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!! |
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!! Copyright (c) 2005 The University of Notre Dame. All Rights Reserved. |
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!! |
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!! The University of Notre Dame grants you ("Licensee") a |
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!! non-exclusive, royalty free, license to use, modify and |
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!! redistribute this software in source and binary code form, provided |
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!! that the following conditions are met: |
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!! |
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!! 1. Acknowledgement of the program authors must be made in any |
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!! publication of scientific results based in part on use of the |
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!! program. An acceptable form of acknowledgement is citation of |
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!! the article in which the program was described (Matthew |
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!! A. Meineke, Charles F. Vardeman II, Teng Lin, Christopher |
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!! J. Fennell and J. Daniel Gezelter, "OOPSE: An Object-Oriented |
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!! Parallel Simulation Engine for Molecular Dynamics," |
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!! J. Comput. Chem. 26, pp. 252-271 (2005)) |
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!! |
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!! 2. Redistributions of source code must retain the above copyright |
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!! notice, this list of conditions and the following disclaimer. |
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!! |
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!! 3. Redistributions in binary form must reproduce the above copyright |
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!! notice, this list of conditions and the following disclaimer in the |
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!! documentation and/or other materials provided with the |
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!! distribution. |
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!! |
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!! This software is provided "AS IS," without a warranty of any |
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!! kind. All express or implied conditions, representations and |
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!! warranties, including any implied warranty of merchantability, |
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!! fitness for a particular purpose or non-infringement, are hereby |
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!! excluded. The University of Notre Dame and its licensors shall not |
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!! be liable for any damages suffered by licensee as a result of |
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!! using, modifying or distributing the software or its |
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!! derivatives. In no event will the University of Notre Dame or its |
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!! licensors be liable for any lost revenue, profit or data, or for |
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!! direct, indirect, special, consequential, incidental or punitive |
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!! damages, however caused and regardless of the theory of liability, |
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!! arising out of the use of or inability to use software, even if the |
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!! University of Notre Dame has been advised of the possibility of |
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!! such damages. |
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!! |
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|
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!! This Module Calculates forces due to SSD potential and VDW interactions |
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!! [Chandra and Ichiye, J. Chem. Phys. 111, 2701 (1999)]. |
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|
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!! This module contains the Public procedures: |
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|
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|
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!! Corresponds to the force field defined in ssd_FF.cpp |
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!! @author Charles F. Vardeman II |
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!! @author Matthew Meineke |
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!! @author Christopher Fennell |
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!! @author J. Daniel Gezelter |
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!! @version $Id: sticky.F90,v 1.13 2005-05-29 21:16:25 chrisfen Exp $, $Date: 2005-05-29 21:16:25 $, $Name: not supported by cvs2svn $, $Revision: 1.13 $ |
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|
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module sticky |
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|
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use force_globals |
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use definitions |
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use atype_module |
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use vector_class |
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use simulation |
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use status |
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#ifdef IS_MPI |
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use mpiSimulation |
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#endif |
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implicit none |
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|
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PRIVATE |
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|
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public :: newStickyType |
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public :: do_sticky_pair |
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public :: destroyStickyTypes |
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public :: do_sticky_power_pair |
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|
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|
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type :: StickyList |
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integer :: c_ident |
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real( kind = dp ) :: w0 = 0.0_dp |
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real( kind = dp ) :: v0 = 0.0_dp |
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real( kind = dp ) :: v0p = 0.0_dp |
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real( kind = dp ) :: rl = 0.0_dp |
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real( kind = dp ) :: ru = 0.0_dp |
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real( kind = dp ) :: rlp = 0.0_dp |
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real( kind = dp ) :: rup = 0.0_dp |
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real( kind = dp ) :: rbig = 0.0_dp |
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end type StickyList |
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|
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type(StickyList), dimension(:),allocatable :: StickyMap |
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|
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contains |
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|
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subroutine newStickyType(c_ident, w0, v0, v0p, rl, ru, rlp, rup, isError) |
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|
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integer, intent(in) :: c_ident |
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integer, intent(inout) :: isError |
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real( kind = dp ), intent(in) :: w0, v0, v0p |
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real( kind = dp ), intent(in) :: rl, ru |
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real( kind = dp ), intent(in) :: rlp, rup |
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integer :: nATypes, myATID |
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|
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|
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isError = 0 |
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myATID = getFirstMatchingElement(atypes, "c_ident", c_ident) |
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|
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!! Be simple-minded and assume that we need a StickyMap that |
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!! is the same size as the total number of atom types |
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|
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if (.not.allocated(StickyMap)) then |
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|
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nAtypes = getSize(atypes) |
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|
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if (nAtypes == 0) then |
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isError = -1 |
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return |
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end if |
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|
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if (.not. allocated(StickyMap)) then |
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allocate(StickyMap(nAtypes)) |
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endif |
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|
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end if |
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|
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if (myATID .gt. size(StickyMap)) then |
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isError = -1 |
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return |
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endif |
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|
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! set the values for StickyMap for this atom type: |
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|
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StickyMap(myATID)%c_ident = c_ident |
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|
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! we could pass all 5 parameters if we felt like it... |
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|
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StickyMap(myATID)%w0 = w0 |
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StickyMap(myATID)%v0 = v0 |
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StickyMap(myATID)%v0p = v0p |
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StickyMap(myATID)%rl = rl |
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StickyMap(myATID)%ru = ru |
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StickyMap(myATID)%rlp = rlp |
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StickyMap(myATID)%rup = rup |
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|
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if (StickyMap(myATID)%ru .gt. StickyMap(myATID)%rup) then |
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StickyMap(myATID)%rbig = StickyMap(myATID)%ru |
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else |
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StickyMap(myATID)%rbig = StickyMap(myATID)%rup |
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endif |
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|
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return |
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end subroutine newStickyType |
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|
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subroutine do_sticky_pair(atom1, atom2, d, rij, r2, sw, vpair, fpair, & |
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pot, A, f, t, do_pot) |
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|
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!! This routine does only the sticky portion of the SSD potential |
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!! [Chandra and Ichiye, J. Chem. Phys. 111, 2701 (1999)]. |
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!! The Lennard-Jones and dipolar interaction must be handled separately. |
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|
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!! We assume that the rotation matrices have already been calculated |
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!! and placed in the A array. |
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|
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!! i and j are pointers to the two SSD atoms |
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|
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integer, intent(in) :: atom1, atom2 |
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real (kind=dp), intent(inout) :: rij, r2 |
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real (kind=dp), dimension(3), intent(in) :: d |
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real (kind=dp), dimension(3), intent(inout) :: fpair |
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real (kind=dp) :: pot, vpair, sw |
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real (kind=dp), dimension(9,nLocal) :: A |
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real (kind=dp), dimension(3,nLocal) :: f |
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real (kind=dp), dimension(3,nLocal) :: t |
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logical, intent(in) :: do_pot |
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|
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real (kind=dp) :: xi, yi, zi, xj, yj, zj, xi2, yi2, zi2, xj2, yj2, zj2 |
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real (kind=dp) :: r3, r5, r6, s, sp, dsdr, dspdr |
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real (kind=dp) :: wi, wj, w, wip, wjp, wp |
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real (kind=dp) :: dwidx, dwidy, dwidz, dwjdx, dwjdy, dwjdz |
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real (kind=dp) :: dwipdx, dwipdy, dwipdz, dwjpdx, dwjpdy, dwjpdz |
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real (kind=dp) :: dwidux, dwiduy, dwiduz, dwjdux, dwjduy, dwjduz |
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real (kind=dp) :: dwipdux, dwipduy, dwipduz, dwjpdux, dwjpduy, dwjpduz |
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real (kind=dp) :: zif, zis, zjf, zjs, uglyi, uglyj |
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real (kind=dp) :: drdx, drdy, drdz |
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real (kind=dp) :: txi, tyi, tzi, txj, tyj, tzj |
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real (kind=dp) :: fxii, fyii, fzii, fxjj, fyjj, fzjj |
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real (kind=dp) :: fxij, fyij, fzij, fxji, fyji, fzji |
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real (kind=dp) :: fxradial, fyradial, fzradial |
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real (kind=dp) :: rijtest, rjitest |
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real (kind=dp) :: radcomxi, radcomyi, radcomzi |
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real (kind=dp) :: radcomxj, radcomyj, radcomzj |
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integer :: id1, id2 |
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integer :: me1, me2 |
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real (kind=dp) :: w0, v0, v0p, rl, ru, rlp, rup, rbig |
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|
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if (.not.allocated(StickyMap)) then |
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call handleError("sticky", "no StickyMap was present before first call of do_sticky_pair!") |
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return |
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end if |
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|
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#ifdef IS_MPI |
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me1 = atid_Row(atom1) |
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me2 = atid_Col(atom2) |
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#else |
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me1 = atid(atom1) |
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me2 = atid(atom2) |
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#endif |
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|
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if (me1.eq.me2) then |
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w0 = StickyMap(me1)%w0 |
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v0 = StickyMap(me1)%v0 |
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v0p = StickyMap(me1)%v0p |
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rl = StickyMap(me1)%rl |
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ru = StickyMap(me1)%ru |
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rlp = StickyMap(me1)%rlp |
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rup = StickyMap(me1)%rup |
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rbig = StickyMap(me1)%rbig |
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else |
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! This is silly, but if you want 2 sticky types in your |
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! simulation, we'll let you do it with the Lorentz- |
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! Berthelot mixing rules. |
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! (Warning: you'll be SLLLLLLLLLLLLLLLOOOOOOOOOOWWWWWWWWWWW) |
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rl = 0.5_dp * ( StickyMap(me1)%rl + StickyMap(me2)%rl ) |
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ru = 0.5_dp * ( StickyMap(me1)%ru + StickyMap(me2)%ru ) |
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rlp = 0.5_dp * ( StickyMap(me1)%rlp + StickyMap(me2)%rlp ) |
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rup = 0.5_dp * ( StickyMap(me1)%rup + StickyMap(me2)%rup ) |
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rbig = max(ru, rup) |
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w0 = sqrt( StickyMap(me1)%w0 * StickyMap(me2)%w0 ) |
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v0 = sqrt( StickyMap(me1)%v0 * StickyMap(me2)%v0 ) |
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v0p = sqrt( StickyMap(me1)%v0p * StickyMap(me2)%v0p ) |
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endif |
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|
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if ( rij .LE. rbig ) then |
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|
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r3 = r2*rij |
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r5 = r3*r2 |
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|
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drdx = d(1) / rij |
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drdy = d(2) / rij |
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drdz = d(3) / rij |
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|
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#ifdef IS_MPI |
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! rotate the inter-particle separation into the two different |
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! body-fixed coordinate systems: |
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|
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xi = A_row(1,atom1)*d(1) + A_row(2,atom1)*d(2) + A_row(3,atom1)*d(3) |
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yi = A_row(4,atom1)*d(1) + A_row(5,atom1)*d(2) + A_row(6,atom1)*d(3) |
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zi = A_row(7,atom1)*d(1) + A_row(8,atom1)*d(2) + A_row(9,atom1)*d(3) |
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|
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! negative sign because this is the vector from j to i: |
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|
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xj = -(A_Col(1,atom2)*d(1) + A_Col(2,atom2)*d(2) + A_Col(3,atom2)*d(3)) |
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yj = -(A_Col(4,atom2)*d(1) + A_Col(5,atom2)*d(2) + A_Col(6,atom2)*d(3)) |
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zj = -(A_Col(7,atom2)*d(1) + A_Col(8,atom2)*d(2) + A_Col(9,atom2)*d(3)) |
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#else |
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! rotate the inter-particle separation into the two different |
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! body-fixed coordinate systems: |
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|
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xi = a(1,atom1)*d(1) + a(2,atom1)*d(2) + a(3,atom1)*d(3) |
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yi = a(4,atom1)*d(1) + a(5,atom1)*d(2) + a(6,atom1)*d(3) |
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zi = a(7,atom1)*d(1) + a(8,atom1)*d(2) + a(9,atom1)*d(3) |
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|
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! negative sign because this is the vector from j to i: |
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|
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xj = -(a(1,atom2)*d(1) + a(2,atom2)*d(2) + a(3,atom2)*d(3)) |
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yj = -(a(4,atom2)*d(1) + a(5,atom2)*d(2) + a(6,atom2)*d(3)) |
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zj = -(a(7,atom2)*d(1) + a(8,atom2)*d(2) + a(9,atom2)*d(3)) |
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#endif |
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|
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xi2 = xi*xi |
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yi2 = yi*yi |
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zi2 = zi*zi |
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|
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xj2 = xj*xj |
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yj2 = yj*yj |
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zj2 = zj*zj |
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|
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call calc_sw_fnc(rij, rl, ru, rlp, rup, s, sp, dsdr, dspdr) |
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|
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wi = 2.0d0*(xi2-yi2)*zi / r3 |
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wj = 2.0d0*(xj2-yj2)*zj / r3 |
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w = wi+wj |
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|
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zif = zi/rij - 0.6d0 |
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zis = zi/rij + 0.8d0 |
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|
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zjf = zj/rij - 0.6d0 |
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zjs = zj/rij + 0.8d0 |
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|
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wip = zif*zif*zis*zis - w0 |
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wjp = zjf*zjf*zjs*zjs - w0 |
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wp = wip + wjp |
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|
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vpair = vpair + 0.5d0*(v0*s*w + v0p*sp*wp) |
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if (do_pot) then |
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#ifdef IS_MPI |
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pot_row(atom1) = pot_row(atom1) + 0.25d0*(v0*s*w + v0p*sp*wp)*sw |
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pot_col(atom2) = pot_col(atom2) + 0.25d0*(v0*s*w + v0p*sp*wp)*sw |
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#else |
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pot = pot + 0.5d0*(v0*s*w + v0p*sp*wp)*sw |
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#endif |
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endif |
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|
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dwidx = 4.0d0*xi*zi/r3 - 6.0d0*xi*zi*(xi2-yi2)/r5 |
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dwidy = - 4.0d0*yi*zi/r3 - 6.0d0*yi*zi*(xi2-yi2)/r5 |
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dwidz = 2.0d0*(xi2-yi2)/r3 - 6.0d0*zi2*(xi2-yi2)/r5 |
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|
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dwjdx = 4.0d0*xj*zj/r3 - 6.0d0*xj*zj*(xj2-yj2)/r5 |
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dwjdy = - 4.0d0*yj*zj/r3 - 6.0d0*yj*zj*(xj2-yj2)/r5 |
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dwjdz = 2.0d0*(xj2-yj2)/r3 - 6.0d0*zj2*(xj2-yj2)/r5 |
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|
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uglyi = zif*zif*zis + zif*zis*zis |
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uglyj = zjf*zjf*zjs + zjf*zjs*zjs |
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|
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dwipdx = -2.0d0*xi*zi*uglyi/r3 |
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dwipdy = -2.0d0*yi*zi*uglyi/r3 |
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dwipdz = 2.0d0*(1.0d0/rij - zi2/r3)*uglyi |
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|
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dwjpdx = -2.0d0*xj*zj*uglyj/r3 |
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dwjpdy = -2.0d0*yj*zj*uglyj/r3 |
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dwjpdz = 2.0d0*(1.0d0/rij - zj2/r3)*uglyj |
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|
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dwidux = 4.0d0*(yi*zi2 + 0.5d0*yi*(xi2-yi2))/r3 |
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dwiduy = 4.0d0*(xi*zi2 - 0.5d0*xi*(xi2-yi2))/r3 |
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dwiduz = - 8.0d0*xi*yi*zi/r3 |
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|
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dwjdux = 4.0d0*(yj*zj2 + 0.5d0*yj*(xj2-yj2))/r3 |
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dwjduy = 4.0d0*(xj*zj2 - 0.5d0*xj*(xj2-yj2))/r3 |
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dwjduz = - 8.0d0*xj*yj*zj/r3 |
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|
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dwipdux = 2.0d0*yi*uglyi/rij |
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dwipduy = -2.0d0*xi*uglyi/rij |
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dwipduz = 0.0d0 |
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|
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dwjpdux = 2.0d0*yj*uglyj/rij |
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dwjpduy = -2.0d0*xj*uglyj/rij |
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dwjpduz = 0.0d0 |
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|
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! do the torques first since they are easy: |
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! remember that these are still in the body fixed axes |
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|
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txi = 0.5d0*(v0*s*dwidux + v0p*sp*dwipdux)*sw |
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tyi = 0.5d0*(v0*s*dwiduy + v0p*sp*dwipduy)*sw |
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tzi = 0.5d0*(v0*s*dwiduz + v0p*sp*dwipduz)*sw |
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|
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txj = 0.5d0*(v0*s*dwjdux + v0p*sp*dwjpdux)*sw |
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tyj = 0.5d0*(v0*s*dwjduy + v0p*sp*dwjpduy)*sw |
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tzj = 0.5d0*(v0*s*dwjduz + v0p*sp*dwjpduz)*sw |
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|
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! go back to lab frame using transpose of rotation matrix: |
| 348 |
|
| 349 |
#ifdef IS_MPI |
| 350 |
t_Row(1,atom1) = t_Row(1,atom1) + a_Row(1,atom1)*txi + & |
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a_Row(4,atom1)*tyi + a_Row(7,atom1)*tzi |
| 352 |
t_Row(2,atom1) = t_Row(2,atom1) + a_Row(2,atom1)*txi + & |
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a_Row(5,atom1)*tyi + a_Row(8,atom1)*tzi |
| 354 |
t_Row(3,atom1) = t_Row(3,atom1) + a_Row(3,atom1)*txi + & |
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a_Row(6,atom1)*tyi + a_Row(9,atom1)*tzi |
| 356 |
|
| 357 |
t_Col(1,atom2) = t_Col(1,atom2) + a_Col(1,atom2)*txj + & |
| 358 |
a_Col(4,atom2)*tyj + a_Col(7,atom2)*tzj |
| 359 |
t_Col(2,atom2) = t_Col(2,atom2) + a_Col(2,atom2)*txj + & |
| 360 |
a_Col(5,atom2)*tyj + a_Col(8,atom2)*tzj |
| 361 |
t_Col(3,atom2) = t_Col(3,atom2) + a_Col(3,atom2)*txj + & |
| 362 |
a_Col(6,atom2)*tyj + a_Col(9,atom2)*tzj |
| 363 |
#else |
| 364 |
t(1,atom1) = t(1,atom1) + a(1,atom1)*txi + a(4,atom1)*tyi + a(7,atom1)*tzi |
| 365 |
t(2,atom1) = t(2,atom1) + a(2,atom1)*txi + a(5,atom1)*tyi + a(8,atom1)*tzi |
| 366 |
t(3,atom1) = t(3,atom1) + a(3,atom1)*txi + a(6,atom1)*tyi + a(9,atom1)*tzi |
| 367 |
|
| 368 |
t(1,atom2) = t(1,atom2) + a(1,atom2)*txj + a(4,atom2)*tyj + a(7,atom2)*tzj |
| 369 |
t(2,atom2) = t(2,atom2) + a(2,atom2)*txj + a(5,atom2)*tyj + a(8,atom2)*tzj |
| 370 |
t(3,atom2) = t(3,atom2) + a(3,atom2)*txj + a(6,atom2)*tyj + a(9,atom2)*tzj |
| 371 |
#endif |
| 372 |
! Now, on to the forces: |
| 373 |
|
| 374 |
! first rotate the i terms back into the lab frame: |
| 375 |
|
| 376 |
radcomxi = (v0*s*dwidx+v0p*sp*dwipdx)*sw |
| 377 |
radcomyi = (v0*s*dwidy+v0p*sp*dwipdy)*sw |
| 378 |
radcomzi = (v0*s*dwidz+v0p*sp*dwipdz)*sw |
| 379 |
|
| 380 |
radcomxj = (v0*s*dwjdx+v0p*sp*dwjpdx)*sw |
| 381 |
radcomyj = (v0*s*dwjdy+v0p*sp*dwjpdy)*sw |
| 382 |
radcomzj = (v0*s*dwjdz+v0p*sp*dwjpdz)*sw |
| 383 |
|
| 384 |
#ifdef IS_MPI |
| 385 |
fxii = a_Row(1,atom1)*(radcomxi) + & |
| 386 |
a_Row(4,atom1)*(radcomyi) + & |
| 387 |
a_Row(7,atom1)*(radcomzi) |
| 388 |
fyii = a_Row(2,atom1)*(radcomxi) + & |
| 389 |
a_Row(5,atom1)*(radcomyi) + & |
| 390 |
a_Row(8,atom1)*(radcomzi) |
| 391 |
fzii = a_Row(3,atom1)*(radcomxi) + & |
| 392 |
a_Row(6,atom1)*(radcomyi) + & |
| 393 |
a_Row(9,atom1)*(radcomzi) |
| 394 |
|
| 395 |
fxjj = a_Col(1,atom2)*(radcomxj) + & |
| 396 |
a_Col(4,atom2)*(radcomyj) + & |
| 397 |
a_Col(7,atom2)*(radcomzj) |
| 398 |
fyjj = a_Col(2,atom2)*(radcomxj) + & |
| 399 |
a_Col(5,atom2)*(radcomyj) + & |
| 400 |
a_Col(8,atom2)*(radcomzj) |
| 401 |
fzjj = a_Col(3,atom2)*(radcomxj)+ & |
| 402 |
a_Col(6,atom2)*(radcomyj) + & |
| 403 |
a_Col(9,atom2)*(radcomzj) |
| 404 |
#else |
| 405 |
fxii = a(1,atom1)*(radcomxi) + & |
| 406 |
a(4,atom1)*(radcomyi) + & |
| 407 |
a(7,atom1)*(radcomzi) |
| 408 |
fyii = a(2,atom1)*(radcomxi) + & |
| 409 |
a(5,atom1)*(radcomyi) + & |
| 410 |
a(8,atom1)*(radcomzi) |
| 411 |
fzii = a(3,atom1)*(radcomxi) + & |
| 412 |
a(6,atom1)*(radcomyi) + & |
| 413 |
a(9,atom1)*(radcomzi) |
| 414 |
|
| 415 |
fxjj = a(1,atom2)*(radcomxj) + & |
| 416 |
a(4,atom2)*(radcomyj) + & |
| 417 |
a(7,atom2)*(radcomzj) |
| 418 |
fyjj = a(2,atom2)*(radcomxj) + & |
| 419 |
a(5,atom2)*(radcomyj) + & |
| 420 |
a(8,atom2)*(radcomzj) |
| 421 |
fzjj = a(3,atom2)*(radcomxj)+ & |
| 422 |
a(6,atom2)*(radcomyj) + & |
| 423 |
a(9,atom2)*(radcomzj) |
| 424 |
#endif |
| 425 |
|
| 426 |
fxij = -fxii |
| 427 |
fyij = -fyii |
| 428 |
fzij = -fzii |
| 429 |
|
| 430 |
fxji = -fxjj |
| 431 |
fyji = -fyjj |
| 432 |
fzji = -fzjj |
| 433 |
|
| 434 |
! now assemble these with the radial-only terms: |
| 435 |
|
| 436 |
fxradial = 0.5d0*(v0*dsdr*drdx*w + v0p*dspdr*drdx*wp + fxii + fxji) |
| 437 |
fyradial = 0.5d0*(v0*dsdr*drdy*w + v0p*dspdr*drdy*wp + fyii + fyji) |
| 438 |
fzradial = 0.5d0*(v0*dsdr*drdz*w + v0p*dspdr*drdz*wp + fzii + fzji) |
| 439 |
|
| 440 |
#ifdef IS_MPI |
| 441 |
f_Row(1,atom1) = f_Row(1,atom1) + fxradial |
| 442 |
f_Row(2,atom1) = f_Row(2,atom1) + fyradial |
| 443 |
f_Row(3,atom1) = f_Row(3,atom1) + fzradial |
| 444 |
|
| 445 |
f_Col(1,atom2) = f_Col(1,atom2) - fxradial |
| 446 |
f_Col(2,atom2) = f_Col(2,atom2) - fyradial |
| 447 |
f_Col(3,atom2) = f_Col(3,atom2) - fzradial |
| 448 |
#else |
| 449 |
f(1,atom1) = f(1,atom1) + fxradial |
| 450 |
f(2,atom1) = f(2,atom1) + fyradial |
| 451 |
f(3,atom1) = f(3,atom1) + fzradial |
| 452 |
|
| 453 |
f(1,atom2) = f(1,atom2) - fxradial |
| 454 |
f(2,atom2) = f(2,atom2) - fyradial |
| 455 |
f(3,atom2) = f(3,atom2) - fzradial |
| 456 |
#endif |
| 457 |
|
| 458 |
#ifdef IS_MPI |
| 459 |
id1 = AtomRowToGlobal(atom1) |
| 460 |
id2 = AtomColToGlobal(atom2) |
| 461 |
#else |
| 462 |
id1 = atom1 |
| 463 |
id2 = atom2 |
| 464 |
#endif |
| 465 |
|
| 466 |
if (molMembershipList(id1) .ne. molMembershipList(id2)) then |
| 467 |
|
| 468 |
fpair(1) = fpair(1) + fxradial |
| 469 |
fpair(2) = fpair(2) + fyradial |
| 470 |
fpair(3) = fpair(3) + fzradial |
| 471 |
|
| 472 |
endif |
| 473 |
endif |
| 474 |
end subroutine do_sticky_pair |
| 475 |
|
| 476 |
!! calculates the switching functions and their derivatives for a given |
| 477 |
subroutine calc_sw_fnc(r, rl, ru, rlp, rup, s, sp, dsdr, dspdr) |
| 478 |
|
| 479 |
real (kind=dp), intent(in) :: r, rl, ru, rlp, rup |
| 480 |
real (kind=dp), intent(inout) :: s, sp, dsdr, dspdr |
| 481 |
|
| 482 |
! distances must be in angstroms |
| 483 |
|
| 484 |
if (r.lt.rl) then |
| 485 |
s = 1.0d0 |
| 486 |
dsdr = 0.0d0 |
| 487 |
elseif (r.gt.ru) then |
| 488 |
s = 0.0d0 |
| 489 |
dsdr = 0.0d0 |
| 490 |
else |
| 491 |
s = ((ru + 2.0d0*r - 3.0d0*rl) * (ru-r)**2) / & |
| 492 |
((ru - rl)**3) |
| 493 |
dsdr = 6.0d0*(r-ru)*(r-rl)/((ru - rl)**3) |
| 494 |
endif |
| 495 |
|
| 496 |
if (r.lt.rlp) then |
| 497 |
sp = 1.0d0 |
| 498 |
dspdr = 0.0d0 |
| 499 |
elseif (r.gt.rup) then |
| 500 |
sp = 0.0d0 |
| 501 |
dspdr = 0.0d0 |
| 502 |
else |
| 503 |
sp = ((rup + 2.0d0*r - 3.0d0*rlp) * (rup-r)**2) / & |
| 504 |
((rup - rlp)**3) |
| 505 |
dspdr = 6.0d0*(r-rup)*(r-rlp)/((rup - rlp)**3) |
| 506 |
endif |
| 507 |
|
| 508 |
return |
| 509 |
end subroutine calc_sw_fnc |
| 510 |
|
| 511 |
subroutine destroyStickyTypes() |
| 512 |
if(allocated(StickyMap)) deallocate(StickyMap) |
| 513 |
end subroutine destroyStickyTypes |
| 514 |
|
| 515 |
subroutine do_sticky_power_pair(atom1, atom2, d, rij, r2, sw, vpair, fpair, & |
| 516 |
pot, A, f, t, do_pot) |
| 517 |
!! We assume that the rotation matrices have already been calculated |
| 518 |
!! and placed in the A array. |
| 519 |
|
| 520 |
!! i and j are pointers to the two SSD atoms |
| 521 |
|
| 522 |
integer, intent(in) :: atom1, atom2 |
| 523 |
real (kind=dp), intent(inout) :: rij, r2 |
| 524 |
real (kind=dp), dimension(3), intent(in) :: d |
| 525 |
real (kind=dp), dimension(3), intent(inout) :: fpair |
| 526 |
real (kind=dp) :: pot, vpair, sw |
| 527 |
real (kind=dp), dimension(9,nLocal) :: A |
| 528 |
real (kind=dp), dimension(3,nLocal) :: f |
| 529 |
real (kind=dp), dimension(3,nLocal) :: t |
| 530 |
logical, intent(in) :: do_pot |
| 531 |
|
| 532 |
real (kind=dp) :: xi, yi, zi, xj, yj, zj, xi2, yi2, zi2, xj2, yj2, zj2 |
| 533 |
real (kind=dp) :: xihat, yihat, zihat, xjhat, yjhat, zjhat |
| 534 |
real (kind=dp) :: rI, rI2, rI3, rI4, rI5, rI6, rI7, s, sp, dsdr, dspdr |
| 535 |
real (kind=dp) :: wi, wj, w, wi2, wj2, eScale, v0scale |
| 536 |
real (kind=dp) :: dwidx, dwidy, dwidz, dwjdx, dwjdy, dwjdz |
| 537 |
real (kind=dp) :: dwidux, dwiduy, dwiduz, dwjdux, dwjduy, dwjduz |
| 538 |
real (kind=dp) :: drdx, drdy, drdz |
| 539 |
real (kind=dp) :: txi, tyi, tzi, txj, tyj, tzj |
| 540 |
real (kind=dp) :: fxii, fyii, fzii, fxjj, fyjj, fzjj |
| 541 |
real (kind=dp) :: fxij, fyij, fzij, fxji, fyji, fzji |
| 542 |
real (kind=dp) :: fxradial, fyradial, fzradial |
| 543 |
real (kind=dp) :: rijtest, rjitest |
| 544 |
real (kind=dp) :: radcomxi, radcomyi, radcomzi |
| 545 |
real (kind=dp) :: radcomxj, radcomyj, radcomzj |
| 546 |
integer :: id1, id2 |
| 547 |
integer :: me1, me2 |
| 548 |
real (kind=dp) :: w0, v0, v0p, rl, ru, rlp, rup, rbig |
| 549 |
real (kind=dp) :: zi3, zi4, zi5, zj3, zj4, zj5 |
| 550 |
real (kind=dp) :: frac1, frac2 |
| 551 |
|
| 552 |
if (.not.allocated(StickyMap)) then |
| 553 |
call handleError("sticky", "no StickyMap was present before first call of do_sticky_power_pair!") |
| 554 |
return |
| 555 |
end if |
| 556 |
|
| 557 |
#ifdef IS_MPI |
| 558 |
me1 = atid_Row(atom1) |
| 559 |
me2 = atid_Col(atom2) |
| 560 |
#else |
| 561 |
me1 = atid(atom1) |
| 562 |
me2 = atid(atom2) |
| 563 |
#endif |
| 564 |
|
| 565 |
if (me1.eq.me2) then |
| 566 |
w0 = StickyMap(me1)%w0 |
| 567 |
v0 = StickyMap(me1)%v0 |
| 568 |
v0p = StickyMap(me1)%v0p |
| 569 |
rl = StickyMap(me1)%rl |
| 570 |
ru = StickyMap(me1)%ru |
| 571 |
rlp = StickyMap(me1)%rlp |
| 572 |
rup = StickyMap(me1)%rup |
| 573 |
rbig = StickyMap(me1)%rbig |
| 574 |
else |
| 575 |
! This is silly, but if you want 2 sticky types in your |
| 576 |
! simulation, we'll let you do it with the Lorentz- |
| 577 |
! Berthelot mixing rules. |
| 578 |
! (Warning: you'll be SLLLLLLLLLLLLLLLOOOOOOOOOOWWWWWWWWWWW) |
| 579 |
rl = 0.5_dp * ( StickyMap(me1)%rl + StickyMap(me2)%rl ) |
| 580 |
ru = 0.5_dp * ( StickyMap(me1)%ru + StickyMap(me2)%ru ) |
| 581 |
rlp = 0.5_dp * ( StickyMap(me1)%rlp + StickyMap(me2)%rlp ) |
| 582 |
rup = 0.5_dp * ( StickyMap(me1)%rup + StickyMap(me2)%rup ) |
| 583 |
rbig = max(ru, rup) |
| 584 |
w0 = sqrt( StickyMap(me1)%w0 * StickyMap(me2)%w0 ) |
| 585 |
v0 = sqrt( StickyMap(me1)%v0 * StickyMap(me2)%v0 ) |
| 586 |
v0p = sqrt( StickyMap(me1)%v0p * StickyMap(me2)%v0p ) |
| 587 |
endif |
| 588 |
|
| 589 |
if ( rij .LE. rbig ) then |
| 590 |
|
| 591 |
rI = 1.0d0/rij |
| 592 |
rI2 = rI*rI |
| 593 |
rI3 = rI2*rI |
| 594 |
rI4 = rI2*rI2 |
| 595 |
rI5 = rI3*rI2 |
| 596 |
rI6 = rI3*rI3 |
| 597 |
rI7 = rI4*rI3 |
| 598 |
|
| 599 |
drdx = d(1) * rI |
| 600 |
drdy = d(2) * rI |
| 601 |
drdz = d(3) * rI |
| 602 |
|
| 603 |
#ifdef IS_MPI |
| 604 |
! rotate the inter-particle separation into the two different |
| 605 |
! body-fixed coordinate systems: |
| 606 |
|
| 607 |
xi = A_row(1,atom1)*d(1) + A_row(2,atom1)*d(2) + A_row(3,atom1)*d(3) |
| 608 |
yi = A_row(4,atom1)*d(1) + A_row(5,atom1)*d(2) + A_row(6,atom1)*d(3) |
| 609 |
zi = A_row(7,atom1)*d(1) + A_row(8,atom1)*d(2) + A_row(9,atom1)*d(3) |
| 610 |
|
| 611 |
! negative sign because this is the vector from j to i: |
| 612 |
|
| 613 |
xj = -(A_Col(1,atom2)*d(1) + A_Col(2,atom2)*d(2) + A_Col(3,atom2)*d(3)) |
| 614 |
yj = -(A_Col(4,atom2)*d(1) + A_Col(5,atom2)*d(2) + A_Col(6,atom2)*d(3)) |
| 615 |
zj = -(A_Col(7,atom2)*d(1) + A_Col(8,atom2)*d(2) + A_Col(9,atom2)*d(3)) |
| 616 |
#else |
| 617 |
! rotate the inter-particle separation into the two different |
| 618 |
! body-fixed coordinate systems: |
| 619 |
|
| 620 |
xi = a(1,atom1)*d(1) + a(2,atom1)*d(2) + a(3,atom1)*d(3) |
| 621 |
yi = a(4,atom1)*d(1) + a(5,atom1)*d(2) + a(6,atom1)*d(3) |
| 622 |
zi = a(7,atom1)*d(1) + a(8,atom1)*d(2) + a(9,atom1)*d(3) |
| 623 |
|
| 624 |
! negative sign because this is the vector from j to i: |
| 625 |
|
| 626 |
xj = -(a(1,atom2)*d(1) + a(2,atom2)*d(2) + a(3,atom2)*d(3)) |
| 627 |
yj = -(a(4,atom2)*d(1) + a(5,atom2)*d(2) + a(6,atom2)*d(3)) |
| 628 |
zj = -(a(7,atom2)*d(1) + a(8,atom2)*d(2) + a(9,atom2)*d(3)) |
| 629 |
#endif |
| 630 |
|
| 631 |
xi2 = xi*xi |
| 632 |
yi2 = yi*yi |
| 633 |
zi2 = zi*zi |
| 634 |
zi3 = zi2*zi |
| 635 |
zi4 = zi2*zi2 |
| 636 |
zi5 = zi3*zi2 |
| 637 |
xihat = xi*rI |
| 638 |
yihat = yi*rI |
| 639 |
zihat = zi*rI |
| 640 |
|
| 641 |
xj2 = xj*xj |
| 642 |
yj2 = yj*yj |
| 643 |
zj2 = zj*zj |
| 644 |
zj3 = zj2*zj |
| 645 |
zj4 = zj2*zj2 |
| 646 |
zj5 = zj3*zj2 |
| 647 |
xjhat = xj*rI |
| 648 |
yjhat = yj*rI |
| 649 |
zjhat = zj*rI |
| 650 |
|
| 651 |
call calc_sw_fnc(rij, rl, ru, rlp, rup, s, sp, dsdr, dspdr) |
| 652 |
|
| 653 |
frac1 = 0.25d0 |
| 654 |
frac2 = 0.75d0 |
| 655 |
|
| 656 |
wi = 2.0d0*(xi2-yi2)*zi*rI3 |
| 657 |
wj = 2.0d0*(xj2-yj2)*zj*rI3 |
| 658 |
|
| 659 |
wi2 = wi*wi |
| 660 |
wj2 = wj*wj |
| 661 |
|
| 662 |
w = frac1*wi*wi2 + frac2*wi + frac1*wj*wj2 + frac2*wj + v0p |
| 663 |
|
| 664 |
vpair = vpair + 0.5d0*(v0*s*w) |
| 665 |
|
| 666 |
if (do_pot) then |
| 667 |
#ifdef IS_MPI |
| 668 |
pot_row(atom1) = pot_row(atom1) + 0.25d0*(v0*s*w)*sw |
| 669 |
pot_col(atom2) = pot_col(atom2) + 0.25d0*(v0*s*w)*sw |
| 670 |
#else |
| 671 |
pot = pot + 0.5d0*(v0*s*w)*sw |
| 672 |
#endif |
| 673 |
endif |
| 674 |
|
| 675 |
dwidx = ( 4.0d0*xi*zi*rI3 - 6.0d0*xi*zi*(xi2-yi2)*rI5 ) |
| 676 |
dwidy = ( -4.0d0*yi*zi*rI3 - 6.0d0*yi*zi*(xi2-yi2)*rI5 ) |
| 677 |
dwidz = ( 2.0d0*(xi2-yi2)*rI3 - 6.0d0*zi2*(xi2-yi2)*rI5 ) |
| 678 |
|
| 679 |
dwidx = frac1*3.0d0*wi2*dwidx + frac2*dwidx |
| 680 |
dwidy = frac1*3.0d0*wi2*dwidy + frac2*dwidy |
| 681 |
dwidz = frac1*3.0d0*wi2*dwidz + frac2*dwidz |
| 682 |
|
| 683 |
dwjdx = ( 4.0d0*xj*zj*rI3 - 6.0d0*xj*zj*(xj2-yj2)*rI5 ) |
| 684 |
dwjdy = ( -4.0d0*yj*zj*rI3 - 6.0d0*yj*zj*(xj2-yj2)*rI5 ) |
| 685 |
dwjdz = ( 2.0d0*(xj2-yj2)*rI3 - 6.0d0*zj2*(xj2-yj2)*rI5 ) |
| 686 |
|
| 687 |
dwjdx = frac1*3.0d0*wj2*dwjdx + frac2*dwjdx |
| 688 |
dwjdy = frac1*3.0d0*wj2*dwjdy + frac2*dwjdy |
| 689 |
dwjdz = frac1*3.0d0*wj2*dwjdz + frac2*dwjdz |
| 690 |
|
| 691 |
dwidux = ( 4.0d0*(yi*zi2 + 0.5d0*yi*(xi2-yi2))*rI3 ) |
| 692 |
dwiduy = ( 4.0d0*(xi*zi2 - 0.5d0*xi*(xi2-yi2))*rI3 ) |
| 693 |
dwiduz = ( -8.0d0*xi*yi*zi*rI3 ) |
| 694 |
|
| 695 |
dwidux = frac1*3.0d0*wi2*dwidux + frac2*dwidux |
| 696 |
dwiduy = frac1*3.0d0*wi2*dwiduy + frac2*dwiduy |
| 697 |
dwiduz = frac1*3.0d0*wi2*dwiduz + frac2*dwiduz |
| 698 |
|
| 699 |
dwjdux = ( 4.0d0*(yj*zj2 + 0.5d0*yj*(xj2-yj2))*rI3 ) |
| 700 |
dwjduy = ( 4.0d0*(xj*zj2 - 0.5d0*xj*(xj2-yj2))*rI3 ) |
| 701 |
dwjduz = ( -8.0d0*xj*yj*zj*rI3 ) |
| 702 |
|
| 703 |
dwjdux = frac1*3.0d0*wj2*dwjdux + frac2*dwjdux |
| 704 |
dwjduy = frac1*3.0d0*wj2*dwjduy + frac2*dwjduy |
| 705 |
dwjduz = frac1*3.0d0*wj2*dwjduz + frac2*dwjduz |
| 706 |
|
| 707 |
! do the torques first since they are easy: |
| 708 |
! remember that these are still in the body fixed axes |
| 709 |
|
| 710 |
txi = 0.5d0*(v0*s*dwidux)*sw |
| 711 |
tyi = 0.5d0*(v0*s*dwiduy)*sw |
| 712 |
tzi = 0.5d0*(v0*s*dwiduz)*sw |
| 713 |
|
| 714 |
txj = 0.5d0*(v0*s*dwjdux)*sw |
| 715 |
tyj = 0.5d0*(v0*s*dwjduy)*sw |
| 716 |
tzj = 0.5d0*(v0*s*dwjduz)*sw |
| 717 |
|
| 718 |
! go back to lab frame using transpose of rotation matrix: |
| 719 |
|
| 720 |
#ifdef IS_MPI |
| 721 |
t_Row(1,atom1) = t_Row(1,atom1) + a_Row(1,atom1)*txi + & |
| 722 |
a_Row(4,atom1)*tyi + a_Row(7,atom1)*tzi |
| 723 |
t_Row(2,atom1) = t_Row(2,atom1) + a_Row(2,atom1)*txi + & |
| 724 |
a_Row(5,atom1)*tyi + a_Row(8,atom1)*tzi |
| 725 |
t_Row(3,atom1) = t_Row(3,atom1) + a_Row(3,atom1)*txi + & |
| 726 |
a_Row(6,atom1)*tyi + a_Row(9,atom1)*tzi |
| 727 |
|
| 728 |
t_Col(1,atom2) = t_Col(1,atom2) + a_Col(1,atom2)*txj + & |
| 729 |
a_Col(4,atom2)*tyj + a_Col(7,atom2)*tzj |
| 730 |
t_Col(2,atom2) = t_Col(2,atom2) + a_Col(2,atom2)*txj + & |
| 731 |
a_Col(5,atom2)*tyj + a_Col(8,atom2)*tzj |
| 732 |
t_Col(3,atom2) = t_Col(3,atom2) + a_Col(3,atom2)*txj + & |
| 733 |
a_Col(6,atom2)*tyj + a_Col(9,atom2)*tzj |
| 734 |
#else |
| 735 |
t(1,atom1) = t(1,atom1) + a(1,atom1)*txi + a(4,atom1)*tyi + a(7,atom1)*tzi |
| 736 |
t(2,atom1) = t(2,atom1) + a(2,atom1)*txi + a(5,atom1)*tyi + a(8,atom1)*tzi |
| 737 |
t(3,atom1) = t(3,atom1) + a(3,atom1)*txi + a(6,atom1)*tyi + a(9,atom1)*tzi |
| 738 |
|
| 739 |
t(1,atom2) = t(1,atom2) + a(1,atom2)*txj + a(4,atom2)*tyj + a(7,atom2)*tzj |
| 740 |
t(2,atom2) = t(2,atom2) + a(2,atom2)*txj + a(5,atom2)*tyj + a(8,atom2)*tzj |
| 741 |
t(3,atom2) = t(3,atom2) + a(3,atom2)*txj + a(6,atom2)*tyj + a(9,atom2)*tzj |
| 742 |
#endif |
| 743 |
! Now, on to the forces: |
| 744 |
|
| 745 |
! first rotate the i terms back into the lab frame: |
| 746 |
|
| 747 |
radcomxi = (v0*s*dwidx)*sw |
| 748 |
radcomyi = (v0*s*dwidy)*sw |
| 749 |
radcomzi = (v0*s*dwidz)*sw |
| 750 |
|
| 751 |
radcomxj = (v0*s*dwjdx)*sw |
| 752 |
radcomyj = (v0*s*dwjdy)*sw |
| 753 |
radcomzj = (v0*s*dwjdz)*sw |
| 754 |
|
| 755 |
#ifdef IS_MPI |
| 756 |
fxii = a_Row(1,atom1)*(radcomxi) + & |
| 757 |
a_Row(4,atom1)*(radcomyi) + & |
| 758 |
a_Row(7,atom1)*(radcomzi) |
| 759 |
fyii = a_Row(2,atom1)*(radcomxi) + & |
| 760 |
a_Row(5,atom1)*(radcomyi) + & |
| 761 |
a_Row(8,atom1)*(radcomzi) |
| 762 |
fzii = a_Row(3,atom1)*(radcomxi) + & |
| 763 |
a_Row(6,atom1)*(radcomyi) + & |
| 764 |
a_Row(9,atom1)*(radcomzi) |
| 765 |
|
| 766 |
fxjj = a_Col(1,atom2)*(radcomxj) + & |
| 767 |
a_Col(4,atom2)*(radcomyj) + & |
| 768 |
a_Col(7,atom2)*(radcomzj) |
| 769 |
fyjj = a_Col(2,atom2)*(radcomxj) + & |
| 770 |
a_Col(5,atom2)*(radcomyj) + & |
| 771 |
a_Col(8,atom2)*(radcomzj) |
| 772 |
fzjj = a_Col(3,atom2)*(radcomxj)+ & |
| 773 |
a_Col(6,atom2)*(radcomyj) + & |
| 774 |
a_Col(9,atom2)*(radcomzj) |
| 775 |
#else |
| 776 |
fxii = a(1,atom1)*(radcomxi) + & |
| 777 |
a(4,atom1)*(radcomyi) + & |
| 778 |
a(7,atom1)*(radcomzi) |
| 779 |
fyii = a(2,atom1)*(radcomxi) + & |
| 780 |
a(5,atom1)*(radcomyi) + & |
| 781 |
a(8,atom1)*(radcomzi) |
| 782 |
fzii = a(3,atom1)*(radcomxi) + & |
| 783 |
a(6,atom1)*(radcomyi) + & |
| 784 |
a(9,atom1)*(radcomzi) |
| 785 |
|
| 786 |
fxjj = a(1,atom2)*(radcomxj) + & |
| 787 |
a(4,atom2)*(radcomyj) + & |
| 788 |
a(7,atom2)*(radcomzj) |
| 789 |
fyjj = a(2,atom2)*(radcomxj) + & |
| 790 |
a(5,atom2)*(radcomyj) + & |
| 791 |
a(8,atom2)*(radcomzj) |
| 792 |
fzjj = a(3,atom2)*(radcomxj)+ & |
| 793 |
a(6,atom2)*(radcomyj) + & |
| 794 |
a(9,atom2)*(radcomzj) |
| 795 |
#endif |
| 796 |
|
| 797 |
fxij = -fxii |
| 798 |
fyij = -fyii |
| 799 |
fzij = -fzii |
| 800 |
|
| 801 |
fxji = -fxjj |
| 802 |
fyji = -fyjj |
| 803 |
fzji = -fzjj |
| 804 |
|
| 805 |
! now assemble these with the radial-only terms: |
| 806 |
|
| 807 |
fxradial = 0.5d0*(v0*dsdr*w*drdx + fxii + fxji) |
| 808 |
fyradial = 0.5d0*(v0*dsdr*w*drdy + fyii + fyji) |
| 809 |
fzradial = 0.5d0*(v0*dsdr*w*drdz + fzii + fzji) |
| 810 |
|
| 811 |
#ifdef IS_MPI |
| 812 |
f_Row(1,atom1) = f_Row(1,atom1) + fxradial |
| 813 |
f_Row(2,atom1) = f_Row(2,atom1) + fyradial |
| 814 |
f_Row(3,atom1) = f_Row(3,atom1) + fzradial |
| 815 |
|
| 816 |
f_Col(1,atom2) = f_Col(1,atom2) - fxradial |
| 817 |
f_Col(2,atom2) = f_Col(2,atom2) - fyradial |
| 818 |
f_Col(3,atom2) = f_Col(3,atom2) - fzradial |
| 819 |
#else |
| 820 |
f(1,atom1) = f(1,atom1) + fxradial |
| 821 |
f(2,atom1) = f(2,atom1) + fyradial |
| 822 |
f(3,atom1) = f(3,atom1) + fzradial |
| 823 |
|
| 824 |
f(1,atom2) = f(1,atom2) - fxradial |
| 825 |
f(2,atom2) = f(2,atom2) - fyradial |
| 826 |
f(3,atom2) = f(3,atom2) - fzradial |
| 827 |
#endif |
| 828 |
|
| 829 |
#ifdef IS_MPI |
| 830 |
id1 = AtomRowToGlobal(atom1) |
| 831 |
id2 = AtomColToGlobal(atom2) |
| 832 |
#else |
| 833 |
id1 = atom1 |
| 834 |
id2 = atom2 |
| 835 |
#endif |
| 836 |
|
| 837 |
if (molMembershipList(id1) .ne. molMembershipList(id2)) then |
| 838 |
|
| 839 |
fpair(1) = fpair(1) + fxradial |
| 840 |
fpair(2) = fpair(2) + fyradial |
| 841 |
fpair(3) = fpair(3) + fzradial |
| 842 |
|
| 843 |
endif |
| 844 |
endif |
| 845 |
end subroutine do_sticky_power_pair |
| 846 |
|
| 847 |
end module sticky |
