| 1 | c **************************************************************
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| 2 | c
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| 3 | c This file contains the subroutines: enyshe
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| 4 | c
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| 5 | c Copyright 2003-2005 Frank Eisenmenger, U.H.E. Hansmann,
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| 6 | c Shura Hayryan, Chin-Ku
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| 7 | c Copyright 2007 Frank Eisenmenger, U.H.E. Hansmann,
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| 8 | c Jan H. Meinke, Sandipan Mohanty
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| 9 | c
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| 10 | c **************************************************************
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| 11 |
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| 12 |
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| 13 | real*8 function enyshe(nml)
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| 14 |
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| 15 | c ............................................................................
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| 16 | c
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| 17 | c PURPOSE: Calculate internal energy of molecule 'nml' with ECEPP parameters
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| 18 | c
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| 19 | c CALLS: none
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| 20 | c
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| 21 | c The function loops over all moving sets within the molecule. Within
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| 22 | c this loop it loops over the van-der-Waals domains of each atom in the
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| 23 | c moving set and finally over the atoms that belong to the 1-4 interaction
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| 24 | c set.
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| 25 | c ............................................................................
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| 26 |
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| 27 | include 'INCL.H'
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| 28 | include 'mpif.h'
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| 29 | ! include 'VT.inc'
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| 30 |
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| 31 |
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| 32 | c If nml == 0 calculate the interaction between all pairs.
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| 33 | if (nml.eq.0) then
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| 34 | ntlvr = nvr
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| 35 | else
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| 36 | ntlvr=nvrml(nml)
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| 37 | endif
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| 38 |
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| 39 | if (ntlvr.eq.0) then
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| 40 | write (*,'(a,i4)')
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| 41 | # ' enyshe> No variables defined in molecule #',nml
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| 42 | return
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| 43 | endif
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| 44 |
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| 45 | ! call mpi_comm_size(my_mpi_comm,no,ierr)
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| 46 |
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| 47 | eysmsum = 0.0
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| 48 | enyshe=0.0
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| 49 | teysm = 0.0
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| 50 | teyel=0.0
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| 51 | teyvw=0.0
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| 52 | teyhb=0.0
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| 53 | teyvr=0.0
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| 54 |
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| 55 | if (nml.eq.0) then
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| 56 | ifivr = ivrml1(1)
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| 57 | i1s = imsml1(ntlml) + nmsml(ntlml)
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| 58 | else
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| 59 | c Index of first variable in molecule.
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| 60 | ifivr=ivrml1(nml)
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| 61 | c Index of last moving set in molecule
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| 62 | i1s=imsml1(nml)+nmsml(nml)
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| 63 | endif
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| 64 | c Loop over variables in reverse order
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| 65 | c This is the first loop to parallize. We'll just split the moving sets
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| 66 | c over the number of available processors and sum the energy up in the end.
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| 67 |
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| 68 | c Number of moving sets per processor
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| 69 | iend = ifivr
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| 70 | istart = ifivr + ntlvr - 1
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| 71 |
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| 72 | startwtime = MPI_Wtime()
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| 73 | loopcounter = 0
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| 74 | c do io=ifivr+ntlvr-1,ifivr,-1
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| 75 | do io = workPerProcessor(nml, myrank) - 1,
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| 76 | & workPerProcessor(nml, myrank+1), -1
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| 77 | if (io.lt.istart) then
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| 78 | i1s = imsvr1(iorvr(io + 1))
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| 79 | endif
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| 80 | c The array iorvr contains the variables in an "apropriate" order.
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| 81 | iv=iorvr(io)
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| 82 | c Index of the primary moving atom for the variable with index iv
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| 83 | ia=iatvr(iv)
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| 84 | c Get the type of variable iv (valence length, valence angle, dihedral angle)
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| 85 | it=ityvr(iv)
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| 86 | c Class of variable iv's potential (Q: What are they)
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| 87 | ic=iclvr(iv)
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| 88 | c If iv is a dihedral angle ...
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| 89 | if (it.eq.3) then
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| 90 | c Barrier height * 1/2 of the potential of iv.
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| 91 | e0=e0to(ic)
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| 92 | c Calculate the periodic potential term. sgto is the sign of the barrier, rnto is
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| 93 | c the periodicity and toat is torsion angle(?) associate with atom ia.
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| 94 | if (e0.ne.0.)
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| 95 | # teyvr=teyvr+e0*(1.0+sgto(ic)*cos(toat(ia)*rnto(ic)))
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| 96 | c else if iv is a valence angle ...
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| 97 | elseif (it.eq.2) then
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| 98 | c vr is the valence angle of ia
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| 99 | vr=baat(ia)
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| 100 | c else if iv is a valence length...
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| 101 | elseif (it.eq.1) then
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| 102 | c vr is the length of the valence bond
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| 103 | vr=blat(ia)
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| 104 | endif
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| 105 |
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| 106 | c ============================================ Energies & Atomic forces
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| 107 | c index of next to last moving set
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| 108 | i2s=i1s-1
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| 109 | c index of first moving set associated with iv
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| 110 | i1s=imsvr1(iv)
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| 111 | c Loop over all moving sets starting from the one associated with vr to the end.
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| 112 | do ims=i1s,i2s
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| 113 | c First atom of the current moving set
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| 114 | i1=latms1(ims)
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| 115 | c Last atom of the current moving set
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| 116 | i2=latms2(ims)
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| 117 | c Loop over all atoms of the current moving set.
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| 118 | do i=i1,i2
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| 119 | c Atom class of current atom
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| 120 | ity=ityat(i)
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| 121 | c Point charge at current atom
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| 122 | cqi=conv*cgat(i)
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| 123 | c Cartesian coordinates of current atom
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| 124 | xi=xat(i)
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| 125 | yi=yat(i)
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| 126 | zi=zat(i)
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| 127 | c Loop over the atoms of the van der Waals domain belonging to atom i
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| 128 | do ivw=ivwat1(i),ivwat2(i)
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| 129 | c Loop over the atoms of the van der Waals domain of the atoms of the
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| 130 | c van der Waals domain of atom i
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| 131 | c Q: Which atoms are in these domains?
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| 132 | do j=lvwat1(ivw),lvwat2(ivw)
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| 133 |
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| 134 | loopcounter = loopcounter + 1
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| 135 | c Atom type of partner
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| 136 | jty=ityat(j)
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| 137 | c Differences in cartesian coordinates
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| 138 | xij=xat(j)-xi
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| 139 | yij=yat(j)-yi
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| 140 | zij=zat(j)-zi
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| 141 | c Cartesian distance and higher powers
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| 142 | rij2=xij*xij+yij*yij+zij*zij
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| 143 | rij4=rij2*rij2
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| 144 | rij6=rij4*rij2
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| 145 | rij=sqrt(rij2)
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| 146 | c Are we using a distance dependent dielectric constant?
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| 147 | if(epsd) then
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| 148 | sr=slp*rij
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| 149 | ep=plt-(sr*sr+2.0*sr+2.0)*(plt-1.0)*exp(-sr)/2.0
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| 150 | else
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| 151 | ep = 1.0d0
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| 152 | end if
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| 153 | c Coulomb interaction
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| 154 | teyel=teyel+cqi*cgat(j)/(rij*ep)
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| 155 | c If the two atoms cannot form a hydrogen bond use 6-12 Lennard-Jones potential
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| 156 | if (ihbty(ity,jty).eq.0) then
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| 157 | teyvw=teyvw+aij(ity,jty)/(rij6*rij6)
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| 158 | # -cij(ity,jty)/rij6
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| 159 | else
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| 160 | c For hydrogen bonding use 10-12 Lennard-Jones potential
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| 161 | teyhb=teyhb+ahb(ity,jty)/(rij6*rij6)
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| 162 | # -chb(ity,jty)/(rij6*rij4)
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| 163 | endif
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| 164 |
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| 165 | enddo
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| 166 | enddo
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| 167 |
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| 168 | c Loop over 1-4 interaction partners
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| 169 | c The interactions between atoms that are three bonds apart in the protein are
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| 170 | c dominated by quantum mechanical effects. They are treated separately.
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| 171 | do i14=i14at1(i),i14at2(i)
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| 172 | loopcounter = loopcounter + 1
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| 173 | j=l14at(i14)
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| 174 |
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| 175 | jty=ityat(j)
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| 176 |
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| 177 | xij=xat(j)-xi
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| 178 | yij=yat(j)-yi
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| 179 | zij=zat(j)-zi
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| 180 | rij2=xij*xij+yij*yij+zij*zij
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| 181 | rij4=rij2*rij2
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| 182 | rij6=rij4*rij2
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| 183 | rij = sqrt(rij2)
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| 184 | c Are we using a distance dependent dielectric constant?
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| 185 | if(epsd) then
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| 186 | sr=slp*rij
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| 187 | ep=plt-(sr*sr+2.0*sr+2.0)*(plt-1.0)*exp(-sr)/2.0
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| 188 | else
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| 189 | ep=1.0d0
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| 190 | end if
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| 191 |
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| 192 | teyel=teyel+cqi*cgat(j)/(rij*ep)
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| 193 | c If hydrogen bonding is not possible use 6-12 Lennard-Jones potential.
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| 194 | if (ihbty(ity,jty).eq.0) then
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| 195 | teyvw=teyvw+a14(ity,jty)/(rij6*rij6)
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| 196 | # -cij(ity,jty)/rij6
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| 197 | else
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| 198 | c Use 10-12 Lennard-Jones potential for hydrogen bonds.
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| 199 | teyhb=teyhb+ahb(ity,jty)/(rij6*rij6)
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| 200 | # -chb(ity,jty)/(rij6*rij4)
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| 201 | endif
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| 202 | enddo ! ... 1-4-partners of i
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| 203 | enddo ! ... atoms i
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| 204 | enddo ! ... m.s.
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| 205 | enddo ! ... variables
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| 206 |
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| 207 | teysm = teyel + teyvw + teyhb + teyvr
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| 208 |
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| 209 | endwtime = MPI_Wtime()
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| 210 |
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| 211 | c Collect energies from all nodes and sum them up
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| 212 | call MPI_ALLREDUCE(teysm, eysmsum, 1, MPI_DOUBLE_PRECISION,
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| 213 | & MPI_SUM, my_mpi_comm, ierror)
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| 214 | call MPI_ALLREDUCE(teyel, eyel, 1, MPI_DOUBLE_PRECISION, MPI_SUM,
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| 215 | & my_mpi_comm, ierror)
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| 216 | call MPI_ALLREDUCE(teyvw, eyvw, 1, MPI_DOUBLE_PRECISION, MPI_SUM,
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| 217 | & my_mpi_comm, ierror)
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| 218 | call MPI_ALLREDUCE(teyhb, eyhb, 1, MPI_DOUBLE_PRECISION, MPI_SUM,
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| 219 | & my_mpi_comm, ierror)
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| 220 | call MPI_ALLREDUCE(teyvr, eyvr, 1, MPI_DOUBLE_PRECISION, MPI_SUM,
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| 221 | & my_mpi_comm, ierror)
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| 222 |
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| 223 | enyshe=eysmsum
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| 224 | ! call VTEnd(101, ierr)
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| 225 | return
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| 226 | end
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| 227 |
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