C \ |/k\| |/ \| / |/ \| |/ \| C
8268 C \i/ \ / \ / / \ / \ C
8270 C (I) (II) (III) (IV) C
8272 C eello5_1 eello5_2 eello5_3 eello5_4 C
8274 C o denotes a local interaction, vertical lines an electrostatic interaction. C
8276 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
8277 cd if (i.ne.2 .or. j.ne.6 .or. k.ne.3 .or. l.ne.5) then
8282 cd & 'EELLO5: Contacts have occurred for peptide groups',i,j,
8284 itk=itortyp(itype(k))
8285 itl=itortyp(itype(l))
8286 itj=itortyp(itype(j))
8291 cd call checkint5(i,j,k,l,jj,kk,eel5_1_num,eel5_2_num,
8292 cd & eel5_3_num,eel5_4_num)
8296 derx(lll,kkk,iii)=0.0d0
8300 cd eij=facont_hb(jj,i)
8301 cd ekl=facont_hb(kk,k)
8303 cd write (iout,*)'Contacts have occurred for peptide groups',
8304 cd & i,j,' fcont:',eij,' eij',' and ',k,l
8306 C Contribution from the graph I.
8307 cd write (2,*) 'AEA ',AEA(1,1,1),AEA(2,1,1),AEA(1,2,1),AEA(2,2,1)
8308 cd write (2,*) 'AEAb2',AEAb2(1,1,1),AEAb2(2,1,1)
8309 call transpose2(EUg(1,1,k),auxmat(1,1))
8310 call matmat2(AEA(1,1,1),auxmat(1,1),pizda(1,1))
8311 vv(1)=pizda(1,1)-pizda(2,2)
8312 vv(2)=pizda(1,2)+pizda(2,1)
8313 eello5_1=scalar2(AEAb2(1,1,1),Ub2(1,k))
8314 & +0.5d0*scalar2(vv(1),Dtobr2(1,i))
8315 C Explicit gradient in virtual-dihedral angles.
8316 if (i.gt.1) g_corr5_loc(i-1)=g_corr5_loc(i-1)
8317 & +ekont*(scalar2(AEAb2derg(1,2,1,1),Ub2(1,k))
8318 & +0.5d0*scalar2(vv(1),Dtobr2der(1,i)))
8319 call transpose2(EUgder(1,1,k),auxmat1(1,1))
8320 call matmat2(AEA(1,1,1),auxmat1(1,1),pizda(1,1))
8321 vv(1)=pizda(1,1)-pizda(2,2)
8322 vv(2)=pizda(1,2)+pizda(2,1)
8323 g_corr5_loc(k-1)=g_corr5_loc(k-1)
8324 & +ekont*(scalar2(AEAb2(1,1,1),Ub2der(1,k))
8325 & +0.5d0*scalar2(vv(1),Dtobr2(1,i)))
8326 call matmat2(AEAderg(1,1,1),auxmat(1,1),pizda(1,1))
8327 vv(1)=pizda(1,1)-pizda(2,2)
8328 vv(2)=pizda(1,2)+pizda(2,1)
8330 if (l.lt.nres-1) g_corr5_loc(l-1)=g_corr5_loc(l-1)
8331 & +ekont*(scalar2(AEAb2derg(1,1,1,1),Ub2(1,k))
8332 & +0.5d0*scalar2(vv(1),Dtobr2(1,i)))
8334 if (j.lt.nres-1) g_corr5_loc(j-1)=g_corr5_loc(j-1)
8335 & +ekont*(scalar2(AEAb2derg(1,1,1,1),Ub2(1,k))
8336 & +0.5d0*scalar2(vv(1),Dtobr2(1,i)))
8338 C Cartesian gradient
8342 call matmat2(AEAderx(1,1,lll,kkk,iii,1),auxmat(1,1),
8344 vv(1)=pizda(1,1)-pizda(2,2)
8345 vv(2)=pizda(1,2)+pizda(2,1)
8346 derx(lll,kkk,iii)=derx(lll,kkk,iii)
8347 & +scalar2(AEAb2derx(1,lll,kkk,iii,1,1),Ub2(1,k))
8348 & +0.5d0*scalar2(vv(1),Dtobr2(1,i))
8354 C Contribution from graph II
8355 call transpose2(EE(1,1,itk),auxmat(1,1))
8356 call matmat2(auxmat(1,1),AEA(1,1,1),pizda(1,1))
8357 vv(1)=pizda(1,1)+pizda(2,2)
8358 vv(2)=pizda(2,1)-pizda(1,2)
8359 eello5_2=scalar2(AEAb1(1,2,1),b1(1,itk))
8360 & -0.5d0*scalar2(vv(1),Ctobr(1,k))
8361 C Explicit gradient in virtual-dihedral angles.
8362 g_corr5_loc(k-1)=g_corr5_loc(k-1)
8363 & -0.5d0*ekont*scalar2(vv(1),Ctobrder(1,k))
8364 call matmat2(auxmat(1,1),AEAderg(1,1,1),pizda(1,1))
8365 vv(1)=pizda(1,1)+pizda(2,2)
8366 vv(2)=pizda(2,1)-pizda(1,2)
8368 g_corr5_loc(l-1)=g_corr5_loc(l-1)
8369 & +ekont*(scalar2(AEAb1derg(1,2,1),b1(1,itk))
8370 & -0.5d0*scalar2(vv(1),Ctobr(1,k)))
8372 g_corr5_loc(j-1)=g_corr5_loc(j-1)
8373 & +ekont*(scalar2(AEAb1derg(1,2,1),b1(1,itk))
8374 & -0.5d0*scalar2(vv(1),Ctobr(1,k)))
8376 C Cartesian gradient
8380 call matmat2(auxmat(1,1),AEAderx(1,1,lll,kkk,iii,1),
8382 vv(1)=pizda(1,1)+pizda(2,2)
8383 vv(2)=pizda(2,1)-pizda(1,2)
8384 derx(lll,kkk,iii)=derx(lll,kkk,iii)
8385 & +scalar2(AEAb1derx(1,lll,kkk,iii,2,1),b1(1,itk))
8386 & -0.5d0*scalar2(vv(1),Ctobr(1,k))
8394 C Parallel orientation
8395 C Contribution from graph III
8396 call transpose2(EUg(1,1,l),auxmat(1,1))
8397 call matmat2(AEA(1,1,2),auxmat(1,1),pizda(1,1))
8398 vv(1)=pizda(1,1)-pizda(2,2)
8399 vv(2)=pizda(1,2)+pizda(2,1)
8400 eello5_3=scalar2(AEAb2(1,1,2),Ub2(1,l))
8401 & +0.5d0*scalar2(vv(1),Dtobr2(1,j))
8402 C Explicit gradient in virtual-dihedral angles.
8403 g_corr5_loc(j-1)=g_corr5_loc(j-1)
8404 & +ekont*(scalar2(AEAb2derg(1,2,1,2),Ub2(1,l))
8405 & +0.5d0*scalar2(vv(1),Dtobr2der(1,j)))
8406 call matmat2(AEAderg(1,1,2),auxmat(1,1),pizda(1,1))
8407 vv(1)=pizda(1,1)-pizda(2,2)
8408 vv(2)=pizda(1,2)+pizda(2,1)
8409 g_corr5_loc(k-1)=g_corr5_loc(k-1)
8410 & +ekont*(scalar2(AEAb2derg(1,1,1,2),Ub2(1,l))
8411 & +0.5d0*scalar2(vv(1),Dtobr2(1,j)))
8412 call transpose2(EUgder(1,1,l),auxmat1(1,1))
8413 call matmat2(AEA(1,1,2),auxmat1(1,1),pizda(1,1))
8414 vv(1)=pizda(1,1)-pizda(2,2)
8415 vv(2)=pizda(1,2)+pizda(2,1)
8416 g_corr5_loc(l-1)=g_corr5_loc(l-1)
8417 & +ekont*(scalar2(AEAb2(1,1,2),Ub2der(1,l))
8418 & +0.5d0*scalar2(vv(1),Dtobr2(1,j)))
8419 C Cartesian gradient
8423 call matmat2(AEAderx(1,1,lll,kkk,iii,2),auxmat(1,1),
8425 vv(1)=pizda(1,1)-pizda(2,2)
8426 vv(2)=pizda(1,2)+pizda(2,1)
8427 derx(lll,kkk,iii)=derx(lll,kkk,iii)
8428 & +scalar2(AEAb2derx(1,lll,kkk,iii,1,2),Ub2(1,l))
8429 & +0.5d0*scalar2(vv(1),Dtobr2(1,j))
8434 C Contribution from graph IV
8436 call transpose2(EE(1,1,itl),auxmat(1,1))
8437 call matmat2(auxmat(1,1),AEA(1,1,2),pizda(1,1))
8438 vv(1)=pizda(1,1)+pizda(2,2)
8439 vv(2)=pizda(2,1)-pizda(1,2)
8440 eello5_4=scalar2(AEAb1(1,2,2),b1(1,itl))
8441 & -0.5d0*scalar2(vv(1),Ctobr(1,l))
8442 C Explicit gradient in virtual-dihedral angles.
8443 g_corr5_loc(l-1)=g_corr5_loc(l-1)
8444 & -0.5d0*ekont*scalar2(vv(1),Ctobrder(1,l))
8445 call matmat2(auxmat(1,1),AEAderg(1,1,2),pizda(1,1))
8446 vv(1)=pizda(1,1)+pizda(2,2)
8447 vv(2)=pizda(2,1)-pizda(1,2)
8448 g_corr5_loc(k-1)=g_corr5_loc(k-1)
8449 & +ekont*(scalar2(AEAb1derg(1,2,2),b1(1,itl))
8450 & -0.5d0*scalar2(vv(1),Ctobr(1,l)))
8451 C Cartesian gradient
8455 call matmat2(auxmat(1,1),AEAderx(1,1,lll,kkk,iii,2),
8457 vv(1)=pizda(1,1)+pizda(2,2)
8458 vv(2)=pizda(2,1)-pizda(1,2)
8459 derx(lll,kkk,iii)=derx(lll,kkk,iii)
8460 & +scalar2(AEAb1derx(1,lll,kkk,iii,2,2),b1(1,itl))
8461 & -0.5d0*scalar2(vv(1),Ctobr(1,l))
8466 C Antiparallel orientation
8467 C Contribution from graph III
8469 call transpose2(EUg(1,1,j),auxmat(1,1))
8470 call matmat2(AEA(1,1,2),auxmat(1,1),pizda(1,1))
8471 vv(1)=pizda(1,1)-pizda(2,2)
8472 vv(2)=pizda(1,2)+pizda(2,1)
8473 eello5_3=scalar2(AEAb2(1,1,2),Ub2(1,j))
8474 & +0.5d0*scalar2(vv(1),Dtobr2(1,l))
8475 C Explicit gradient in virtual-dihedral angles.
8476 g_corr5_loc(l-1)=g_corr5_loc(l-1)
8477 & +ekont*(scalar2(AEAb2derg(1,2,1,2),Ub2(1,j))
8478 & +0.5d0*scalar2(vv(1),Dtobr2der(1,l)))
8479 call matmat2(AEAderg(1,1,2),auxmat(1,1),pizda(1,1))
8480 vv(1)=pizda(1,1)-pizda(2,2)
8481 vv(2)=pizda(1,2)+pizda(2,1)
8482 g_corr5_loc(k-1)=g_corr5_loc(k-1)
8483 & +ekont*(scalar2(AEAb2derg(1,1,1,2),Ub2(1,j))
8484 & +0.5d0*scalar2(vv(1),Dtobr2(1,l)))
8485 call transpose2(EUgder(1,1,j),auxmat1(1,1))
8486 call matmat2(AEA(1,1,2),auxmat1(1,1),pizda(1,1))
8487 vv(1)=pizda(1,1)-pizda(2,2)
8488 vv(2)=pizda(1,2)+pizda(2,1)
8489 g_corr5_loc(j-1)=g_corr5_loc(j-1)
8490 & +ekont*(scalar2(AEAb2(1,1,2),Ub2der(1,j))
8491 & +0.5d0*scalar2(vv(1),Dtobr2(1,l)))
8492 C Cartesian gradient
8496 call matmat2(AEAderx(1,1,lll,kkk,iii,2),auxmat(1,1),
8498 vv(1)=pizda(1,1)-pizda(2,2)
8499 vv(2)=pizda(1,2)+pizda(2,1)
8500 derx(lll,kkk,3-iii)=derx(lll,kkk,3-iii)
8501 & +scalar2(AEAb2derx(1,lll,kkk,iii,1,2),Ub2(1,j))
8502 & +0.5d0*scalar2(vv(1),Dtobr2(1,l))
8507 C Contribution from graph IV
8509 call transpose2(EE(1,1,itj),auxmat(1,1))
8510 call matmat2(auxmat(1,1),AEA(1,1,2),pizda(1,1))
8511 vv(1)=pizda(1,1)+pizda(2,2)
8512 vv(2)=pizda(2,1)-pizda(1,2)
8513 eello5_4=scalar2(AEAb1(1,2,2),b1(1,itj))
8514 & -0.5d0*scalar2(vv(1),Ctobr(1,j))
8515 C Explicit gradient in virtual-dihedral angles.
8516 g_corr5_loc(j-1)=g_corr5_loc(j-1)
8517 & -0.5d0*ekont*scalar2(vv(1),Ctobrder(1,j))
8518 call matmat2(auxmat(1,1),AEAderg(1,1,2),pizda(1,1))
8519 vv(1)=pizda(1,1)+pizda(2,2)
8520 vv(2)=pizda(2,1)-pizda(1,2)
8521 g_corr5_loc(k-1)=g_corr5_loc(k-1)
8522 & +ekont*(scalar2(AEAb1derg(1,2,2),b1(1,itj))
8523 & -0.5d0*scalar2(vv(1),Ctobr(1,j)))
8524 C Cartesian gradient
8528 call matmat2(auxmat(1,1),AEAderx(1,1,lll,kkk,iii,2),
8530 vv(1)=pizda(1,1)+pizda(2,2)
8531 vv(2)=pizda(2,1)-pizda(1,2)
8532 derx(lll,kkk,3-iii)=derx(lll,kkk,3-iii)
8533 & +scalar2(AEAb1derx(1,lll,kkk,iii,2,2),b1(1,itj))
8534 & -0.5d0*scalar2(vv(1),Ctobr(1,j))
8540 eel5=eello5_1+eello5_2+eello5_3+eello5_4
8541 cd if (i.eq.2 .and. j.eq.8 .and. k.eq.3 .and. l.eq.7) then
8542 cd write (2,*) 'ijkl',i,j,k,l
8543 cd write (2,*) 'eello5_1',eello5_1,' eello5_2',eello5_2,
8544 cd & ' eello5_3',eello5_3,' eello5_4',eello5_4
8546 cd write(iout,*) 'eello5_1',eello5_1,' eel5_1_num',16*eel5_1_num
8547 cd write(iout,*) 'eello5_2',eello5_2,' eel5_2_num',16*eel5_2_num
8548 cd write(iout,*) 'eello5_3',eello5_3,' eel5_3_num',16*eel5_3_num
8549 cd write(iout,*) 'eello5_4',eello5_4,' eel5_4_num',16*eel5_4_num
8550 if (j.lt.nres-1) then
8557 if (l.lt.nres-1) then
8567 cd write (2,*) 'eij',eij,' ekl',ekl,' ekont',ekont
8568 C 2/11/08 AL Gradients over DC's connecting interacting sites will be
8569 C summed up outside the subrouine as for the other subroutines
8570 C handling long-range interactions. The old code is commented out
8571 C with "cgrad" to keep track of changes.
8573 cgrad ggg1(ll)=eel5*g_contij(ll,1)
8574 cgrad ggg2(ll)=eel5*g_contij(ll,2)
8575 gradcorr5ij=eel5*g_contij(ll,1)+ekont*derx(ll,1,1)
8576 gradcorr5kl=eel5*g_contij(ll,2)+ekont*derx(ll,1,2)
8577 c write (iout,'(a,3i3,a,5f8.3,2i3,a,5f8.3,a,f8.3)')
8578 c & "ecorr5",ll,i,j," derx",derx(ll,2,1),derx(ll,3,1),derx(ll,4,1),
8579 c & derx(ll,5,1),k,l," derx",derx(ll,2,2),derx(ll,3,2),
8580 c & derx(ll,4,2),derx(ll,5,2)," ekont",ekont
8581 c write (iout,'(a,3i3,a,3f8.3,2i3,a,3f8.3)')
8582 c & "ecorr5",ll,i,j," gradcorr5",g_contij(ll,1),derx(ll,1,1),
8584 c & k,l," gradcorr5",g_contij(ll,2),derx(ll,1,2),gradcorr5kl
8585 cold ghalf=0.5d0*eel5*ekl*gacont_hbr(ll,jj,i)
8586 cgrad ghalf=0.5d0*ggg1(ll)
8588 gradcorr5(ll,i)=gradcorr5(ll,i)+ekont*derx(ll,2,1)
8589 gradcorr5(ll,i+1)=gradcorr5(ll,i+1)+ekont*derx(ll,3,1)
8590 gradcorr5(ll,j)=gradcorr5(ll,j)+ekont*derx(ll,4,1)
8591 gradcorr5(ll,j1)=gradcorr5(ll,j1)+ekont*derx(ll,5,1)
8592 gradcorr5_long(ll,j)=gradcorr5_long(ll,j)+gradcorr5ij
8593 gradcorr5_long(ll,i)=gradcorr5_long(ll,i)-gradcorr5ij
8594 cold ghalf=0.5d0*eel5*eij*gacont_hbr(ll,kk,k)
8595 cgrad ghalf=0.5d0*ggg2(ll)
8597 gradcorr5(ll,k)=gradcorr5(ll,k)+ghalf+ekont*derx(ll,2,2)
8598 gradcorr5(ll,k+1)=gradcorr5(ll,k+1)+ekont*derx(ll,3,2)
8599 gradcorr5(ll,l)=gradcorr5(ll,l)+ghalf+ekont*derx(ll,4,2)
8600 gradcorr5(ll,l1)=gradcorr5(ll,l1)+ekont*derx(ll,5,2)
8601 gradcorr5_long(ll,l)=gradcorr5_long(ll,l)+gradcorr5kl
8602 gradcorr5_long(ll,k)=gradcorr5_long(ll,k)-gradcorr5kl
8607 cold gradcorr5(ll,m)=gradcorr5(ll,m)+eel5*ekl*gacont_hbr(ll,jj,i)
8608 cgrad gradcorr5(ll,m)=gradcorr5(ll,m)+ggg1(ll)
8613 cold gradcorr5(ll,m)=gradcorr5(ll,m)+eel5*eij*gacont_hbr(ll,kk,k)
8614 cgrad gradcorr5(ll,m)=gradcorr5(ll,m)+ggg2(ll)
8620 cgrad gradcorr5(ll,m)=gradcorr5(ll,m)+ekont*derx(ll,1,1)
8625 cgrad gradcorr5(ll,m)=gradcorr5(ll,m)+ekont*derx(ll,1,2)
8629 cd write (2,*) iii,g_corr5_loc(iii)
8632 cd write (2,*) 'ekont',ekont
8633 cd write (iout,*) 'eello5',ekont*eel5
8636 c--------------------------------------------------------------------------
8637 double precision function eello6(i,j,k,l,jj,kk)
8638 implicit real*8 (a-h,o-z)
8639 include 'DIMENSIONS'
8640 include 'COMMON.IOUNITS'
8641 include 'COMMON.CHAIN'
8642 include 'COMMON.DERIV'
8643 include 'COMMON.INTERACT'
8644 include 'COMMON.CONTACTS'
8645 include 'COMMON.TORSION'
8646 include 'COMMON.VAR'
8647 include 'COMMON.GEO'
8648 include 'COMMON.FFIELD'
8649 double precision ggg1(3),ggg2(3)
8650 cd if (i.ne.1 .or. j.ne.3 .or. k.ne.2 .or. l.ne.4) then
8655 cd & 'EELLO6: Contacts have occurred for peptide groups',i,j,
8663 cd call checkint6(i,j,k,l,jj,kk,eel6_1_num,eel6_2_num,
8664 cd & eel6_3_num,eel6_4_num,eel6_5_num,eel6_6_num)
8668 derx(lll,kkk,iii)=0.0d0
8672 cd eij=facont_hb(jj,i)
8673 cd ekl=facont_hb(kk,k)
8679 eello6_1=eello6_graph1(i,j,k,l,1,.false.)
8680 eello6_2=eello6_graph1(j,i,l,k,2,.false.)
8681 eello6_3=eello6_graph2(i,j,k,l,jj,kk,.false.)
8682 eello6_4=eello6_graph4(i,j,k,l,jj,kk,1,.false.)
8683 eello6_5=eello6_graph4(j,i,l,k,jj,kk,2,.false.)
8684 eello6_6=eello6_graph3(i,j,k,l,jj,kk,.false.)
8686 eello6_1=eello6_graph1(i,j,k,l,1,.false.)
8687 eello6_2=eello6_graph1(l,k,j,i,2,.true.)
8688 eello6_3=eello6_graph2(i,l,k,j,jj,kk,.true.)
8689 eello6_4=eello6_graph4(i,j,k,l,jj,kk,1,.false.)
8690 if (wturn6.eq.0.0d0 .or. j.ne.i+4) then
8691 eello6_5=eello6_graph4(l,k,j,i,kk,jj,2,.true.)
8695 eello6_6=eello6_graph3(i,l,k,j,jj,kk,.true.)
8697 C If turn contributions are considered, they will be handled separately.
8698 eel6=eello6_1+eello6_2+eello6_3+eello6_4+eello6_5+eello6_6
8699 cd write(iout,*) 'eello6_1',eello6_1!,' eel6_1_num',16*eel6_1_num
8700 cd write(iout,*) 'eello6_2',eello6_2!,' eel6_2_num',16*eel6_2_num
8701 cd write(iout,*) 'eello6_3',eello6_3!,' eel6_3_num',16*eel6_3_num
8702 cd write(iout,*) 'eello6_4',eello6_4!,' eel6_4_num',16*eel6_4_num
8703 cd write(iout,*) 'eello6_5',eello6_5!,' eel6_5_num',16*eel6_5_num
8704 cd write(iout,*) 'eello6_6',eello6_6!,' eel6_6_num',16*eel6_6_num
8706 if (j.lt.nres-1) then
8713 if (l.lt.nres-1) then
8721 cgrad ggg1(ll)=eel6*g_contij(ll,1)
8722 cgrad ggg2(ll)=eel6*g_contij(ll,2)
8723 cold ghalf=0.5d0*eel6*ekl*gacont_hbr(ll,jj,i)
8724 cgrad ghalf=0.5d0*ggg1(ll)
8726 gradcorr6ij=eel6*g_contij(ll,1)+ekont*derx(ll,1,1)
8727 gradcorr6kl=eel6*g_contij(ll,2)+ekont*derx(ll,1,2)
8728 gradcorr6(ll,i)=gradcorr6(ll,i)+ekont*derx(ll,2,1)
8729 gradcorr6(ll,i+1)=gradcorr6(ll,i+1)+ekont*derx(ll,3,1)
8730 gradcorr6(ll,j)=gradcorr6(ll,j)+ekont*derx(ll,4,1)
8731 gradcorr6(ll,j1)=gradcorr6(ll,j1)+ekont*derx(ll,5,1)
8732 gradcorr6_long(ll,j)=gradcorr6_long(ll,j)+gradcorr6ij
8733 gradcorr6_long(ll,i)=gradcorr6_long(ll,i)-gradcorr6ij
8734 cgrad ghalf=0.5d0*ggg2(ll)
8735 cold ghalf=0.5d0*eel6*eij*gacont_hbr(ll,kk,k)
8737 gradcorr6(ll,k)=gradcorr6(ll,k)+ekont*derx(ll,2,2)
8738 gradcorr6(ll,k+1)=gradcorr6(ll,k+1)+ekont*derx(ll,3,2)
8739 gradcorr6(ll,l)=gradcorr6(ll,l)+ekont*derx(ll,4,2)
8740 gradcorr6(ll,l1)=gradcorr6(ll,l1)+ekont*derx(ll,5,2)
8741 gradcorr6_long(ll,l)=gradcorr6_long(ll,l)+gradcorr6kl
8742 gradcorr6_long(ll,k)=gradcorr6_long(ll,k)-gradcorr6kl
8747 cold gradcorr6(ll,m)=gradcorr6(ll,m)+eel6*ekl*gacont_hbr(ll,jj,i)
8748 cgrad gradcorr6(ll,m)=gradcorr6(ll,m)+ggg1(ll)
8753 cold gradcorr6(ll,m)=gradcorr6(ll,m)+eel6*eij*gacont_hbr(ll,kk,k)
8754 cgrad gradcorr6(ll,m)=gradcorr6(ll,m)+ggg2(ll)
8760 cgrad gradcorr6(ll,m)=gradcorr6(ll,m)+ekont*derx(ll,1,1)
8765 cgrad gradcorr6(ll,m)=gradcorr6(ll,m)+ekont*derx(ll,1,2)
8769 cd write (2,*) iii,g_corr6_loc(iii)
8772 cd write (2,*) 'ekont',ekont
8773 cd write (iout,*) 'eello6',ekont*eel6
8776 c--------------------------------------------------------------------------
8777 double precision function eello6_graph1(i,j,k,l,imat,swap)
8778 implicit real*8 (a-h,o-z)
8779 include 'DIMENSIONS'
8780 include 'COMMON.IOUNITS'
8781 include 'COMMON.CHAIN'
8782 include 'COMMON.DERIV'
8783 include 'COMMON.INTERACT'
8784 include 'COMMON.CONTACTS'
8785 include 'COMMON.TORSION'
8786 include 'COMMON.VAR'
8787 include 'COMMON.GEO'
8788 double precision vv(2),vv1(2),pizda(2,2),auxmat(2,2),pizda1(2,2)
8792 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
8794 C Parallel Antiparallel
8800 C \ j|/k\| / \ |/k\|l /
8805 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
8806 itk=itortyp(itype(k))
8807 s1= scalar2(AEAb1(1,2,imat),CUgb2(1,i))
8808 s2=-scalar2(AEAb2(1,1,imat),Ug2Db1t(1,k))
8809 s3= scalar2(AEAb2(1,1,imat),CUgb2(1,k))
8810 call transpose2(EUgC(1,1,k),auxmat(1,1))
8811 call matmat2(AEA(1,1,imat),auxmat(1,1),pizda1(1,1))
8812 vv1(1)=pizda1(1,1)-pizda1(2,2)
8813 vv1(2)=pizda1(1,2)+pizda1(2,1)
8814 s4=0.5d0*scalar2(vv1(1),Dtobr2(1,i))
8815 vv(1)=AEAb1(1,2,imat)*b1(1,itk)-AEAb1(2,2,imat)*b1(2,itk)
8816 vv(2)=AEAb1(1,2,imat)*b1(2,itk)+AEAb1(2,2,imat)*b1(1,itk)
8817 s5=scalar2(vv(1),Dtobr2(1,i))
8818 cd write (2,*) 's1',s1,' s2',s2,' s3',s3,' s4', s4,' s5',s5
8819 eello6_graph1=-0.5d0*(s1+s2+s3+s4+s5)
8820 if (i.gt.1) g_corr6_loc(i-1)=g_corr6_loc(i-1)
8821 & -0.5d0*ekont*(scalar2(AEAb1(1,2,imat),CUgb2der(1,i))
8822 & -scalar2(AEAb2derg(1,2,1,imat),Ug2Db1t(1,k))
8823 & +scalar2(AEAb2derg(1,2,1,imat),CUgb2(1,k))
8824 & +0.5d0*scalar2(vv1(1),Dtobr2der(1,i))
8825 & +scalar2(vv(1),Dtobr2der(1,i)))
8826 call matmat2(AEAderg(1,1,imat),auxmat(1,1),pizda1(1,1))
8827 vv1(1)=pizda1(1,1)-pizda1(2,2)
8828 vv1(2)=pizda1(1,2)+pizda1(2,1)
8829 vv(1)=AEAb1derg(1,2,imat)*b1(1,itk)-AEAb1derg(2,2,imat)*b1(2,itk)
8830 vv(2)=AEAb1derg(1,2,imat)*b1(2,itk)+AEAb1derg(2,2,imat)*b1(1,itk)
8832 g_corr6_loc(l-1)=g_corr6_loc(l-1)
8833 & +ekont*(-0.5d0*(scalar2(AEAb1derg(1,2,imat),CUgb2(1,i))
8834 & -scalar2(AEAb2derg(1,1,1,imat),Ug2Db1t(1,k))
8835 & +scalar2(AEAb2derg(1,1,1,imat),CUgb2(1,k))
8836 & +0.5d0*scalar2(vv1(1),Dtobr2(1,i))+scalar2(vv(1),Dtobr2(1,i))))
8838 g_corr6_loc(j-1)=g_corr6_loc(j-1)
8839 & +ekont*(-0.5d0*(scalar2(AEAb1derg(1,2,imat),CUgb2(1,i))
8840 & -scalar2(AEAb2derg(1,1,1,imat),Ug2Db1t(1,k))
8841 & +scalar2(AEAb2derg(1,1,1,imat),CUgb2(1,k))
8842 & +0.5d0*scalar2(vv1(1),Dtobr2(1,i))+scalar2(vv(1),Dtobr2(1,i))))
8844 call transpose2(EUgCder(1,1,k),auxmat(1,1))
8845 call matmat2(AEA(1,1,imat),auxmat(1,1),pizda1(1,1))
8846 vv1(1)=pizda1(1,1)-pizda1(2,2)
8847 vv1(2)=pizda1(1,2)+pizda1(2,1)
8848 if (k.gt.1) g_corr6_loc(k-1)=g_corr6_loc(k-1)
8849 & +ekont*(-0.5d0*(-scalar2(AEAb2(1,1,imat),Ug2Db1tder(1,k))
8850 & +scalar2(AEAb2(1,1,imat),CUgb2der(1,k))
8851 & +0.5d0*scalar2(vv1(1),Dtobr2(1,i))))
8860 s1= scalar2(AEAb1derx(1,lll,kkk,iii,2,imat),CUgb2(1,i))
8861 s2=-scalar2(AEAb2derx(1,lll,kkk,iii,1,imat),Ug2Db1t(1,k))
8862 s3= scalar2(AEAb2derx(1,lll,kkk,iii,1,imat),CUgb2(1,k))
8863 call transpose2(EUgC(1,1,k),auxmat(1,1))
8864 call matmat2(AEAderx(1,1,lll,kkk,iii,imat),auxmat(1,1),
8866 vv1(1)=pizda1(1,1)-pizda1(2,2)
8867 vv1(2)=pizda1(1,2)+pizda1(2,1)
8868 s4=0.5d0*scalar2(vv1(1),Dtobr2(1,i))
8869 vv(1)=AEAb1derx(1,lll,kkk,iii,2,imat)*b1(1,itk)
8870 & -AEAb1derx(2,lll,kkk,iii,2,imat)*b1(2,itk)
8871 vv(2)=AEAb1derx(1,lll,kkk,iii,2,imat)*b1(2,itk)
8872 & +AEAb1derx(2,lll,kkk,iii,2,imat)*b1(1,itk)
8873 s5=scalar2(vv(1),Dtobr2(1,i))
8874 derx(lll,kkk,ind)=derx(lll,kkk,ind)-0.5d0*(s1+s2+s3+s4+s5)
8880 c----------------------------------------------------------------------------
8881 double precision function eello6_graph2(i,j,k,l,jj,kk,swap)
8882 implicit real*8 (a-h,o-z)
8883 include 'DIMENSIONS'
8884 include 'COMMON.IOUNITS'
8885 include 'COMMON.CHAIN'
8886 include 'COMMON.DERIV'
8887 include 'COMMON.INTERACT'
8888 include 'COMMON.CONTACTS'
8889 include 'COMMON.TORSION'
8890 include 'COMMON.VAR'
8891 include 'COMMON.GEO'
8893 double precision vv(2),pizda(2,2),auxmat(2,2),auxvec(2),
8894 & auxvec1(2),auxvec2(2),auxmat1(2,2)
8897 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
8899 C Parallel Antiparallel C
8905 C \ j|/k\| \ |/k\|l C
8910 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
8911 cd write (2,*) 'eello6_graph2: i,',i,' j',j,' k',k,' l',l
8912 C AL 7/4/01 s1 would occur in the sixth-order moment,
8913 C but not in a cluster cumulant
8915 s1=dip(1,jj,i)*dip(1,kk,k)
8917 call matvec2(ADtEA1(1,1,1),Ub2(1,k),auxvec(1))
8918 s2=-0.5d0*scalar2(Ub2(1,i),auxvec(1))
8919 call matvec2(ADtEA(1,1,2),Ub2(1,l),auxvec1(1))
8920 s3=-0.5d0*scalar2(Ub2(1,j),auxvec1(1))
8921 call transpose2(EUg(1,1,k),auxmat(1,1))
8922 call matmat2(ADtEA1(1,1,1),auxmat(1,1),pizda(1,1))
8923 vv(1)=pizda(1,1)-pizda(2,2)
8924 vv(2)=pizda(1,2)+pizda(2,1)
8925 s4=-0.25d0*scalar2(vv(1),Dtobr2(1,i))
8926 cd write (2,*) 'eello6_graph2:','s1',s1,' s2',s2,' s3',s3,' s4',s4
8928 eello6_graph2=-(s1+s2+s3+s4)
8930 eello6_graph2=-(s2+s3+s4)
8933 C Derivatives in gamma(i-1)
8936 s1=dipderg(1,jj,i)*dip(1,kk,k)
8938 s2=-0.5d0*scalar2(Ub2der(1,i),auxvec(1))
8939 call matvec2(ADtEAderg(1,1,1,2),Ub2(1,l),auxvec2(1))
8940 s3=-0.5d0*scalar2(Ub2(1,j),auxvec2(1))
8941 s4=-0.25d0*scalar2(vv(1),Dtobr2der(1,i))
8943 g_corr6_loc(i-1)=g_corr6_loc(i-1)-ekont*(s1+s2+s3+s4)
8945 g_corr6_loc(i-1)=g_corr6_loc(i-1)-ekont*(s2+s3+s4)
8947 c g_corr6_loc(i-1)=g_corr6_loc(i-1)-s3
8949 C Derivatives in gamma(k-1)
8951 s1=dip(1,jj,i)*dipderg(1,kk,k)
8953 call matvec2(ADtEA1(1,1,1),Ub2der(1,k),auxvec2(1))
8954 s2=-0.5d0*scalar2(Ub2(1,i),auxvec2(1))
8955 call matvec2(ADtEAderg(1,1,2,2),Ub2(1,l),auxvec2(1))
8956 s3=-0.5d0*scalar2(Ub2(1,j),auxvec2(1))
8957 call transpose2(EUgder(1,1,k),auxmat1(1,1))
8958 call matmat2(ADtEA1(1,1,1),auxmat1(1,1),pizda(1,1))
8959 vv(1)=pizda(1,1)-pizda(2,2)
8960 vv(2)=pizda(1,2)+pizda(2,1)
8961 s4=-0.25d0*scalar2(vv(1),Dtobr2(1,i))
8963 g_corr6_loc(k-1)=g_corr6_loc(k-1)-ekont*(s1+s2+s3+s4)
8965 g_corr6_loc(k-1)=g_corr6_loc(k-1)-ekont*(s2+s3+s4)
8967 c g_corr6_loc(k-1)=g_corr6_loc(k-1)-s3
8968 C Derivatives in gamma(j-1) or gamma(l-1)
8971 s1=dipderg(3,jj,i)*dip(1,kk,k)
8973 call matvec2(ADtEA1derg(1,1,1,1),Ub2(1,k),auxvec2(1))
8974 s2=-0.5d0*scalar2(Ub2(1,i),auxvec2(1))
8975 s3=-0.5d0*scalar2(Ub2der(1,j),auxvec1(1))
8976 call matmat2(ADtEA1derg(1,1,1,1),auxmat(1,1),pizda(1,1))
8977 vv(1)=pizda(1,1)-pizda(2,2)
8978 vv(2)=pizda(1,2)+pizda(2,1)
8979 s4=-0.25d0*scalar2(vv(1),Dtobr2(1,i))
8982 g_corr6_loc(l-1)=g_corr6_loc(l-1)-ekont*s1
8984 g_corr6_loc(j-1)=g_corr6_loc(j-1)-ekont*s1
8987 g_corr6_loc(j-1)=g_corr6_loc(j-1)-ekont*(s2+s3+s4)
8988 c g_corr6_loc(j-1)=g_corr6_loc(j-1)-s3
8990 C Derivatives in gamma(l-1) or gamma(j-1)
8993 s1=dip(1,jj,i)*dipderg(3,kk,k)
8995 call matvec2(ADtEA1derg(1,1,2,1),Ub2(1,k),auxvec2(1))
8996 s2=-0.5d0*scalar2(Ub2(1,i),auxvec2(1))
8997 call matvec2(ADtEA(1,1,2),Ub2der(1,l),auxvec2(1))
8998 s3=-0.5d0*scalar2(Ub2(1,j),auxvec2(1))
8999 call matmat2(ADtEA1derg(1,1,2,1),auxmat(1,1),pizda(1,1))
9000 vv(1)=pizda(1,1)-pizda(2,2)
9001 vv(2)=pizda(1,2)+pizda(2,1)
9002 s4=-0.25d0*scalar2(vv(1),Dtobr2(1,i))
9005 g_corr6_loc(j-1)=g_corr6_loc(j-1)-ekont*s1
9007 g_corr6_loc(l-1)=g_corr6_loc(l-1)-ekont*s1
9010 g_corr6_loc(l-1)=g_corr6_loc(l-1)-ekont*(s2+s3+s4)
9011 c g_corr6_loc(l-1)=g_corr6_loc(l-1)-s3
9013 C Cartesian derivatives.
9015 write (2,*) 'In eello6_graph2'
9017 write (2,*) 'iii=',iii
9019 write (2,*) 'kkk=',kkk
9021 write (2,'(3(2f10.5),5x)')
9022 & ((ADtEA1derx(jjj,mmm,lll,kkk,iii,1),mmm=1,2),lll=1,3)
9032 s1=dipderx(lll,kkk,1,jj,i)*dip(1,kk,k)
9034 s1=dip(1,jj,i)*dipderx(lll,kkk,1,kk,k)
9037 call matvec2(ADtEA1derx(1,1,lll,kkk,iii,1),Ub2(1,k),
9039 s2=-0.5d0*scalar2(Ub2(1,i),auxvec(1))
9040 call matvec2(ADtEAderx(1,1,lll,kkk,iii,2),Ub2(1,l),
9042 s3=-0.5d0*scalar2(Ub2(1,j),auxvec(1))
9043 call transpose2(EUg(1,1,k),auxmat(1,1))
9044 call matmat2(ADtEA1derx(1,1,lll,kkk,iii,1),auxmat(1,1),
9046 vv(1)=pizda(1,1)-pizda(2,2)
9047 vv(2)=pizda(1,2)+pizda(2,1)
9048 s4=-0.25d0*scalar2(vv(1),Dtobr2(1,i))
9049 cd write (2,*) 's1',s1,' s2',s2,' s3',s3,' s4',s4
9051 derx(lll,kkk,iii)=derx(lll,kkk,iii)-(s1+s2+s4)
9053 derx(lll,kkk,iii)=derx(lll,kkk,iii)-(s2+s4)
9056 derx(lll,kkk,3-iii)=derx(lll,kkk,3-iii)-s3
9058 derx(lll,kkk,iii)=derx(lll,kkk,iii)-s3
9065 c----------------------------------------------------------------------------
9066 double precision function eello6_graph3(i,j,k,l,jj,kk,swap)
9067 implicit real*8 (a-h,o-z)
9068 include 'DIMENSIONS'
9069 include 'COMMON.IOUNITS'
9070 include 'COMMON.CHAIN'
9071 include 'COMMON.DERIV'
9072 include 'COMMON.INTERACT'
9073 include 'COMMON.CONTACTS'
9074 include 'COMMON.TORSION'
9075 include 'COMMON.VAR'
9076 include 'COMMON.GEO'
9077 double precision vv(2),pizda(2,2),auxmat(2,2),auxvec(2)
9079 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
9081 C Parallel Antiparallel C
9087 C j|/k\| / |/k\|l / C
9092 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
9094 C 4/7/01 AL Component s1 was removed, because it pertains to the respective
9095 C energy moment and not to the cluster cumulant.
9096 iti=itortyp(itype(i))
9097 if (j.lt.nres-1) then
9098 itj1=itortyp(itype(j+1))
9102 itk=itortyp(itype(k))
9103 itk1=itortyp(itype(k+1))
9104 if (l.lt.nres-1) then
9105 itl1=itortyp(itype(l+1))
9110 s1=dip(4,jj,i)*dip(4,kk,k)
9112 call matvec2(AECA(1,1,1),b1(1,itk1),auxvec(1))
9113 s2=0.5d0*scalar2(b1(1,itk),auxvec(1))
9114 call matvec2(AECA(1,1,2),b1(1,itl1),auxvec(1))
9115 s3=0.5d0*scalar2(b1(1,itj1),auxvec(1))
9116 call transpose2(EE(1,1,itk),auxmat(1,1))
9117 call matmat2(auxmat(1,1),AECA(1,1,1),pizda(1,1))
9118 vv(1)=pizda(1,1)+pizda(2,2)
9119 vv(2)=pizda(2,1)-pizda(1,2)
9120 s4=-0.25d0*scalar2(vv(1),Ctobr(1,k))
9121 cd write (2,*) 'eello6_graph3:','s1',s1,' s2',s2,' s3',s3,' s4',s4,
9122 cd & "sum",-(s2+s3+s4)
9124 eello6_graph3=-(s1+s2+s3+s4)
9126 eello6_graph3=-(s2+s3+s4)
9129 C Derivatives in gamma(k-1)
9130 call matvec2(AECAderg(1,1,2),b1(1,itl1),auxvec(1))
9131 s3=0.5d0*scalar2(b1(1,itj1),auxvec(1))
9132 s4=-0.25d0*scalar2(vv(1),Ctobrder(1,k))
9133 g_corr6_loc(k-1)=g_corr6_loc(k-1)-ekont*(s3+s4)
9134 C Derivatives in gamma(l-1)
9135 call matvec2(AECAderg(1,1,1),b1(1,itk1),auxvec(1))
9136 s2=0.5d0*scalar2(b1(1,itk),auxvec(1))
9137 call matmat2(auxmat(1,1),AECAderg(1,1,1),pizda(1,1))
9138 vv(1)=pizda(1,1)+pizda(2,2)
9139 vv(2)=pizda(2,1)-pizda(1,2)
9140 s4=-0.25d0*scalar2(vv(1),Ctobr(1,k))
9141 g_corr6_loc(l-1)=g_corr6_loc(l-1)-ekont*(s2+s4)
9142 C Cartesian derivatives.
9148 s1=dipderx(lll,kkk,4,jj,i)*dip(4,kk,k)
9150 s1=dip(4,jj,i)*dipderx(lll,kkk,4,kk,k)
9153 call matvec2(AECAderx(1,1,lll,kkk,iii,1),b1(1,itk1),
9155 s2=0.5d0*scalar2(b1(1,itk),auxvec(1))
9156 call matvec2(AECAderx(1,1,lll,kkk,iii,2),b1(1,itl1),
9158 s3=0.5d0*scalar2(b1(1,itj1),auxvec(1))
9159 call matmat2(auxmat(1,1),AECAderx(1,1,lll,kkk,iii,1),
9161 vv(1)=pizda(1,1)+pizda(2,2)
9162 vv(2)=pizda(2,1)-pizda(1,2)
9163 s4=-0.25d0*scalar2(vv(1),Ctobr(1,k))
9165 derx(lll,kkk,iii)=derx(lll,kkk,iii)-(s1+s2+s4)
9167 derx(lll,kkk,iii)=derx(lll,kkk,iii)-(s2+s4)
9170 derx(lll,kkk,3-iii)=derx(lll,kkk,3-iii)-s3
9172 derx(lll,kkk,iii)=derx(lll,kkk,iii)-s3
9174 c derx(lll,kkk,iii)=derx(lll,kkk,iii)-s4
9180 c----------------------------------------------------------------------------
9181 double precision function eello6_graph4(i,j,k,l,jj,kk,imat,swap)
9182 implicit real*8 (a-h,o-z)
9183 include 'DIMENSIONS'
9184 include 'COMMON.IOUNITS'
9185 include 'COMMON.CHAIN'
9186 include 'COMMON.DERIV'
9187 include 'COMMON.INTERACT'
9188 include 'COMMON.CONTACTS'
9189 include 'COMMON.TORSION'
9190 include 'COMMON.VAR'
9191 include 'COMMON.GEO'
9192 include 'COMMON.FFIELD'
9193 double precision vv(2),pizda(2,2),auxmat(2,2),auxvec(2),
9194 & auxvec1(2),auxmat1(2,2)
9196 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
9198 C Parallel Antiparallel C
9204 C \ j|/k\| \ |/k\|l C
9209 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
9211 C 4/7/01 AL Component s1 was removed, because it pertains to the respective
9212 C energy moment and not to the cluster cumulant.
9213 cd write (2,*) 'eello_graph4: wturn6',wturn6
9214 iti=itortyp(itype(i))
9215 itj=itortyp(itype(j))
9216 if (j.lt.nres-1) then
9217 itj1=itortyp(itype(j+1))
9221 itk=itortyp(itype(k))
9222 if (k.lt.nres-1) then
9223 itk1=itortyp(itype(k+1))
9227 itl=itortyp(itype(l))
9228 if (l.lt.nres-1) then
9229 itl1=itortyp(itype(l+1))
9233 cd write (2,*) 'eello6_graph4:','i',i,' j',j,' k',k,' l',l
9234 cd write (2,*) 'iti',iti,' itj',itj,' itj1',itj1,' itk',itk,
9235 cd & ' itl',itl,' itl1',itl1
9238 s1=dip(3,jj,i)*dip(3,kk,k)
9240 s1=dip(2,jj,j)*dip(2,kk,l)
9243 call matvec2(AECA(1,1,imat),Ub2(1,k),auxvec(1))
9244 s2=0.5d0*scalar2(Ub2(1,i),auxvec(1))
9246 call matvec2(ADtEA1(1,1,3-imat),b1(1,itj1),auxvec1(1))
9247 s3=-0.5d0*scalar2(b1(1,itj),auxvec1(1))
9249 call matvec2(ADtEA1(1,1,3-imat),b1(1,itl1),auxvec1(1))
9250 s3=-0.5d0*scalar2(b1(1,itl),auxvec1(1))
9252 call transpose2(EUg(1,1,k),auxmat(1,1))
9253 call matmat2(AECA(1,1,imat),auxmat(1,1),pizda(1,1))
9254 vv(1)=pizda(1,1)-pizda(2,2)
9255 vv(2)=pizda(2,1)+pizda(1,2)
9256 s4=0.25d0*scalar2(vv(1),Dtobr2(1,i))
9257 cd write (2,*) 'eello6_graph4:','s1',s1,' s2',s2,' s3',s3,' s4',s4
9259 eello6_graph4=-(s1+s2+s3+s4)
9261 eello6_graph4=-(s2+s3+s4)
9263 C Derivatives in gamma(i-1)
9267 s1=dipderg(2,jj,i)*dip(3,kk,k)
9269 s1=dipderg(4,jj,j)*dip(2,kk,l)
9272 s2=0.5d0*scalar2(Ub2der(1,i),auxvec(1))
9274 call matvec2(ADtEA1derg(1,1,1,3-imat),b1(1,itj1),auxvec1(1))
9275 s3=-0.5d0*scalar2(b1(1,itj),auxvec1(1))
9277 call matvec2(ADtEA1derg(1,1,1,3-imat),b1(1,itl1),auxvec1(1))
9278 s3=-0.5d0*scalar2(b1(1,itl),auxvec1(1))
9280 s4=0.25d0*scalar2(vv(1),Dtobr2der(1,i))
9281 if (wturn6.gt.0.0d0 .and. k.eq.l+4 .and. i.eq.j+2) then
9282 cd write (2,*) 'turn6 derivatives'
9284 gel_loc_turn6(i-1)=gel_loc_turn6(i-1)-ekont*(s1+s2+s3+s4)
9286 gel_loc_turn6(i-1)=gel_loc_turn6(i-1)-ekont*(s2+s3+s4)
9290 g_corr6_loc(i-1)=g_corr6_loc(i-1)-ekont*(s1+s2+s3+s4)
9292 g_corr6_loc(i-1)=g_corr6_loc(i-1)-ekont*(s2+s3+s4)
9296 C Derivatives in gamma(k-1)
9299 s1=dip(3,jj,i)*dipderg(2,kk,k)
9301 s1=dip(2,jj,j)*dipderg(4,kk,l)
9304 call matvec2(AECA(1,1,imat),Ub2der(1,k),auxvec1(1))
9305 s2=0.5d0*scalar2(Ub2(1,i),auxvec1(1))
9307 call matvec2(ADtEA1derg(1,1,2,3-imat),b1(1,itj1),auxvec1(1))
9308 s3=-0.5d0*scalar2(b1(1,itj),auxvec1(1))
9310 call matvec2(ADtEA1derg(1,1,2,3-imat),b1(1,itl1),auxvec1(1))
9311 s3=-0.5d0*scalar2(b1(1,itl),auxvec1(1))
9313 call transpose2(EUgder(1,1,k),auxmat1(1,1))
9314 call matmat2(AECA(1,1,imat),auxmat1(1,1),pizda(1,1))
9315 vv(1)=pizda(1,1)-pizda(2,2)
9316 vv(2)=pizda(2,1)+pizda(1,2)
9317 s4=0.25d0*scalar2(vv(1),Dtobr2(1,i))
9318 if (wturn6.gt.0.0d0 .and. k.eq.l+4 .and. i.eq.j+2) then
9320 gel_loc_turn6(k-1)=gel_loc_turn6(k-1)-ekont*(s1+s2+s3+s4)
9322 gel_loc_turn6(k-1)=gel_loc_turn6(k-1)-ekont*(s2+s3+s4)
9326 g_corr6_loc(k-1)=g_corr6_loc(k-1)-ekont*(s1+s2+s3+s4)
9328 g_corr6_loc(k-1)=g_corr6_loc(k-1)-ekont*(s2+s3+s4)
9331 C Derivatives in gamma(j-1) or gamma(l-1)
9332 if (l.eq.j+1 .and. l.gt.1) then
9333 call matvec2(AECAderg(1,1,imat),Ub2(1,k),auxvec(1))
9334 s2=0.5d0*scalar2(Ub2(1,i),auxvec(1))
9335 call matmat2(AECAderg(1,1,imat),auxmat(1,1),pizda(1,1))
9336 vv(1)=pizda(1,1)-pizda(2,2)
9337 vv(2)=pizda(2,1)+pizda(1,2)
9338 s4=0.25d0*scalar2(vv(1),Dtobr2(1,i))
9339 g_corr6_loc(l-1)=g_corr6_loc(l-1)-ekont*(s2+s4)
9340 else if (j.gt.1) then
9341 call matvec2(AECAderg(1,1,imat),Ub2(1,k),auxvec(1))
9342 s2=0.5d0*scalar2(Ub2(1,i),auxvec(1))
9343 call matmat2(AECAderg(1,1,imat),auxmat(1,1),pizda(1,1))
9344 vv(1)=pizda(1,1)-pizda(2,2)
9345 vv(2)=pizda(2,1)+pizda(1,2)
9346 s4=0.25d0*scalar2(vv(1),Dtobr2(1,i))
9347 if (wturn6.gt.0.0d0 .and. k.eq.l+4 .and. i.eq.j+2) then
9348 gel_loc_turn6(j-1)=gel_loc_turn6(j-1)-ekont*(s2+s4)
9350 g_corr6_loc(j-1)=g_corr6_loc(j-1)-ekont*(s2+s4)
9353 C Cartesian derivatives.
9360 s1=dipderx(lll,kkk,3,jj,i)*dip(3,kk,k)
9362 s1=dipderx(lll,kkk,2,jj,j)*dip(2,kk,l)
9366 s1=dip(3,jj,i)*dipderx(lll,kkk,3,kk,k)
9368 s1=dip(2,jj,j)*dipderx(lll,kkk,2,kk,l)
9372 call matvec2(AECAderx(1,1,lll,kkk,iii,imat),Ub2(1,k),
9374 s2=0.5d0*scalar2(Ub2(1,i),auxvec(1))
9376 call matvec2(ADtEA1derx(1,1,lll,kkk,iii,3-imat),
9377 & b1(1,itj1),auxvec(1))
9378 s3=-0.5d0*scalar2(b1(1,itj),auxvec(1))
9380 call matvec2(ADtEA1derx(1,1,lll,kkk,iii,3-imat),
9381 & b1(1,itl1),auxvec(1))
9382 s3=-0.5d0*scalar2(b1(1,itl),auxvec(1))
9384 call matmat2(AECAderx(1,1,lll,kkk,iii,imat),auxmat(1,1),
9386 vv(1)=pizda(1,1)-pizda(2,2)
9387 vv(2)=pizda(2,1)+pizda(1,2)
9388 s4=0.25d0*scalar2(vv(1),Dtobr2(1,i))
9390 if (wturn6.gt.0.0d0 .and. k.eq.l+4 .and. i.eq.j+2) then
9392 derx_turn(lll,kkk,3-iii)=derx_turn(lll,kkk,3-iii)
9395 derx_turn(lll,kkk,3-iii)=derx_turn(lll,kkk,3-iii)
9398 derx_turn(lll,kkk,iii)=derx_turn(lll,kkk,iii)-s3
9401 derx(lll,kkk,3-iii)=derx(lll,kkk,3-iii)-(s1+s2+s4)
9403 derx(lll,kkk,3-iii)=derx(lll,kkk,3-iii)-(s2+s4)
9405 derx(lll,kkk,iii)=derx(lll,kkk,iii)-s3
9409 derx(lll,kkk,iii)=derx(lll,kkk,iii)-(s1+s2+s4)
9411 derx(lll,kkk,iii)=derx(lll,kkk,iii)-(s2+s4)
9414 derx(lll,kkk,iii)=derx(lll,kkk,iii)-s3
9416 derx(lll,kkk,3-iii)=derx(lll,kkk,3-iii)-s3
9424 c----------------------------------------------------------------------------
9425 double precision function eello_turn6(i,jj,kk)
9426 implicit real*8 (a-h,o-z)
9427 include 'DIMENSIONS'
9428 include 'COMMON.IOUNITS'
9429 include 'COMMON.CHAIN'
9430 include 'COMMON.DERIV'
9431 include 'COMMON.INTERACT'
9432 include 'COMMON.CONTACTS'
9433 include 'COMMON.TORSION'
9434 include 'COMMON.VAR'
9435 include 'COMMON.GEO'
9436 double precision vtemp1(2),vtemp2(2),vtemp3(2),vtemp4(2),
9437 & atemp(2,2),auxmat(2,2),achuj_temp(2,2),gtemp(2,2),gvec(2),
9439 double precision vtemp1d(2),vtemp2d(2),vtemp3d(2),vtemp4d(2),
9440 & atempd(2,2),auxmatd(2,2),achuj_tempd(2,2),gtempd(2,2),gvecd(2)
9441 C 4/7/01 AL Components s1, s8, and s13 were removed, because they pertain to
9442 C the respective energy moment and not to the cluster cumulant.
9451 iti=itortyp(itype(i))
9452 itk=itortyp(itype(k))
9453 itk1=itortyp(itype(k+1))
9454 itl=itortyp(itype(l))
9455 itj=itortyp(itype(j))
9456 cd write (2,*) 'itk',itk,' itk1',itk1,' itl',itl,' itj',itj
9457 cd write (2,*) 'i',i,' k',k,' j',j,' l',l
9458 cd if (i.ne.1 .or. j.ne.3 .or. k.ne.2 .or. l.ne.4) then
9463 cd & 'EELLO6: Contacts have occurred for peptide groups',i,j,
9465 cd call checkint_turn6(i,jj,kk,eel_turn6_num)
9469 derx_turn(lll,kkk,iii)=0.0d0
9476 eello6_5=eello6_graph4(l,k,j,i,kk,jj,2,.true.)
9478 cd write (2,*) 'eello6_5',eello6_5
9480 call transpose2(AEA(1,1,1),auxmat(1,1))
9481 call matmat2(EUg(1,1,i+1),auxmat(1,1),auxmat(1,1))
9482 ss1=scalar2(Ub2(1,i+2),b1(1,itl))
9483 s1 = (auxmat(1,1)+auxmat(2,2))*ss1
9485 call matvec2(EUg(1,1,i+2),b1(1,itl),vtemp1(1))
9486 call matvec2(AEA(1,1,1),vtemp1(1),vtemp1(1))
9487 s2 = scalar2(b1(1,itk),vtemp1(1))
9489 call transpose2(AEA(1,1,2),atemp(1,1))
9490 call matmat2(atemp(1,1),EUg(1,1,i+4),atemp(1,1))
9491 call matvec2(Ug2(1,1,i+2),dd(1,1,itk1),vtemp2(1))
9492 s8 = -(atemp(1,1)+atemp(2,2))*scalar2(cc(1,1,itl),vtemp2(1))
9494 call matmat2(EUg(1,1,i+3),AEA(1,1,2),auxmat(1,1))
9495 call matvec2(auxmat(1,1),Ub2(1,i+4),vtemp3(1))
9496 s12 = scalar2(Ub2(1,i+2),vtemp3(1))
9498 call transpose2(a_chuj(1,1,kk,i+1),achuj_temp(1,1))
9499 call matmat2(achuj_temp(1,1),EUg(1,1,i+2),gtemp(1,1))
9500 call matmat2(gtemp(1,1),EUg(1,1,i+3),gtemp(1,1))
9501 call matvec2(a_chuj(1,1,jj,i),Ub2(1,i+4),vtemp4(1))
9502 ss13 = scalar2(b1(1,itk),vtemp4(1))
9503 s13 = (gtemp(1,1)+gtemp(2,2))*ss13
9505 c write (2,*) 's1,s2,s8,s12,s13',s1,s2,s8,s12,s13
9511 eel_turn6 = eello6_5 - 0.5d0*(s1+s2+s12+s8+s13)
9512 C Derivatives in gamma(i+2)
9516 call transpose2(AEA(1,1,1),auxmatd(1,1))
9517 call matmat2(EUgder(1,1,i+1),auxmatd(1,1),auxmatd(1,1))
9518 s1d = (auxmatd(1,1)+auxmatd(2,2))*ss1
9519 call transpose2(AEAderg(1,1,2),atempd(1,1))
9520 call matmat2(atempd(1,1),EUg(1,1,i+4),atempd(1,1))
9521 s8d = -(atempd(1,1)+atempd(2,2))*scalar2(cc(1,1,itl),vtemp2(1))
9523 call matmat2(EUg(1,1,i+3),AEAderg(1,1,2),auxmatd(1,1))
9524 call matvec2(auxmatd(1,1),Ub2(1,i+4),vtemp3d(1))
9525 s12d = scalar2(Ub2(1,i+2),vtemp3d(1))
9531 gel_loc_turn6(i)=gel_loc_turn6(i)-0.5d0*ekont*(s1d+s8d+s12d)
9532 C Derivatives in gamma(i+3)
9534 call transpose2(AEA(1,1,1),auxmatd(1,1))
9535 call matmat2(EUg(1,1,i+1),auxmatd(1,1),auxmatd(1,1))
9536 ss1d=scalar2(Ub2der(1,i+2),b1(1,itl))
9537 s1d = (auxmatd(1,1)+auxmatd(2,2))*ss1d
9539 call matvec2(EUgder(1,1,i+2),b1(1,itl),vtemp1d(1))
9540 call matvec2(AEA(1,1,1),vtemp1d(1),vtemp1d(1))
9541 s2d = scalar2(b1(1,itk),vtemp1d(1))
9543 call matvec2(Ug2der(1,1,i+2),dd(1,1,itk1),vtemp2d(1))
9544 s8d = -(atemp(1,1)+atemp(2,2))*scalar2(cc(1,1,itl),vtemp2d(1))
9546 s12d = scalar2(Ub2der(1,i+2),vtemp3(1))
9548 call matmat2(achuj_temp(1,1),EUgder(1,1,i+2),gtempd(1,1))
9549 call matmat2(gtempd(1,1),EUg(1,1,i+3),gtempd(1,1))
9550 s13d = (gtempd(1,1)+gtempd(2,2))*ss13
9558 gel_loc_turn6(i+1)=gel_loc_turn6(i+1)
9559 & -0.5d0*ekont*(s1d+s2d+s8d+s12d+s13d)
9561 gel_loc_turn6(i+1)=gel_loc_turn6(i+1)
9562 & -0.5d0*ekont*(s2d+s12d)
9564 C Derivatives in gamma(i+4)
9565 call matmat2(EUgder(1,1,i+3),AEA(1,1,2),auxmatd(1,1))
9566 call matvec2(auxmatd(1,1),Ub2(1,i+4),vtemp3d(1))
9567 s12d = scalar2(Ub2(1,i+2),vtemp3d(1))
9569 call matmat2(achuj_temp(1,1),EUg(1,1,i+2),gtempd(1,1))
9570 call matmat2(gtempd(1,1),EUgder(1,1,i+3),gtempd(1,1))
9571 s13d = (gtempd(1,1)+gtempd(2,2))*ss13
9579 gel_loc_turn6(i+2)=gel_loc_turn6(i+2)-0.5d0*ekont*(s12d+s13d)
9581 gel_loc_turn6(i+2)=gel_loc_turn6(i+2)-0.5d0*ekont*(s12d)
9583 C Derivatives in gamma(i+5)
9585 call transpose2(AEAderg(1,1,1),auxmatd(1,1))
9586 call matmat2(EUg(1,1,i+1),auxmatd(1,1),auxmatd(1,1))
9587 s1d = (auxmatd(1,1)+auxmatd(2,2))*ss1
9589 call matvec2(EUg(1,1,i+2),b1(1,itl),vtemp1d(1))
9590 call matvec2(AEAderg(1,1,1),vtemp1d(1),vtemp1d(1))
9591 s2d = scalar2(b1(1,itk),vtemp1d(1))
9593 call transpose2(AEA(1,1,2),atempd(1,1))
9594 call matmat2(atempd(1,1),EUgder(1,1,i+4),atempd(1,1))
9595 s8d = -(atempd(1,1)+atempd(2,2))*scalar2(cc(1,1,itl),vtemp2(1))
9597 call matvec2(auxmat(1,1),Ub2der(1,i+4),vtemp3d(1))
9598 s12d = scalar2(Ub2(1,i+2),vtemp3d(1))
9600 call matvec2(a_chuj(1,1,jj,i),Ub2der(1,i+4),vtemp4d(1))
9601 ss13d = scalar2(b1(1,itk),vtemp4d(1))
9602 s13d = (gtemp(1,1)+gtemp(2,2))*ss13d
9610 gel_loc_turn6(i+3)=gel_loc_turn6(i+3)
9611 & -0.5d0*ekont*(s1d+s2d+s8d+s12d+s13d)
9613 gel_loc_turn6(i+3)=gel_loc_turn6(i+3)
9614 & -0.5d0*ekont*(s2d+s12d)
9616 C Cartesian derivatives
9621 call transpose2(AEAderx(1,1,lll,kkk,iii,1),auxmatd(1,1))
9622 call matmat2(EUg(1,1,i+1),auxmatd(1,1),auxmatd(1,1))
9623 s1d = (auxmatd(1,1)+auxmatd(2,2))*ss1
9625 call matvec2(EUg(1,1,i+2),b1(1,itl),vtemp1(1))
9626 call matvec2(AEAderx(1,1,lll,kkk,iii,1),vtemp1(1),
9628 s2d = scalar2(b1(1,itk),vtemp1d(1))
9630 call transpose2(AEAderx(1,1,lll,kkk,iii,2),atempd(1,1))
9631 call matmat2(atempd(1,1),EUg(1,1,i+4),atempd(1,1))
9632 s8d = -(atempd(1,1)+atempd(2,2))*
9633 & scalar2(cc(1,1,itl),vtemp2(1))
9635 call matmat2(EUg(1,1,i+3),AEAderx(1,1,lll,kkk,iii,2),
9637 call matvec2(auxmatd(1,1),Ub2(1,i+4),vtemp3d(1))
9638 s12d = scalar2(Ub2(1,i+2),vtemp3d(1))
9645 derx_turn(lll,kkk,iii) = derx_turn(lll,kkk,iii)
9648 derx_turn(lll,kkk,iii) = derx_turn(lll,kkk,iii)
9652 derx_turn(lll,kkk,3-iii) = derx_turn(lll,kkk,3-iii)
9653 & - 0.5d0*(s8d+s12d)
9655 derx_turn(lll,kkk,3-iii) = derx_turn(lll,kkk,3-iii)
9664 call transpose2(a_chuj_der(1,1,lll,kkk,kk,i+1),
9666 call matmat2(achuj_tempd(1,1),EUg(1,1,i+2),gtempd(1,1))
9667 call matmat2(gtempd(1,1),EUg(1,1,i+3),gtempd(1,1))
9668 s13d=(gtempd(1,1)+gtempd(2,2))*ss13
9669 derx_turn(lll,kkk,2) = derx_turn(lll,kkk,2)-0.5d0*s13d
9670 call matvec2(a_chuj_der(1,1,lll,kkk,jj,i),Ub2(1,i+4),
9672 ss13d = scalar2(b1(1,itk),vtemp4d(1))
9673 s13d = (gtemp(1,1)+gtemp(2,2))*ss13d
9674 derx_turn(lll,kkk,1) = derx_turn(lll,kkk,1)-0.5d0*s13d
9678 cd write(iout,*) 'eel6_turn6',eel_turn6,' eel_turn6_num',
9679 cd & 16*eel_turn6_num
9681 if (j.lt.nres-1) then
9688 if (l.lt.nres-1) then
9696 cgrad ggg1(ll)=eel_turn6*g_contij(ll,1)
9697 cgrad ggg2(ll)=eel_turn6*g_contij(ll,2)
9698 cgrad ghalf=0.5d0*ggg1(ll)
9700 gturn6ij=eel_turn6*g_contij(ll,1)+ekont*derx_turn(ll,1,1)
9701 gturn6kl=eel_turn6*g_contij(ll,2)+ekont*derx_turn(ll,1,2)
9702 gcorr6_turn(ll,i)=gcorr6_turn(ll,i)!+ghalf
9703 & +ekont*derx_turn(ll,2,1)
9704 gcorr6_turn(ll,i+1)=gcorr6_turn(ll,i+1)+ekont*derx_turn(ll,3,1)
9705 gcorr6_turn(ll,j)=gcorr6_turn(ll,j)!+ghalf
9706 & +ekont*derx_turn(ll,4,1)
9707 gcorr6_turn(ll,j1)=gcorr6_turn(ll,j1)+ekont*derx_turn(ll,5,1)
9708 gcorr6_turn_long(ll,j)=gcorr6_turn_long(ll,j)+gturn6ij
9709 gcorr6_turn_long(ll,i)=gcorr6_turn_long(ll,i)-gturn6ij
9710 cgrad ghalf=0.5d0*ggg2(ll)
9712 gcorr6_turn(ll,k)=gcorr6_turn(ll,k)!+ghalf
9713 & +ekont*derx_turn(ll,2,2)
9714 gcorr6_turn(ll,k+1)=gcorr6_turn(ll,k+1)+ekont*derx_turn(ll,3,2)
9715 gcorr6_turn(ll,l)=gcorr6_turn(ll,l)!+ghalf
9716 & +ekont*derx_turn(ll,4,2)
9717 gcorr6_turn(ll,l1)=gcorr6_turn(ll,l1)+ekont*derx_turn(ll,5,2)
9718 gcorr6_turn_long(ll,l)=gcorr6_turn_long(ll,l)+gturn6kl
9719 gcorr6_turn_long(ll,k)=gcorr6_turn_long(ll,k)-gturn6kl
9724 cgrad gcorr6_turn(ll,m)=gcorr6_turn(ll,m)+ggg1(ll)
9729 cgrad gcorr6_turn(ll,m)=gcorr6_turn(ll,m)+ggg2(ll)
9735 cgrad gcorr6_turn(ll,m)=gcorr6_turn(ll,m)+ekont*derx_turn(ll,1,1)
9740 cgrad gcorr6_turn(ll,m)=gcorr6_turn(ll,m)+ekont*derx_turn(ll,1,2)
9744 cd write (2,*) iii,g_corr6_loc(iii)
9746 eello_turn6=ekont*eel_turn6
9747 cd write (2,*) 'ekont',ekont
9748 cd write (2,*) 'eel_turn6',ekont*eel_turn6
9752 C-----------------------------------------------------------------------------
9753 double precision function scalar(u,v)
9754 !DIR$ INLINEALWAYS scalar
9756 cDEC$ ATTRIBUTES FORCEINLINE::scalar
9759 double precision u(3),v(3)
9760 cd double precision sc
9768 scalar=u(1)*v(1)+u(2)*v(2)+u(3)*v(3)
9771 crc-------------------------------------------------
9772 SUBROUTINE MATVEC2(A1,V1,V2)
9773 !DIR$ INLINEALWAYS MATVEC2
9775 cDEC$ ATTRIBUTES FORCEINLINE::MATVEC2
9777 implicit real*8 (a-h,o-z)
9778 include 'DIMENSIONS'
9779 DIMENSION A1(2,2),V1(2),V2(2)
9783 c 3 VI=VI+A1(I,K)*V1(K)
9787 vaux1=a1(1,1)*v1(1)+a1(1,2)*v1(2)
9788 vaux2=a1(2,1)*v1(1)+a1(2,2)*v1(2)
9793 C---------------------------------------
9794 SUBROUTINE MATMAT2(A1,A2,A3)
9796 cDEC$ ATTRIBUTES FORCEINLINE::MATMAT2
9798 implicit real*8 (a-h,o-z)
9799 include 'DIMENSIONS'
9800 DIMENSION A1(2,2),A2(2,2),A3(2,2)
9801 c DIMENSION AI3(2,2)
9805 c A3IJ=A3IJ+A1(I,K)*A2(K,J)
9811 ai3_11=a1(1,1)*a2(1,1)+a1(1,2)*a2(2,1)
9812 ai3_12=a1(1,1)*a2(1,2)+a1(1,2)*a2(2,2)
9813 ai3_21=a1(2,1)*a2(1,1)+a1(2,2)*a2(2,1)
9814 ai3_22=a1(2,1)*a2(1,2)+a1(2,2)*a2(2,2)
9822 c-------------------------------------------------------------------------
9823 double precision function scalar2(u,v)
9824 !DIR$ INLINEALWAYS scalar2
9826 double precision u(2),v(2)
9829 scalar2=u(1)*v(1)+u(2)*v(2)
9833 C-----------------------------------------------------------------------------
9835 subroutine transpose2(a,at)
9836 !DIR$ INLINEALWAYS transpose2
9838 cDEC$ ATTRIBUTES FORCEINLINE::transpose2
9841 double precision a(2,2),at(2,2)
9848 c--------------------------------------------------------------------------
9849 subroutine transpose(n,a,at)
9852 double precision a(n,n),at(n,n)
9860 C---------------------------------------------------------------------------
9861 subroutine prodmat3(a1,a2,kk,transp,prod)
9862 !DIR$ INLINEALWAYS prodmat3
9864 cDEC$ ATTRIBUTES FORCEINLINE::prodmat3
9868 double precision a1(2,2),a2(2,2),a2t(2,2),kk(2,2),prod(2,2)
9870 crc double precision auxmat(2,2),prod_(2,2)
9873 crc call transpose2(kk(1,1),auxmat(1,1))
9874 crc call matmat2(a1(1,1),auxmat(1,1),auxmat(1,1))
9875 crc call matmat2(auxmat(1,1),a2(1,1),prod_(1,1))
9877 prod(1,1)=(a1(1,1)*kk(1,1)+a1(1,2)*kk(1,2))*a2(1,1)
9878 & +(a1(1,1)*kk(2,1)+a1(1,2)*kk(2,2))*a2(2,1)
9879 prod(1,2)=(a1(1,1)*kk(1,1)+a1(1,2)*kk(1,2))*a2(1,2)
9880 & +(a1(1,1)*kk(2,1)+a1(1,2)*kk(2,2))*a2(2,2)
9881 prod(2,1)=(a1(2,1)*kk(1,1)+a1(2,2)*kk(1,2))*a2(1,1)
9882 & +(a1(2,1)*kk(2,1)+a1(2,2)*kk(2,2))*a2(2,1)
9883 prod(2,2)=(a1(2,1)*kk(1,1)+a1(2,2)*kk(1,2))*a2(1,2)
9884 & +(a1(2,1)*kk(2,1)+a1(2,2)*kk(2,2))*a2(2,2)
9887 crc call matmat2(a1(1,1),kk(1,1),auxmat(1,1))
9888 crc call matmat2(auxmat(1,1),a2(1,1),prod_(1,1))
9890 prod(1,1)=(a1(1,1)*kk(1,1)+a1(1,2)*kk(2,1))*a2(1,1)
9891 & +(a1(1,1)*kk(1,2)+a1(1,2)*kk(2,2))*a2(2,1)
9892 prod(1,2)=(a1(1,1)*kk(1,1)+a1(1,2)*kk(2,1))*a2(1,2)
9893 & +(a1(1,1)*kk(1,2)+a1(1,2)*kk(2,2))*a2(2,2)
9894 prod(2,1)=(a1(2,1)*kk(1,1)+a1(2,2)*kk(2,1))*a2(1,1)
9895 & +(a1(2,1)*kk(1,2)+a1(2,2)*kk(2,2))*a2(2,1)
9896 prod(2,2)=(a1(2,1)*kk(1,1)+a1(2,2)*kk(2,1))*a2(1,2)
9897 & +(a1(2,1)*kk(1,2)+a1(2,2)*kk(2,2))*a2(2,2)
9900 c call transpose2(a2(1,1),a2t(1,1))
9903 crc print *,((prod_(i,j),i=1,2),j=1,2)
9904 crc print *,((prod(i,j),i=1,2),j=1,2)