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!! Calculates Long Range forces Lennard-Jones interactions. |
2 |
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!! Corresponds to the force field defined in lj_FF.cpp |
3 |
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!! @author Charles F. Vardeman II |
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!! @author Matthew Meineke |
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!! @version $Id: lj_FF.F90,v 1.19 2003-02-24 21:25:15 chuckv Exp $, $Date: 2003-02-24 21:25:15 $, $Name: not supported by cvs2svn $, $Revision: 1.19 $ |
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module lj_ff |
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use simulation |
11 |
< |
use definitions, ONLY : dp, ndim |
11 |
> |
use definitions |
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> |
use generic_atypes |
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#ifdef IS_MPI |
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use mpiSimulation |
15 |
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#endif |
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!! Number of lj_atypes in lj_atype_list |
20 |
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integer, save :: n_lj_atypes = 0 |
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|
22 |
< |
!! Starting Size for ljMixed Array |
23 |
< |
integer, parameter :: ljMixed_blocksize = 10 |
22 |
> |
!! Global list of lj atypes in simulation |
23 |
> |
type (lj_atype), pointer :: ljListHead => null() |
24 |
> |
type (lj_atype), pointer :: ljListTail => null() |
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|
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type, public :: lj_atype |
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private |
18 |
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sequence |
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!! Unique number for place in linked list |
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integer :: atype_number = 0 |
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!! Name of atype |
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character(len = 15) :: name = "NULL" |
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!! Unique indentifier number (ie atomic no, etc) |
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integer :: atype_ident = 0 |
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!! Mass of Particle |
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real ( kind = dp ) :: mass = 0.0_dp |
27 |
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!! Lennard-Jones epslon |
28 |
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real ( kind = dp ) :: epslon = 0.0_dp |
29 |
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!! Lennard-Jones Sigma |
30 |
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real ( kind = dp ) :: sigma = 0.0_dp |
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!! Lennard-Jones Sigma Squared |
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real ( kind = dp ) :: sigma2 = 0.0_dp |
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!! Lennard-Jones Sigma to sixth |
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real ( kind = dp ) :: sigma6 = 0.0_dp |
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!! Pointer for linked list creation |
36 |
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type (lj_atype), pointer :: next => null() |
37 |
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end type lj_atype |
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|
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!! Pointer type for atype ident array |
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type :: lj_atypePtr |
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type (lj_atype), pointer :: this => null() |
42 |
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end type lj_atypePtr |
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|
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!! Global list of lj atypes in simulation |
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type (lj_atype), pointer :: lj_atype_list => null() |
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!! LJ mixing array |
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type (lj_atype), dimension(:,:), allocatable, pointer :: ljMixed =>null() |
48 |
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!! identity pointer list for force loop. |
49 |
< |
type (lj_atypePtr), dimension(:), allocatable :: identPtrList |
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type (lj_atype), dimension(:,:), pointer :: ljMixed => null() |
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|
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!! Neighbor list and commom arrays |
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!! This should eventally get moved to a neighbor list type |
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integer, allocatable, dimension(:) :: point |
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integer, allocatable, dimension(:) :: list |
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integer, parameter :: listMultiplier = 80 |
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integer :: nListAllocs = 0 |
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integer, parameter :: maxListAllocs = 5 |
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|
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#ifdef IS_MPI |
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! Universal routines: All types of force calculations will need these arrays |
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! Arrays specific to a type of force calculation should be declared in that module. |
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real( kind = dp ), allocatable, dimension(:,:) :: qRow |
60 |
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real( kind = dp ), allocatable, dimension(:,:) :: qColumn |
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logical, save :: firstTime = .True. |
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|
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real( kind = dp ), allocatable, dimension(:,:) :: fRow |
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real( kind = dp ), allocatable, dimension(:,:) :: fColumn |
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!! Atype identity pointer lists |
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> |
#ifdef IS_MPI |
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!! Row lj_atype pointer list |
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> |
type (lj_identPtrList), dimension(:), pointer :: identPtrListRow => null() |
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!! Column lj_atype pointer list |
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type (lj_identPtrList), dimension(:), pointer :: identPtrListColumn => null() |
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#else |
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type( lj_identPtrList ), dimension(:), pointer :: identPtrList => null() |
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#endif |
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|
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!! Logical has lj force field module been initialized? |
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logical, save :: isljFFinit = .false. |
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|
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|
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!! Public methods and data |
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public :: new_lj_atype |
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public :: do_lj_ff |
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public :: getLjPot |
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public :: init_ljFF |
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contains |
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subroutine new_lj_atype(name,ident,mass,epslon,sigma,status) |
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character( len = 15 ) :: name |
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!! Adds a new lj_atype to the list. |
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> |
subroutine new_lj_atype(ident,mass,epsilon,sigma,status) |
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real( kind = dp ), intent(in) :: mass |
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real( kind = dp ), intent(in) :: epslon |
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real( kind = dp ), intent(in) :: epsilon |
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real( kind = dp ), intent(in) :: sigma |
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integer, intent(in) :: ident |
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integer, intent(out) :: status |
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type (lj_atype), pointer :: this_lj_atype |
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type (lj_atype), pointer :: lj_atype_ptr |
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|
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type (lj_atype), allocatable, dimension(:,:), pointer :: thisMix |
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type (lj_atype), allocatable, dimension(:,:), pointer :: oldMix |
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type (lj_atype), pointer :: newLJ_atype |
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integer :: alloc_error |
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integer :: atype_counter = 0 |
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integer :: alloc_size |
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|
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integer :: err_stat |
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status = 0 |
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|
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|
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! allocate a new atype |
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allocate(this_lj_atype,stat=alloc_error) |
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> |
allocate(newLJ_atype,stat=alloc_error) |
86 |
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if (alloc_error /= 0 ) then |
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status = -1 |
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return |
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end if |
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! assign our new lj_atype information |
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this_lj_atype%name = name |
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this_lj_atype%mass = mass |
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this_lj_atype%epslon = epslon |
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this_lj_atype%sigma = sigma |
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this_lj_atype%sigma2 = sigma * sigma |
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this_lj_atype%sigma6 = this_lj_atype%sigma2 * this_lj_atype%sigma2 & |
117 |
< |
* this_lj_atype%sigma2 |
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> |
newLJ_atype%mass = mass |
93 |
> |
newLJ_atype%epsilon = epsilon |
94 |
> |
newLJ_atype%sigma = sigma |
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> |
newLJ_atype%sigma2 = sigma * sigma |
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> |
newLJ_atype%sigma6 = newLJ_atype%sigma2 * newLJ_atype%sigma2 & |
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* newLJ_atype%sigma2 |
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! assume that this atype will be successfully added |
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this_lj_atype%atype_ident = ident |
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< |
this_lj_atype%number = n_lj_atypes + 1 |
99 |
> |
newLJ_atype%atype_ident = ident |
100 |
> |
newLJ_atype%atype_number = n_lj_atypes + 1 |
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|
102 |
< |
|
103 |
< |
! First time through allocate a array of size ljMixed_blocksize |
104 |
< |
if(.not. associated(ljMixed)) then |
105 |
< |
allocate(thisMix(ljMixed_blocksize,ljMixed_blocksize)) |
126 |
< |
if (alloc_error /= 0 ) then |
127 |
< |
status = -1 |
128 |
< |
return |
129 |
< |
end if |
130 |
< |
ljMixed => thisMix |
131 |
< |
! If we have outgrown ljMixed_blocksize, allocate a new matrix twice the size and |
132 |
< |
! point ljMix at the new matrix. |
133 |
< |
else if( (n_lj_atypes + 1) > size(ljMixed)) then |
134 |
< |
alloc_size = 2*size(ljMix) |
135 |
< |
allocate(thisMix(alloc_size,alloc_size)) |
136 |
< |
if (alloc_error /= 0 ) then |
137 |
< |
status = -1 |
138 |
< |
return |
139 |
< |
end if |
140 |
< |
! point oldMix at old ljMixed array |
141 |
< |
oldMix => ljMixed |
142 |
< |
! Copy oldMix into new Mixed array |
143 |
< |
thisMix = oldMix |
144 |
< |
! Point ljMixed at new array |
145 |
< |
ljMixed => thisMix |
146 |
< |
! Free old array so we don't have a memory leak |
147 |
< |
deallocate(oldMix) |
102 |
> |
call add_atype(newLJ_atype,ljListHead,ljListTail,err_stat) |
103 |
> |
if (err_stat /= 0 ) then |
104 |
> |
status = -1 |
105 |
> |
return |
106 |
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endif |
107 |
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+ |
n_lj_atypes = n_lj_atypes + 1 |
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end subroutine new_lj_atype |
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114 |
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! Find bottom of atype master list |
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< |
! if lj_atype_list is null then we are at the top of the list. |
116 |
< |
if (.not. associated(lj_atype_list)) then |
117 |
< |
lj_atype_ptr => this_lj_atype |
118 |
< |
atype_counter = 1 |
114 |
> |
subroutine init_ljFF(nComponents,ident, status) |
115 |
> |
!! Number of components in ident array |
116 |
> |
integer, intent(inout) :: nComponents |
117 |
> |
!! Array of identities nComponents long corresponding to |
118 |
> |
!! ljatype ident. |
119 |
> |
integer, dimension(nComponents),intent(inout) :: ident |
120 |
> |
!! Result status, success = 0, error = -1 |
121 |
> |
integer, intent(out) :: Status |
122 |
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|
123 |
< |
else ! we need to find the bottom of the list to insert new atype |
161 |
< |
lj_atype_ptr => lj_atype_list%next |
162 |
< |
atype_counter = 1 |
163 |
< |
find_end: do |
164 |
< |
if (.not. associated(lj_atype_ptr%next)) then |
165 |
< |
exit find_end |
166 |
< |
end if |
167 |
< |
! Set up mixing for new atype and current atype in list |
168 |
< |
ljMix(this_lj_atype%atype_number,lj_atype_ptr%atype_number)%sigma = & |
169 |
< |
calcLJMix("sigma",this_lj_atype%sigma, & |
170 |
< |
lj_atype_prt%sigma) |
123 |
> |
integer :: alloc_stat |
124 |
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|
125 |
< |
ljMix(this_lj_atype%atype_number,lj_atype_ptr%atype_number)%sigma2 = & |
126 |
< |
ljMix(this_lj_atype%atype_number,lj_atype_ptr%atype_number)%sigma & |
174 |
< |
* ljMix(this_lj_atype%atype_number,lj_atype_ptr%atype_number)%sigma |
125 |
> |
integer :: thisStat |
126 |
> |
integer :: i |
127 |
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|
128 |
< |
ljMix(this_lj_atype%atype_number,lj_atype_ptr%atype_number)%sigma6 = & |
129 |
< |
ljMix(this_lj_atype%atype_number,lj_atype_ptr%atype_number)%sigma2 & |
130 |
< |
* ljMix(this_lj_atype%atype_number,lj_atype_ptr%atype_number)%sigma2 & |
131 |
< |
* ljMix(this_lj_atype%atype_number,lj_atype_ptr%atype_number)%sigma2 |
128 |
> |
integer :: myNode |
129 |
> |
#ifdef IS_MPI |
130 |
> |
integer, allocatable, dimension(:) :: identRow |
131 |
> |
integer, allocatable, dimension(:) :: identCol |
132 |
> |
integer :: nrow |
133 |
> |
integer :: ncol |
134 |
> |
#endif |
135 |
> |
status = 0 |
136 |
> |
|
137 |
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|
181 |
– |
ljMix(this_lj_atype%atype_number,lj_atype_ptr%atype_number)%epslon = & |
182 |
– |
calcLJMix("epslon",this_lj_atype%epslon, & |
183 |
– |
lj_atype_prt%epslon) |
184 |
– |
|
185 |
– |
! Advance to next pointer |
186 |
– |
lj_atype_ptr => lj_atype_ptr%next |
187 |
– |
atype_counter = atype_counter + 1 |
188 |
– |
|
189 |
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end do find_end |
190 |
– |
end if |
191 |
– |
|
192 |
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|
193 |
– |
|
138 |
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|
195 |
– |
! Insert new atype at end of list |
196 |
– |
lj_atype_ptr => this_lj_atype |
197 |
– |
! Increment number of atypes |
139 |
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|
140 |
< |
n_lj_atypes = n_lj_atypes + 1 |
140 |
> |
!! if were're not in MPI, we just update ljatypePtrList |
141 |
> |
#ifndef IS_MPI |
142 |
> |
call create_IdentPtrlst(ident,ljListHead,identPtrList,thisStat) |
143 |
> |
if ( thisStat /= 0 ) then |
144 |
> |
status = -1 |
145 |
> |
return |
146 |
> |
endif |
147 |
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|
148 |
< |
! Set up self mixing |
148 |
> |
!! Allocate pointer lists |
149 |
> |
allocate(point(nComponents),stat=alloc_stat) |
150 |
> |
if (alloc_stat /=0) then |
151 |
> |
status = -1 |
152 |
> |
return |
153 |
> |
endif |
154 |
|
|
155 |
< |
ljMix(n_lj_atypes,n_lj_atypes)%sigma = this_lj_atype%sigma |
156 |
< |
|
157 |
< |
ljMix(n_lj_atypes,n_lj_atypes)%sigma2 = ljMix(n_lj_atypes,n_lj_atypes)%sigma & |
158 |
< |
* ljMix(n_lj_atypes,n_lj_atypes)%sigma |
159 |
< |
|
160 |
< |
ljMix(n_lj_atypes,n_lj_atypes)%sigma6 = ljMix(n_lj_atypes,n_lj_atypes)%sigma2 & |
161 |
< |
* ljMix(n_lj_atypes,n_lj_atypes)%sigma2 & |
162 |
< |
* ljMix(n_lj_atypes,n_lj_atypes)%sigma2 |
163 |
< |
|
164 |
< |
ljMix(n_lj_atypes,n_lj_atypes)%epslon = this_lj_atype%epslon |
165 |
< |
|
166 |
< |
|
167 |
< |
end subroutine new_lj_atype |
168 |
< |
|
169 |
< |
|
170 |
< |
subroutine init_ljFF() |
155 |
> |
allocate(list(nComponents*listMultiplier),stat=alloc_stat) |
156 |
> |
if (alloc_stat /=0) then |
157 |
> |
status = -1 |
158 |
> |
return |
159 |
> |
endif |
160 |
> |
|
161 |
> |
! if were're in MPI, we also have to worry about row and col lists |
162 |
> |
#else |
163 |
> |
|
164 |
> |
! We can only set up forces if mpiSimulation has been setup. |
165 |
> |
if (.not. isMPISimSet()) then |
166 |
> |
write(default_error,*) "MPI is not set" |
167 |
> |
status = -1 |
168 |
> |
return |
169 |
> |
endif |
170 |
> |
nrow = getNrow(plan_row) |
171 |
> |
ncol = getNcol(plan_col) |
172 |
> |
mynode = getMyNode() |
173 |
> |
!! Allocate temperary arrays to hold gather information |
174 |
> |
allocate(identRow(nrow),stat=alloc_stat) |
175 |
> |
if (alloc_stat /= 0 ) then |
176 |
> |
status = -1 |
177 |
> |
return |
178 |
> |
endif |
179 |
|
|
180 |
+ |
allocate(identCol(ncol),stat=alloc_stat) |
181 |
+ |
if (alloc_stat /= 0 ) then |
182 |
+ |
status = -1 |
183 |
+ |
return |
184 |
+ |
endif |
185 |
|
|
186 |
< |
#ifdef IS_MPI |
187 |
< |
|
186 |
> |
!! Gather idents into row and column idents |
187 |
> |
|
188 |
> |
call gather(ident,identRow,plan_row) |
189 |
> |
call gather(ident,identCol,plan_col) |
190 |
|
|
191 |
+ |
|
192 |
+ |
!! Create row and col pointer lists |
193 |
+ |
|
194 |
+ |
call create_IdentPtrlst(identRow,ljListHead,identPtrListRow,thisStat) |
195 |
+ |
if (thisStat /= 0 ) then |
196 |
+ |
status = -1 |
197 |
+ |
return |
198 |
+ |
endif |
199 |
+ |
|
200 |
+ |
call create_IdentPtrlst(identCol,ljListHead,identPtrListColumn,thisStat) |
201 |
+ |
if (thisStat /= 0 ) then |
202 |
+ |
status = -1 |
203 |
+ |
return |
204 |
+ |
endif |
205 |
|
|
206 |
+ |
!! free temporary ident arrays |
207 |
+ |
if (allocated(identCol)) then |
208 |
+ |
deallocate(identCol) |
209 |
+ |
end if |
210 |
+ |
if (allocated(identCol)) then |
211 |
+ |
deallocate(identRow) |
212 |
+ |
endif |
213 |
+ |
|
214 |
+ |
!! Allocate neighbor lists for mpi simulations. |
215 |
+ |
if (.not. allocated(point)) then |
216 |
+ |
allocate(point(nrow),stat=alloc_stat) |
217 |
+ |
if (alloc_stat /=0) then |
218 |
+ |
status = -1 |
219 |
+ |
return |
220 |
+ |
endif |
221 |
+ |
|
222 |
+ |
allocate(list(ncol*listMultiplier),stat=alloc_stat) |
223 |
+ |
if (alloc_stat /=0) then |
224 |
+ |
status = -1 |
225 |
+ |
return |
226 |
+ |
endif |
227 |
+ |
else |
228 |
+ |
deallocate(list) |
229 |
+ |
deallocate(point) |
230 |
+ |
allocate(point(nrow),stat=alloc_stat) |
231 |
+ |
if (alloc_stat /=0) then |
232 |
+ |
status = -1 |
233 |
+ |
return |
234 |
+ |
endif |
235 |
+ |
|
236 |
+ |
allocate(list(ncol*listMultiplier),stat=alloc_stat) |
237 |
+ |
if (alloc_stat /=0) then |
238 |
+ |
status = -1 |
239 |
+ |
return |
240 |
+ |
endif |
241 |
+ |
endif |
242 |
+ |
|
243 |
|
#endif |
244 |
+ |
|
245 |
+ |
call createMixingList(thisStat) |
246 |
+ |
if (thisStat /= 0) then |
247 |
+ |
status = -1 |
248 |
+ |
return |
249 |
+ |
endif |
250 |
+ |
isljFFinit = .true. |
251 |
|
|
252 |
+ |
|
253 |
|
end subroutine init_ljFF |
254 |
|
|
229 |
– |
!! Takes an ident array and creates an atype pointer list |
230 |
– |
!! based on those identities |
231 |
– |
subroutine new_ljatypePtrList(mysize,ident,PtrList,status) |
232 |
– |
integer, intent(in) :: mysize |
233 |
– |
integer, intent(in) :: ident |
234 |
– |
integer, optional :: status |
235 |
– |
type(lj_atypePtr), dimension(:) :: PtrList |
255 |
|
|
256 |
< |
integer :: thisIdent |
256 |
> |
|
257 |
> |
|
258 |
> |
|
259 |
> |
|
260 |
> |
subroutine createMixingList(status) |
261 |
> |
integer :: listSize |
262 |
> |
integer :: status |
263 |
|
integer :: i |
264 |
< |
integer :: alloc_error |
240 |
< |
type (lj_atype), pointer :: tmpPtr |
264 |
> |
integer :: j |
265 |
|
|
266 |
< |
if (present(status)) status = 0 |
266 |
> |
integer :: outerCounter = 0 |
267 |
> |
integer :: innerCounter = 0 |
268 |
> |
type (lj_atype), pointer :: tmpPtrOuter => null() |
269 |
> |
type (lj_atype), pointer :: tmpPtrInner => null() |
270 |
> |
status = 0 |
271 |
|
|
272 |
< |
! First time through, allocate list |
273 |
< |
if (.not.(allocated)) then |
274 |
< |
allocate(PtrList(mysize)) |
272 |
> |
listSize = getListLen(ljListHead) |
273 |
> |
if (listSize == 0) then |
274 |
> |
status = -1 |
275 |
> |
return |
276 |
> |
end if |
277 |
> |
|
278 |
> |
|
279 |
> |
if (.not. associated(ljMixed)) then |
280 |
> |
allocate(ljMixed(listSize,listSize)) |
281 |
|
else |
282 |
< |
! We want to creat a new ident list so free old list |
283 |
< |
deallocate(PrtList) |
284 |
< |
allocate(PtrList(mysize)) |
251 |
< |
endif |
282 |
> |
status = -1 |
283 |
> |
return |
284 |
> |
end if |
285 |
|
|
286 |
< |
! Match pointer list |
287 |
< |
do i = 1, mysize |
288 |
< |
thisIdent = ident(i) |
289 |
< |
call getLJatype(thisIdent,tmpPtr) |
290 |
< |
|
291 |
< |
if (.not. associated(tmpPtr)) then |
292 |
< |
status = -1 |
293 |
< |
return |
286 |
> |
|
287 |
> |
|
288 |
> |
tmpPtrOuter => ljListHead |
289 |
> |
tmpPtrInner => tmpPtrOuter%next |
290 |
> |
do while (associated(tmpPtrOuter)) |
291 |
> |
outerCounter = outerCounter + 1 |
292 |
> |
! do self mixing rule |
293 |
> |
ljMixed(outerCounter,outerCounter)%sigma = tmpPtrOuter%sigma |
294 |
> |
|
295 |
> |
ljMixed(outerCounter,outerCounter)%sigma2 = ljMixed(outerCounter,outerCounter)%sigma & |
296 |
> |
* ljMixed(outerCounter,outerCounter)%sigma |
297 |
> |
|
298 |
> |
ljMixed(outerCounter,outerCounter)%sigma6 = ljMixed(outerCounter,outerCounter)%sigma2 & |
299 |
> |
* ljMixed(outerCounter,outerCounter)%sigma2 & |
300 |
> |
* ljMixed(outerCounter,outerCounter)%sigma2 |
301 |
> |
|
302 |
> |
ljMixed(outerCounter,outerCounter)%epsilon = tmpPtrOuter%epsilon |
303 |
> |
|
304 |
> |
innerCounter = outerCounter + 1 |
305 |
> |
do while (associated(tmpPtrInner)) |
306 |
> |
|
307 |
> |
ljMixed(outerCounter,innerCounter)%sigma = & |
308 |
> |
calcLJMix("sigma",tmpPtrOuter%sigma, & |
309 |
> |
tmpPtrInner%sigma) |
310 |
> |
|
311 |
> |
ljMixed(outerCounter,innerCounter)%sigma2 = & |
312 |
> |
ljMixed(outerCounter,innerCounter)%sigma & |
313 |
> |
* ljMixed(outerCounter,innerCounter)%sigma |
314 |
> |
|
315 |
> |
ljMixed(outerCounter,innerCounter)%sigma6 = & |
316 |
> |
ljMixed(outerCounter,innerCounter)%sigma2 & |
317 |
> |
* ljMixed(outerCounter,innerCounter)%sigma2 & |
318 |
> |
* ljMixed(outerCounter,innerCounter)%sigma2 |
319 |
> |
|
320 |
> |
ljMixed(outerCounter,innerCounter)%epsilon = & |
321 |
> |
calcLJMix("epsilon",tmpPtrOuter%epsilon, & |
322 |
> |
tmpPtrInner%epsilon) |
323 |
> |
ljMixed(innerCounter,outerCounter)%sigma = ljMixed(outerCounter,innerCounter)%sigma |
324 |
> |
ljMixed(innerCounter,outerCounter)%sigma2 = ljMixed(outerCounter,innerCounter)%sigma2 |
325 |
> |
ljMixed(innerCounter,outerCounter)%sigma6 = ljMixed(outerCounter,innerCounter)%sigma6 |
326 |
> |
ljMixed(innerCounter,outerCounter)%epsilon = ljMixed(outerCounter,innerCounter)%epsilon |
327 |
> |
|
328 |
> |
|
329 |
> |
tmpPtrInner => tmpPtrInner%next |
330 |
> |
innerCounter = innerCounter + 1 |
331 |
> |
end do |
332 |
> |
! advance pointers |
333 |
> |
tmpPtrOuter => tmpPtrOuter%next |
334 |
> |
if (associated(tmpPtrOuter)) then |
335 |
> |
tmpPtrInner => tmpPtrOuter%next |
336 |
|
endif |
337 |
|
|
263 |
– |
PtrList(i)%this => tmpPtr |
338 |
|
end do |
339 |
|
|
340 |
< |
end subroutine new_ljatypePtrList |
340 |
> |
end subroutine createMixingList |
341 |
|
|
268 |
– |
!! Finds a lj_atype based upon numerical ident |
269 |
– |
!! returns a null pointer if error |
270 |
– |
subroutine getLJatype(ident,ljAtypePtr) |
271 |
– |
integer, intent(in) :: ident |
272 |
– |
type (lj_atype), intent(out),pointer :: ljAtypePtr => null() |
273 |
– |
|
274 |
– |
type (lj_atype), pointer :: tmplj_atype_ptr => null() |
342 |
|
|
276 |
– |
if(.not. associated(lj_atype_list)) return |
343 |
|
|
278 |
– |
! Point at head of list. |
279 |
– |
tmplj_atype_ptr => lj_atype_list |
280 |
– |
find_ident: do |
281 |
– |
if (.not.associated(tmplj_atype_ptr)) then |
282 |
– |
exit find_ident |
283 |
– |
else if( lj_atype_ptr%atype_ident == ident) |
284 |
– |
ljAtypePtr => tmplj_atype_ptr |
285 |
– |
exit find_ident |
286 |
– |
endif |
287 |
– |
tmplj_atype_ptr => tmplj_atype_ptr%next |
288 |
– |
end do find_ident |
344 |
|
|
290 |
– |
end subroutine getLJatype |
345 |
|
|
346 |
|
|
347 |
< |
! FORCE routine |
347 |
> |
|
348 |
> |
|
349 |
> |
!! FORCE routine Calculates Lennard Jones forces. |
350 |
|
!-------------------------------------------------------------> |
351 |
< |
subroutine do_lj_ff(q,f,potE,do_pot) |
352 |
< |
real ( kind = dp ), dimension(ndim,) :: q |
353 |
< |
real ( kind = dp ), dimension(ndim,nLRparticles) :: f |
351 |
> |
subroutine do_lj_ff(q,f,potE,tau,do_pot) |
352 |
> |
!! Position array provided by C, dimensioned by getNlocal |
353 |
> |
real ( kind = dp ), dimension(3,getNlocal()) :: q |
354 |
> |
!! Force array provided by C, dimensioned by getNlocal |
355 |
> |
real ( kind = dp ), dimension(3,getNlocal()) :: f |
356 |
> |
!! Stress Tensor |
357 |
> |
real( kind = dp), dimension(9) :: tau |
358 |
> |
real( kind = dp), dimension(9) :: tauTemp |
359 |
|
real ( kind = dp ) :: potE |
360 |
+ |
logical ( kind = 2) :: do_pot |
361 |
+ |
|
362 |
+ |
type(lj_atype), pointer :: ljAtype_i |
363 |
+ |
type(lj_atype), pointer :: ljAtype_j |
364 |
|
|
365 |
< |
#ifdef MPI |
366 |
< |
real( kind = DP ), dimension(3,ncol) :: efr |
367 |
< |
real( kind = DP ) :: pot_local |
303 |
< |
#else |
304 |
< |
! real( kind = DP ), dimension(3,natoms) :: efr |
305 |
< |
#endif |
365 |
> |
|
366 |
> |
|
367 |
> |
|
368 |
|
|
369 |
+ |
|
370 |
+ |
#ifdef IS_MPI |
371 |
+ |
real( kind = DP ) :: pot_local |
372 |
+ |
|
373 |
+ |
!! Local arrays needed for MPI |
374 |
+ |
real(kind = dp), dimension(3,getNrow(plan_row)) :: qRow = 0.0_dp |
375 |
+ |
real(kind = dp), dimension(3,getNcol(plan_col)) :: qCol = 0.0_dp |
376 |
+ |
|
377 |
+ |
real(kind = dp), dimension(3,getNrow(plan_row)) :: fRow = 0.0_dp |
378 |
+ |
real(kind = dp), dimension(3,getNcol(plan_col)) :: fCol = 0.0_dp |
379 |
+ |
real(kind = dp), dimension(3,getNlocal()) :: fMPITemp = 0.0_dp |
380 |
+ |
|
381 |
+ |
real(kind = dp), dimension(getNrow(plan_row)) :: eRow = 0.0_dp |
382 |
+ |
real(kind = dp), dimension(getNcol(plan_col)) :: eCol = 0.0_dp |
383 |
+ |
|
384 |
+ |
real(kind = dp), dimension(getNlocal()) :: eTemp = 0.0_dp |
385 |
+ |
|
386 |
+ |
#endif |
387 |
+ |
|
388 |
+ |
|
389 |
+ |
|
390 |
|
real( kind = DP ) :: pe |
391 |
< |
logical, :: update_nlist |
309 |
< |
logical :: do_pot |
391 |
> |
logical :: update_nlist |
392 |
|
|
393 |
+ |
|
394 |
|
integer :: i, j, jbeg, jend, jnab, idim, jdim, idim2, jdim2, dim, dim2 |
395 |
|
integer :: nlist |
396 |
|
integer :: j_start |
397 |
|
integer :: tag_i,tag_j |
398 |
|
real( kind = DP ) :: r, pot, ftmp, dudr, d2, drdx1, kt1, kt2, kt3, ktmp |
399 |
+ |
real( kind = dp ) :: fx,fy,fz |
400 |
+ |
real( kind = DP ) :: drdx, drdy, drdz |
401 |
|
real( kind = DP ) :: rxi, ryi, rzi, rxij, ryij, rzij, rijsq |
402 |
+ |
real( kind = DP ) :: rlistsq, rcutsq,rlist,rcut |
403 |
|
|
404 |
+ |
! a rig that need to be fixed. |
405 |
+ |
#ifdef IS_MPI |
406 |
+ |
logical :: newtons_thrd = .true. |
407 |
+ |
real( kind = dp ) :: pe_local |
408 |
+ |
integer :: nlocal |
409 |
+ |
#endif |
410 |
|
integer :: nrow |
411 |
|
integer :: ncol |
412 |
+ |
integer :: natoms |
413 |
+ |
!! should we calculate the stress tensor |
414 |
+ |
logical :: do_stress = .false. |
415 |
|
|
416 |
|
|
417 |
|
|
418 |
+ |
! Make sure we are properly initialized. |
419 |
+ |
if (.not. isljFFInit) then |
420 |
+ |
write(default_error,*) "ERROR: lj_FF has not been properly initialized" |
421 |
+ |
return |
422 |
+ |
endif |
423 |
+ |
#ifdef IS_MPI |
424 |
+ |
if (.not. isMPISimSet()) then |
425 |
+ |
write(default_error,*) "ERROR: mpiSimulation has not been properly initialized" |
426 |
+ |
return |
427 |
+ |
endif |
428 |
+ |
#endif |
429 |
+ |
|
430 |
+ |
!! initialize local variables |
431 |
+ |
natoms = getNlocal() |
432 |
+ |
call getRcut(rcut,rcut2=rcutsq) |
433 |
+ |
call getRlist(rlist,rlistsq) |
434 |
+ |
!! Find ensemble |
435 |
+ |
if (isEnsemble("NPT")) do_stress = .true. |
436 |
+ |
|
437 |
|
#ifndef IS_MPI |
438 |
|
nrow = natoms - 1 |
439 |
|
ncol = natoms |
440 |
|
#else |
441 |
+ |
nrow = getNrow(plan_row) |
442 |
+ |
ncol = getNcol(plan_col) |
443 |
+ |
nlocal = natoms |
444 |
|
j_start = 1 |
445 |
|
#endif |
446 |
|
|
447 |
< |
call check(update_nlist) |
447 |
> |
|
448 |
> |
!! See if we need to update neighbor lists |
449 |
> |
call check(q,update_nlist) |
450 |
> |
if (firstTime) then |
451 |
> |
update_nlist = .true. |
452 |
> |
firstTime = .false. |
453 |
> |
endif |
454 |
|
|
455 |
< |
do_pot = .false. |
456 |
< |
if (present(pe)) do_pot = .true. |
457 |
< |
|
455 |
> |
!--------------WARNING........................... |
456 |
> |
! Zero variables, NOTE:::: Forces are zeroed in C |
457 |
> |
! Zeroing them here could delete previously computed |
458 |
> |
! Forces. |
459 |
> |
!------------------------------------------------ |
460 |
|
#ifndef IS_MPI |
461 |
< |
nloops = nloops + 1 |
462 |
< |
pot = 0.0E0_DP |
463 |
< |
f = 0.0E0_DP |
339 |
< |
e = 0.0E0_DP |
461 |
> |
! nloops = nloops + 1 |
462 |
> |
pe = 0.0E0_DP |
463 |
> |
|
464 |
|
#else |
465 |
< |
f_row = 0.0E0_DP |
466 |
< |
f_col = 0.0E0_DP |
465 |
> |
fRow = 0.0E0_DP |
466 |
> |
fCol = 0.0E0_DP |
467 |
|
|
468 |
< |
pot_local = 0.0E0_DP |
468 |
> |
pe_local = 0.0E0_DP |
469 |
|
|
470 |
< |
e_row = 0.0E0_DP |
471 |
< |
e_col = 0.0E0_DP |
472 |
< |
e_tmp = 0.0E0_DP |
470 |
> |
eRow = 0.0E0_DP |
471 |
> |
eCol = 0.0E0_DP |
472 |
> |
eTemp = 0.0E0_DP |
473 |
|
#endif |
350 |
– |
efr = 0.0E0_DP |
474 |
|
|
475 |
|
! communicate MPI positions |
476 |
< |
#ifdef MPI |
477 |
< |
call gather(q,q_row,plan_row3) |
478 |
< |
call gather(q,q_col,plan_col3) |
476 |
> |
#ifdef IS_MPI |
477 |
> |
call gather(q,qRow,plan_row3d) |
478 |
> |
call gather(q,qCol,plan_col3d) |
479 |
|
#endif |
480 |
|
|
358 |
– |
#ifndef MPI |
481 |
|
|
360 |
– |
#endif |
361 |
– |
|
482 |
|
if (update_nlist) then |
483 |
|
|
484 |
|
! save current configuration, contruct neighbor list, |
485 |
|
! and calculate forces |
486 |
< |
call save_nlist() |
486 |
> |
call save_nlist(q) |
487 |
|
|
488 |
|
nlist = 0 |
489 |
|
|
490 |
< |
|
490 |
> |
|
491 |
|
|
492 |
|
do i = 1, nrow |
493 |
|
point(i) = nlist + 1 |
494 |
< |
#ifdef MPI |
495 |
< |
tag_i = tag_row(i) |
496 |
< |
rxi = q_row(1,i) |
497 |
< |
ryi = q_row(2,i) |
498 |
< |
rzi = q_row(3,i) |
494 |
> |
#ifdef IS_MPI |
495 |
> |
ljAtype_i => identPtrListRow(i)%this |
496 |
> |
tag_i = tagRow(i) |
497 |
> |
rxi = qRow(1,i) |
498 |
> |
ryi = qRow(2,i) |
499 |
> |
rzi = qRow(3,i) |
500 |
|
#else |
501 |
+ |
ljAtype_i => identPtrList(i)%this |
502 |
|
j_start = i + 1 |
503 |
|
rxi = q(1,i) |
504 |
|
ryi = q(2,i) |
506 |
|
#endif |
507 |
|
|
508 |
|
inner: do j = j_start, ncol |
509 |
< |
#ifdef MPI |
510 |
< |
tag_j = tag_col(j) |
509 |
> |
#ifdef IS_MPI |
510 |
> |
! Assign identity pointers and tags |
511 |
> |
ljAtype_j => identPtrListColumn(j)%this |
512 |
> |
tag_j = tagColumn(j) |
513 |
|
if (newtons_thrd) then |
514 |
|
if (tag_i <= tag_j) then |
515 |
|
if (mod(tag_i + tag_j,2) == 0) cycle inner |
518 |
|
endif |
519 |
|
endif |
520 |
|
|
521 |
< |
rxij = wrap(rxi - q_col(1,j), 1) |
522 |
< |
ryij = wrap(ryi - q_col(2,j), 2) |
523 |
< |
rzij = wrap(rzi - q_col(3,j), 3) |
521 |
> |
rxij = wrap(rxi - qCol(1,j), 1) |
522 |
> |
ryij = wrap(ryi - qCol(2,j), 2) |
523 |
> |
rzij = wrap(rzi - qCol(3,j), 3) |
524 |
|
#else |
525 |
< |
|
525 |
> |
ljAtype_j => identPtrList(j)%this |
526 |
|
rxij = wrap(rxi - q(1,j), 1) |
527 |
|
ryij = wrap(ryi - q(2,j), 2) |
528 |
|
rzij = wrap(rzi - q(3,j), 3) |
530 |
|
#endif |
531 |
|
rijsq = rxij*rxij + ryij*ryij + rzij*rzij |
532 |
|
|
533 |
< |
#ifdef MPI |
534 |
< |
if (rijsq <= rlstsq .AND. & |
533 |
> |
#ifdef IS_MPI |
534 |
> |
if (rijsq <= rlistsq .AND. & |
535 |
|
tag_j /= tag_i) then |
536 |
|
#else |
537 |
< |
if (rijsq < rlstsq) then |
537 |
> |
|
538 |
> |
if (rijsq < rlistsq) then |
539 |
|
#endif |
540 |
|
|
541 |
|
nlist = nlist + 1 |
542 |
|
if (nlist > size(list)) then |
543 |
< |
call info("FORCE_LJ","error size list smaller then nlist") |
544 |
< |
write(msg,*) "nlist size(list)", nlist, size(list) |
420 |
< |
call info("FORCE_LJ",msg) |
421 |
< |
#ifdef MPI |
422 |
< |
call mpi_abort(MPI_COMM_WORLD,mpi_err) |
423 |
< |
#endif |
424 |
< |
stop |
543 |
> |
!! "Change how nlist size is done" |
544 |
> |
write(DEFAULT_ERROR,*) "ERROR: nlist > list size" |
545 |
|
endif |
546 |
|
list(nlist) = j |
547 |
|
|
548 |
< |
|
548 |
> |
|
549 |
|
if (rijsq < rcutsq) then |
550 |
|
|
551 |
|
r = dsqrt(rijsq) |
552 |
|
|
553 |
< |
call LJ_mix(r,pot,dudr,d2,i,j) |
553 |
> |
call getLJPot(r,pot,dudr,ljAtype_i,ljAtype_j) |
554 |
|
|
555 |
< |
#ifdef MPI |
556 |
< |
e_row(i) = e_row(i) + pot*0.5 |
557 |
< |
e_col(i) = e_col(i) + pot*0.5 |
555 |
> |
#ifdef IS_MPI |
556 |
> |
eRow(i) = eRow(i) + pot*0.5 |
557 |
> |
eCol(i) = eCol(i) + pot*0.5 |
558 |
|
#else |
559 |
< |
pe = pe + pot |
559 |
> |
pe = pe + pot |
560 |
|
#endif |
561 |
|
|
562 |
< |
efr(1,j) = -rxij |
563 |
< |
efr(2,j) = -ryij |
564 |
< |
efr(3,j) = -rzij |
565 |
< |
|
566 |
< |
do dim = 1, 3 |
567 |
< |
|
568 |
< |
|
569 |
< |
drdx1 = efr(dim,j) / r |
570 |
< |
ftmp = dudr * drdx1 |
571 |
< |
|
572 |
< |
|
573 |
< |
#ifdef MPI |
574 |
< |
f_col(dim,j) = f_col(dim,j) - ftmp |
575 |
< |
f_row(dim,i) = f_row(dim,i) + ftmp |
576 |
< |
#else |
577 |
< |
|
578 |
< |
f(dim,j) = f(dim,j) - ftmp |
579 |
< |
f(dim,i) = f(dim,i) + ftmp |
580 |
< |
|
581 |
< |
#endif |
582 |
< |
enddo |
583 |
< |
endif |
584 |
< |
endif |
585 |
< |
enddo inner |
562 |
> |
drdx = -rxij / r |
563 |
> |
drdy = -ryij / r |
564 |
> |
drdz = -rzij / r |
565 |
> |
|
566 |
> |
fx = dudr * drdx |
567 |
> |
fy = dudr * drdy |
568 |
> |
fz = dudr * drdz |
569 |
> |
|
570 |
> |
#ifdef IS_MPI |
571 |
> |
fCol(1,j) = fCol(1,j) - fx |
572 |
> |
fCol(2,j) = fCol(2,j) - fy |
573 |
> |
fCol(3,j) = fCol(3,j) - fz |
574 |
> |
|
575 |
> |
fRow(1,j) = fRow(1,j) + fx |
576 |
> |
fRow(2,j) = fRow(2,j) + fy |
577 |
> |
fRow(3,j) = fRow(3,j) + fz |
578 |
> |
#else |
579 |
> |
f(1,j) = f(1,j) - fx |
580 |
> |
f(2,j) = f(2,j) - fy |
581 |
> |
f(3,j) = f(3,j) - fz |
582 |
> |
f(1,i) = f(1,i) + fx |
583 |
> |
f(2,i) = f(2,i) + fy |
584 |
> |
f(3,i) = f(3,i) + fz |
585 |
> |
#endif |
586 |
> |
|
587 |
> |
if (do_stress) then |
588 |
> |
tauTemp(1) = tauTemp(1) + fx * rxij |
589 |
> |
tauTemp(2) = tauTemp(2) + fx * ryij |
590 |
> |
tauTemp(3) = tauTemp(3) + fx * rzij |
591 |
> |
tauTemp(4) = tauTemp(4) + fy * rxij |
592 |
> |
tauTemp(5) = tauTemp(5) + fy * ryij |
593 |
> |
tauTemp(6) = tauTemp(6) + fy * rzij |
594 |
> |
tauTemp(7) = tauTemp(7) + fz * rxij |
595 |
> |
tauTemp(8) = tauTemp(8) + fz * ryij |
596 |
> |
tauTemp(9) = tauTemp(9) + fz * rzij |
597 |
> |
endif |
598 |
> |
endif |
599 |
> |
enddo inner |
600 |
|
enddo |
601 |
|
|
602 |
< |
#ifdef MPI |
602 |
> |
#ifdef IS_MPI |
603 |
|
point(nrow + 1) = nlist + 1 |
604 |
|
#else |
605 |
|
point(natoms) = nlist + 1 |
613 |
|
JEND = POINT(i+1) - 1 |
614 |
|
! check thiat molecule i has neighbors |
615 |
|
if (jbeg .le. jend) then |
616 |
< |
#ifdef MPI |
617 |
< |
rxi = q_row(1,i) |
618 |
< |
ryi = q_row(2,i) |
619 |
< |
rzi = q_row(3,i) |
616 |
> |
#ifdef IS_MPI |
617 |
> |
ljAtype_i => identPtrListRow(i)%this |
618 |
> |
rxi = qRow(1,i) |
619 |
> |
ryi = qRow(2,i) |
620 |
> |
rzi = qRow(3,i) |
621 |
|
#else |
622 |
+ |
ljAtype_i => identPtrList(i)%this |
623 |
|
rxi = q(1,i) |
624 |
|
ryi = q(2,i) |
625 |
|
rzi = q(3,i) |
626 |
|
#endif |
627 |
|
do jnab = jbeg, jend |
628 |
|
j = list(jnab) |
629 |
< |
#ifdef MPI |
630 |
< |
rxij = wrap(rxi - q_col(1,j), 1) |
631 |
< |
ryij = wrap(ryi - q_col(2,j), 2) |
632 |
< |
rzij = wrap(rzi - q_col(3,j), 3) |
629 |
> |
#ifdef IS_MPI |
630 |
> |
ljAtype_j = identPtrListColumn(j)%this |
631 |
> |
rxij = wrap(rxi - qCol(1,j), 1) |
632 |
> |
ryij = wrap(ryi - qCol(2,j), 2) |
633 |
> |
rzij = wrap(rzi - qCol(3,j), 3) |
634 |
|
#else |
635 |
< |
rxij = wrap(rxi - q(1,j), 1) |
636 |
< |
ryij = wrap(ryi - q(2,j), 2) |
637 |
< |
rzij = wrap(rzi - q(3,j), 3) |
635 |
> |
ljAtype_j = identPtrList(j)%this |
636 |
> |
rxij = wrap(rxi - q(1,j), 1) |
637 |
> |
ryij = wrap(ryi - q(2,j), 2) |
638 |
> |
rzij = wrap(rzi - q(3,j), 3) |
639 |
|
#endif |
640 |
|
rijsq = rxij*rxij + ryij*ryij + rzij*rzij |
641 |
|
|
643 |
|
|
644 |
|
r = dsqrt(rijsq) |
645 |
|
|
646 |
< |
call LJ_mix(r,pot,dudr,d2,i,j) |
647 |
< |
#ifdef MPI |
648 |
< |
e_row(i) = e_row(i) + pot*0.5 |
649 |
< |
e_col(i) = e_col(i) + pot*0.5 |
646 |
> |
call getLJPot(r,pot,dudr,ljAtype_i,ljAtype_j) |
647 |
> |
#ifdef IS_MPI |
648 |
> |
eRow(i) = eRow(i) + pot*0.5 |
649 |
> |
eCol(i) = eCol(i) + pot*0.5 |
650 |
|
#else |
651 |
< |
if (do_pot) pe = pe + pot |
651 |
> |
pe = pe + pot |
652 |
|
#endif |
653 |
+ |
|
654 |
+ |
drdx = -rxij / r |
655 |
+ |
drdy = -ryij / r |
656 |
+ |
drdz = -rzij / r |
657 |
+ |
|
658 |
+ |
fx = dudr * drdx |
659 |
+ |
fy = dudr * drdy |
660 |
+ |
fz = dudr * drdz |
661 |
+ |
|
662 |
+ |
#ifdef IS_MPI |
663 |
+ |
fCol(1,j) = fCol(1,j) - fx |
664 |
+ |
fCol(2,j) = fCol(2,j) - fy |
665 |
+ |
fCol(3,j) = fCol(3,j) - fz |
666 |
+ |
|
667 |
+ |
fRow(1,j) = fRow(1,j) + fx |
668 |
+ |
fRow(2,j) = fRow(2,j) + fy |
669 |
+ |
fRow(3,j) = fRow(3,j) + fz |
670 |
+ |
#else |
671 |
+ |
f(1,j) = f(1,j) - fx |
672 |
+ |
f(2,j) = f(2,j) - fy |
673 |
+ |
f(3,j) = f(3,j) - fz |
674 |
+ |
f(1,i) = f(1,i) + fx |
675 |
+ |
f(2,i) = f(2,i) + fy |
676 |
+ |
f(3,i) = f(3,i) + fz |
677 |
+ |
#endif |
678 |
+ |
|
679 |
+ |
if (do_stress) then |
680 |
+ |
tauTemp(1) = tauTemp(1) + fx * rxij |
681 |
+ |
tauTemp(2) = tauTemp(2) + fx * ryij |
682 |
+ |
tauTemp(3) = tauTemp(3) + fx * rzij |
683 |
+ |
tauTemp(4) = tauTemp(4) + fy * rxij |
684 |
+ |
tauTemp(5) = tauTemp(5) + fy * ryij |
685 |
+ |
tauTemp(6) = tauTemp(6) + fy * rzij |
686 |
+ |
tauTemp(7) = tauTemp(7) + fz * rxij |
687 |
+ |
tauTemp(8) = tauTemp(8) + fz * ryij |
688 |
+ |
tauTemp(9) = tauTemp(9) + fz * rzij |
689 |
+ |
endif |
690 |
+ |
|
691 |
+ |
|
692 |
+ |
endif |
693 |
+ |
enddo |
694 |
+ |
endif |
695 |
+ |
enddo |
696 |
+ |
endif |
697 |
+ |
|
698 |
|
|
516 |
– |
|
517 |
– |
efr(1,j) = -rxij |
518 |
– |
efr(2,j) = -ryij |
519 |
– |
efr(3,j) = -rzij |
699 |
|
|
700 |
< |
do dim = 1, 3 |
701 |
< |
|
523 |
< |
drdx1 = efr(dim,j) / r |
524 |
< |
ftmp = dudr * drdx1 |
525 |
< |
#ifdef MPI |
526 |
< |
f_col(dim,j) = f_col(dim,j) - ftmp |
527 |
< |
f_row(dim,i) = f_row(dim,i) + ftmp |
528 |
< |
#else |
529 |
< |
f(dim,j) = f(dim,j) - ftmp |
530 |
< |
f(dim,i) = f(dim,i) + ftmp |
531 |
< |
#endif |
532 |
< |
enddo |
533 |
< |
endif |
534 |
< |
enddo |
535 |
< |
endif |
536 |
< |
enddo |
537 |
< |
endif |
700 |
> |
#ifdef IS_MPI |
701 |
> |
!!distribute forces |
702 |
|
|
703 |
+ |
call scatter(fRow,f,plan_row3d) |
704 |
|
|
705 |
+ |
call scatter(fCol,fMPITemp,plan_col3d) |
706 |
|
|
541 |
– |
#ifdef MPI |
542 |
– |
!!distribute forces |
543 |
– |
call scatter(f_row,f,plan_row3) |
544 |
– |
|
545 |
– |
call scatter(f_col,f_tmp,plan_col3) |
707 |
|
do i = 1,nlocal |
708 |
< |
do dim = 1,3 |
548 |
< |
f(dim,i) = f(dim,i) + f_tmp(dim,i) |
549 |
< |
end do |
708 |
> |
f(1:3,i) = f(1:3,i) + fMPITemp(1:3,i) |
709 |
|
end do |
710 |
|
|
711 |
|
|
712 |
|
|
713 |
|
if (do_pot) then |
714 |
< |
! scatter/gather pot_row into the members of my column |
715 |
< |
call scatter(e_row,e_tmp,plan_row) |
714 |
> |
! scatter/gather pot_row into the members of my column |
715 |
> |
call scatter(eRow,eTemp,plan_row) |
716 |
|
|
717 |
|
! scatter/gather pot_local into all other procs |
718 |
|
! add resultant to get total pot |
719 |
|
do i = 1, nlocal |
720 |
< |
pot_local = pot_local + e_tmp(i) |
720 |
> |
pe_local = pe_local + eTemp(i) |
721 |
|
enddo |
722 |
|
if (newtons_thrd) then |
723 |
< |
e_tmp = 0.0E0_DP |
724 |
< |
call scatter(e_col,e_tmp,plan_col) |
723 |
> |
eTemp = 0.0E0_DP |
724 |
> |
call scatter(eCol,eTemp,plan_col) |
725 |
|
do i = 1, nlocal |
726 |
< |
pot_local = pot_local + e_tmp(i) |
726 |
> |
pe_local = pe_local + eTemp(i) |
727 |
|
enddo |
728 |
|
endif |
729 |
+ |
pe = pe_local |
730 |
|
endif |
731 |
+ |
|
732 |
|
#endif |
733 |
|
|
734 |
+ |
potE = pe |
735 |
|
|
736 |
|
|
737 |
+ |
if (do_stress) then |
738 |
+ |
#ifdef IS_MPI |
739 |
+ |
mpi_allreduce = (tau,tauTemp,9,mpi_double_precision,mpi_sum, & |
740 |
+ |
mpi_comm_world,mpi_err) |
741 |
+ |
#else |
742 |
+ |
tau = tauTemp |
743 |
+ |
#endif |
744 |
+ |
endif |
745 |
|
|
746 |
+ |
|
747 |
|
end subroutine do_lj_ff |
748 |
|
|
749 |
< |
!! Calculates the potential between two lj particles, optionally returns second |
749 |
> |
!! Calculates the potential between two lj particles based on two lj_atype pointers, optionally returns second |
750 |
|
!! derivatives. |
751 |
|
subroutine getLjPot(r,pot,dudr,atype1,atype2,d2,status) |
752 |
|
! arguments |
759 |
|
!! Second Derivative, optional, used mainly for normal mode calculations. |
760 |
|
real( kind = dp ), intent(out), optional :: d2 |
761 |
|
|
762 |
< |
type (lj_atype), intent(in) :: atype1 |
763 |
< |
type (lj_atype), intent(in) :: atype2 |
762 |
> |
type (lj_atype), pointer :: atype1 |
763 |
> |
type (lj_atype), pointer :: atype2 |
764 |
|
|
765 |
|
integer, intent(out), optional :: status |
766 |
|
|
768 |
|
real( kind = dp ) :: sigma |
769 |
|
real( kind = dp ) :: sigma2 |
770 |
|
real( kind = dp ) :: sigma6 |
771 |
< |
real( kind = dp ) :: epslon |
771 |
> |
real( kind = dp ) :: epsilon |
772 |
|
|
773 |
|
real( kind = dp ) :: rcut |
774 |
|
real( kind = dp ) :: rcut2 |
793 |
|
if (present(status)) status = 0 |
794 |
|
|
795 |
|
! Look up the correct parameters in the mixing matrix |
796 |
< |
sigma = ljMixed(atype1%atype_ident,atype2_atype_ident)%sigma |
797 |
< |
sigma2 = ljMixed(atype1%atype_ident,atype2_atype_ident)%sigma2 |
798 |
< |
sigma6 = ljMixed(atype1%atype_ident,atype2_atype_ident)%sigma6 |
799 |
< |
epslon = ljMixed(atype1%atype_ident,atype2_atype_ident)%epslon |
796 |
> |
sigma = ljMixed(atype1%atype_ident,atype2%atype_ident)%sigma |
797 |
> |
sigma2 = ljMixed(atype1%atype_ident,atype2%atype_ident)%sigma2 |
798 |
> |
sigma6 = ljMixed(atype1%atype_ident,atype2%atype_ident)%sigma6 |
799 |
> |
epsilon = ljMixed(atype1%atype_ident,atype2%atype_ident)%epsilon |
800 |
|
|
801 |
|
|
802 |
< |
|
802 |
> |
|
803 |
> |
|
804 |
|
call getRcut(rcut,rcut2=rcut2,rcut6=rcut6,status=errorStat) |
805 |
|
|
806 |
|
r2 = r * r |
817 |
|
delta = -4.0E0_DP*epsilon * (tp12 - tp6) |
818 |
|
|
819 |
|
if (r.le.rcut) then |
820 |
< |
u = 4.0E0_DP * epsilon * (t12 - t6) + delta |
820 |
> |
pot = 4.0E0_DP * epsilon * (t12 - t6) + delta |
821 |
|
dudr = 24.0E0_DP * epsilon * (t6 - 2.0E0_DP*t12) / r |
822 |
|
if(doSec) d2 = 24.0E0_DP * epsilon * (26.0E0_DP*t12 - 7.0E0_DP*t6)/r/r |
823 |
|
else |
824 |
< |
u = 0.0E0_DP |
824 |
> |
pot = 0.0E0_DP |
825 |
|
dudr = 0.0E0_DP |
826 |
|
if(doSec) d2 = 0.0E0_DP |
827 |
|
endif |
833 |
|
end subroutine getLjPot |
834 |
|
|
835 |
|
|
836 |
< |
!! Calculates the mixing for sigma or epslon based on character string |
836 |
> |
!! Calculates the mixing for sigma or epslon based on character string for initialzition of mixing array. |
837 |
|
function calcLJMix(thisParam,param1,param2,status) result(myMixParam) |
838 |
|
character(len=*) :: thisParam |
839 |
|
real(kind = dp) :: param1 |
840 |
|
real(kind = dp) :: param2 |
841 |
|
real(kind = dp ) :: myMixParam |
842 |
+ |
character(len = getStringLen()) :: thisMixingRule |
843 |
|
integer, optional :: status |
844 |
|
|
845 |
< |
|
845 |
> |
!! get the mixing rules from the simulation |
846 |
> |
thisMixingRule = returnMixingRules() |
847 |
|
myMixParam = 0.0_dp |
848 |
|
|
849 |
|
if (present(status)) status = 0 |
850 |
< |
|
851 |
< |
select case (thisParam) |
852 |
< |
|
853 |
< |
case ("sigma") |
854 |
< |
myMixParam = 0.5_dp * (param1 + param2) |
855 |
< |
case ("epslon") |
856 |
< |
myMixParam = sqrt(param1 * param2) |
850 |
> |
select case (thisMixingRule) |
851 |
> |
case ("standard") |
852 |
> |
select case (thisParam) |
853 |
> |
case ("sigma") |
854 |
> |
myMixParam = 0.5_dp * (param1 + param2) |
855 |
> |
case ("epsilon") |
856 |
> |
myMixParam = sqrt(param1 * param2) |
857 |
> |
case default |
858 |
> |
status = -1 |
859 |
> |
end select |
860 |
> |
case("LJglass") |
861 |
|
case default |
862 |
|
status = -1 |
863 |
|
end select |
686 |
– |
|
864 |
|
end function calcLJMix |
865 |
|
|
866 |
|
|