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Comparing trunk/OOPSE/libmdtools/simulation_module.F90 (file contents):
Revision 941 by gezelter, Tue Jan 13 23:01:43 2004 UTC vs.
Revision 1214 by gezelter, Tue Jun 1 18:42:58 2004 UTC

# Line 6 | Line 6 | module simulation
6    use force_globals
7    use vector_class
8    use atype_module
9 +  use switcheroo
10   #ifdef IS_MPI
11    use mpiSimulation
12   #endif
# Line 15 | Line 16 | module simulation
16  
17   #define __FORTRAN90
18   #include "fSimulation.h"
19 + #include "fSwitchingFunction.h"
20  
21    type (simtype), public, save :: thisSim
22  
23    logical, save :: simulation_setup_complete = .false.
24  
25    integer, public, save :: nLocal, nGlobal
26 +  integer, public, save :: nGroups, nGroupGlobal
27    integer, public, save :: nExcludes_Global = 0
28    integer, public, save :: nExcludes_Local = 0
29    integer, allocatable, dimension(:,:), public :: excludesLocal
30 <  integer, allocatable, dimension(:), public :: excludesGlobal
31 <  integer, allocatable, dimension(:), public :: molMembershipList
30 >  integer, allocatable, dimension(:),   public :: excludesGlobal
31 >  integer, allocatable, dimension(:),   public :: molMembershipList
32 >  integer, allocatable, dimension(:),   public :: groupListRow
33 >  integer, allocatable, dimension(:),   public :: groupStartRow
34 >  integer, allocatable, dimension(:),   public :: groupListCol
35 >  integer, allocatable, dimension(:),   public :: groupStartCol
36 >  integer, allocatable, dimension(:),   public :: groupListLocal
37 >  integer, allocatable, dimension(:),   public :: groupStartLocal
38 >  integer, allocatable, dimension(:),   public :: nSkipsForAtom
39 >  integer, allocatable, dimension(:,:), public :: skipsForAtom
40 >  real(kind=dp), allocatable, dimension(:), public :: mfactRow
41 >  real(kind=dp), allocatable, dimension(:), public :: mfactCol
42 >  real(kind=dp), allocatable, dimension(:), public :: mfactLocal
43  
44    real(kind=dp), public, dimension(3,3), save :: Hmat, HmatInv
45    logical, public, save :: boxIsOrthorhombic
# Line 50 | Line 64 | contains
64    
65    subroutine SimulationSetup(setThisSim, CnGlobal, CnLocal, c_idents, &
66         CnLocalExcludes, CexcludesLocal, CnGlobalExcludes, CexcludesGlobal, &
67 <       CmolMembership, &
67 >       CmolMembership, Cmfact, CnGroups, CglobalGroupMembership, &
68         status)    
69  
70      type (simtype) :: setThisSim
# Line 64 | Line 78 | contains
78      integer, dimension(CnGlobal),intent(in) :: CmolMembership
79      !!  Result status, success = 0, status = -1
80      integer, intent(out) :: status
81 <    integer :: i, me, thisStat, alloc_stat, myNode
81 >    integer :: i, j, me, thisStat, alloc_stat, myNode, id1, id2
82 >    integer :: ia
83 >
84 >    !! mass factors used for molecular cutoffs
85 >    real ( kind = dp ), dimension(CnLocal) :: Cmfact
86 >    integer, intent(in):: CnGroups
87 >    integer, dimension(CnGlobal), intent(in):: CglobalGroupMembership
88 >    integer :: maxSkipsForAtom, glPointer
89 >
90   #ifdef IS_MPI
91      integer, allocatable, dimension(:) :: c_idents_Row
92      integer, allocatable, dimension(:) :: c_idents_Col
93 <    integer :: nrow
94 <    integer :: ncol
93 >    integer :: nAtomsInRow, nGroupsInRow, aid
94 >    integer :: nAtomsInCol, nGroupsInCol, gid
95   #endif  
96  
97      simulation_setup_complete = .false.
# Line 79 | Line 101 | contains
101  
102      nLocal = CnLocal
103      nGlobal = CnGlobal
104 +    nGroups = CnGroups
105  
106      thisSim = setThisSim
107  
# Line 106 | Line 129 | contains
129         status = -1
130         return
131      endif
132 <    nrow = getNrow(plan_row)
133 <    ncol = getNcol(plan_col)
132 >    nAtomsInRow = getNatomsInRow(plan_atom_row)
133 >    nAtomsInCol = getNatomsInCol(plan_atom_col)
134 >    nGroupsInRow = getNgroupsInRow(plan_group_row)
135 >    nGroupsInCol = getNgroupsInCol(plan_group_col)
136      mynode = getMyNode()
137      
138 <    allocate(c_idents_Row(nrow),stat=alloc_stat)
138 >    allocate(c_idents_Row(nAtomsInRow),stat=alloc_stat)
139      if (alloc_stat /= 0 ) then
140         status = -1
141         return
142      endif
143  
144 <    allocate(c_idents_Col(ncol),stat=alloc_stat)
144 >    allocate(c_idents_Col(nAtomsInCol),stat=alloc_stat)
145      if (alloc_stat /= 0 ) then
146         status = -1
147         return
148      endif
149  
150 <    call gather(c_idents, c_idents_Row, plan_row)
151 <    call gather(c_idents, c_idents_Col, plan_col)
150 >    call gather(c_idents, c_idents_Row, plan_atom_row)
151 >    call gather(c_idents, c_idents_Col, plan_atom_col)
152  
153 <    do i = 1, nrow
153 >    do i = 1, nAtomsInRow
154         me = getFirstMatchingElement(atypes, "c_ident", c_idents_Row(i))
155         atid_Row(i) = me
156      enddo
157  
158 <    do i = 1, ncol
158 >    do i = 1, nAtomsInCol
159         me = getFirstMatchingElement(atypes, "c_ident", c_idents_Col(i))
160         atid_Col(i) = me
161      enddo
# Line 141 | Line 166 | contains
166      end if
167      if (allocated(c_idents_Row)) then
168         deallocate(c_idents_Row)
169 +    endif
170 +  
171 + #endif
172 +
173 + #ifdef IS_MPI
174 +    allocate(groupStartRow(nGroupsInRow+1),stat=alloc_stat)
175 +    if (alloc_stat /= 0 ) then
176 +       status = -1
177 +       return
178 +    endif
179 +    allocate(groupStartCol(nGroupsInCol+1),stat=alloc_stat)
180 +    if (alloc_stat /= 0 ) then
181 +       status = -1
182 +       return
183 +    endif
184 +    allocate(groupListRow(nAtomsInRow),stat=alloc_stat)
185 +    if (alloc_stat /= 0 ) then
186 +       status = -1
187 +       return
188 +    endif
189 +    allocate(groupListCol(nAtomsInCol),stat=alloc_stat)
190 +    if (alloc_stat /= 0 ) then
191 +       status = -1
192 +       return
193 +    endif
194 +    allocate(mfactRow(nAtomsInRow),stat=alloc_stat)
195 +    if (alloc_stat /= 0 ) then
196 +       status = -1
197 +       return
198 +    endif
199 +    allocate(mfactCol(nAtomsInCol),stat=alloc_stat)
200 +    if (alloc_stat /= 0 ) then
201 +       status = -1
202 +       return
203 +    endif
204 +    allocate(mfactLocal(nLocal),stat=alloc_stat)
205 +    if (alloc_stat /= 0 ) then
206 +       status = -1
207 +       return
208 +    endif
209 +    
210 +    glPointer = 1
211 +
212 +    do i = 1, nGroupsInRow
213 +
214 +       gid = GroupRowToGlobal(i)
215 +       groupStartRow(i) = glPointer      
216 +
217 +       do j = 1, nAtomsInRow
218 +          aid = AtomRowToGlobal(j)
219 +          if (CglobalGroupMembership(aid) .eq. gid) then
220 +             groupListRow(glPointer) = j
221 +             glPointer = glPointer + 1
222 +          endif
223 +       enddo
224 +    enddo
225 +    groupStartRow(nGroupsInRow+1) = nAtomsInRow + 1
226 +
227 +    glPointer = 1
228 +
229 +    do i = 1, nGroupsInCol
230 +
231 +       gid = GroupColToGlobal(i)
232 +       groupStartCol(i) = glPointer      
233 +
234 +       do j = 1, nAtomsInCol
235 +          aid = AtomColToGlobal(j)
236 +          if (CglobalGroupMembership(aid) .eq. gid) then
237 +             groupListCol(glPointer) = j
238 +             glPointer = glPointer + 1
239 +          endif
240 +       enddo
241 +    enddo
242 +    groupStartCol(nGroupsInCol+1) = nAtomsInCol + 1
243 +
244 +    mfactLocal = Cmfact        
245 +
246 +    call gather(mfactLocal,      mfactRow,      plan_atom_row)
247 +    call gather(mfactLocal,      mfactCol,      plan_atom_col)
248 +    
249 +    if (allocated(mfactLocal)) then
250 +       deallocate(mfactLocal)
251 +    end if
252 + #else
253 +    allocate(groupStartRow(nGroups+1),stat=alloc_stat)
254 +    if (alloc_stat /= 0 ) then
255 +       status = -1
256 +       return
257 +    endif
258 +    allocate(groupStartCol(nGroups+1),stat=alloc_stat)
259 +    if (alloc_stat /= 0 ) then
260 +       status = -1
261 +       return
262      endif
263 +    allocate(groupListRow(nLocal),stat=alloc_stat)
264 +    if (alloc_stat /= 0 ) then
265 +       status = -1
266 +       return
267 +    endif
268 +    allocate(groupListCol(nLocal),stat=alloc_stat)
269 +    if (alloc_stat /= 0 ) then
270 +       status = -1
271 +       return
272 +    endif
273 +    allocate(mfactRow(nLocal),stat=alloc_stat)
274 +    if (alloc_stat /= 0 ) then
275 +       status = -1
276 +       return
277 +    endif
278 +    allocate(mfactCol(nLocal),stat=alloc_stat)
279 +    if (alloc_stat /= 0 ) then
280 +       status = -1
281 +       return
282 +    endif
283 +    allocate(mfactLocal(nLocal),stat=alloc_stat)
284 +    if (alloc_stat /= 0 ) then
285 +       status = -1
286 +       return
287 +    endif
288 +
289 +    glPointer = 1
290 +    do i = 1, nGroups
291 +       groupStartRow(i) = glPointer      
292 +       groupStartCol(i) = glPointer
293 +       do j = 1, nLocal
294 +          if (CglobalGroupMembership(j) .eq. i) then
295 +             groupListRow(glPointer) = j
296 +             groupListCol(glPointer) = j
297 +             glPointer = glPointer + 1
298 +          endif
299 +       enddo
300 +    enddo
301 +    groupStartRow(nGroups+1) = nLocal + 1
302 +    groupStartCol(nGroups+1) = nLocal + 1
303 +
304 +    do i = 1, nLocal
305 +       mfactRow(i) = Cmfact(i)
306 +       mfactCol(i) = Cmfact(i)
307 +    end do
308      
309   #endif
310  
311 +
312   ! We build the local atid's for both mpi and nonmpi
313      do i = 1, nLocal
314        
# Line 153 | Line 317 | contains
317    
318      enddo
319  
156 –
157 –
158 –
320      do i = 1, nExcludes_Local
321         excludesLocal(1,i) = CexcludesLocal(1,i)
322         excludesLocal(2,i) = CexcludesLocal(2,i)
323      enddo
324 +
325 +    maxSkipsForAtom = 0
326 + #ifdef IS_MPI
327 +    do j = 1, nAtomsInRow
328 + #else
329 +    do j = 1, nLocal
330 + #endif
331 +       nSkipsForAtom(j) = 0
332 + #ifdef IS_MPI
333 +       id1 = AtomRowToGlobal(j)
334 + #else
335 +       id1 = j
336 + #endif
337 +       do i = 1, nExcludes_Local
338 +          if (excludesLocal(1,i) .eq. id1 ) then
339 +             nSkipsForAtom(j) = nSkipsForAtom(j) + 1
340 +
341 +             if (nSkipsForAtom(j) .gt. maxSkipsForAtom) then
342 +                maxSkipsForAtom = nSkipsForAtom(j)
343 +             endif
344 +          endif
345 +          if (excludesLocal(2,i) .eq. id1 ) then
346 +             nSkipsForAtom(j) = nSkipsForAtom(j) + 1
347 +
348 +             if (nSkipsForAtom(j) .gt. maxSkipsForAtom) then
349 +                maxSkipsForAtom = nSkipsForAtom(j)
350 +             endif
351 +          endif
352 +       end do
353 +    enddo
354 +
355 + #ifdef IS_MPI
356 +    allocate(skipsForAtom(nAtomsInRow, maxSkipsForAtom), stat=alloc_stat)
357 + #else
358 +    allocate(skipsForAtom(nLocal, maxSkipsForAtom), stat=alloc_stat)
359 + #endif
360 +    if (alloc_stat /= 0 ) then
361 +       write(*,*) 'Could not allocate skipsForAtom array'
362 +       return
363 +    endif
364 +
365 + #ifdef IS_MPI
366 +    do j = 1, nAtomsInRow
367 + #else
368 +    do j = 1, nLocal
369 + #endif
370 +       nSkipsForAtom(j) = 0
371 + #ifdef IS_MPI
372 +       id1 = AtomRowToGlobal(j)
373 + #else
374 +       id1 = j
375 + #endif
376 +       do i = 1, nExcludes_Local
377 +          if (excludesLocal(1,i) .eq. id1 ) then
378 +             nSkipsForAtom(j) = nSkipsForAtom(j) + 1
379 +             ! exclude lists have global ID's so this line is
380 +             ! the same in MPI and non-MPI
381 +             id2 = excludesLocal(2,i)
382 +             skipsForAtom(j, nSkipsForAtom(j)) = id2
383 +          endif
384 +          if (excludesLocal(2, i) .eq. id2 ) then
385 +             nSkipsForAtom(j) = nSkipsForAtom(j) + 1
386 +             ! exclude lists have global ID's so this line is
387 +             ! the same in MPI and non-MPI
388 +             id2 = excludesLocal(1,i)
389 +             skipsForAtom(j, nSkipsForAtom(j)) = id2
390 +          endif
391 +       end do
392 +    enddo
393      
394      do i = 1, nExcludes_Global
395         excludesGlobal(i) = CexcludesGlobal(i)
# Line 167 | Line 397 | contains
397  
398      do i = 1, nGlobal
399         molMemberShipList(i) = CmolMembership(i)
400 <     enddo
401 <
400 >    enddo
401 >    
402      if (status == 0) simulation_setup_complete = .true.
403      
404    end subroutine SimulationSetup
# Line 257 | Line 487 | contains
487      thisStat = 0
488      
489      call FreeSimGlobals()    
490 +
491 +    allocate(nSkipsForAtom(nLocal), stat=alloc_stat)
492 +    if (alloc_stat /= 0 ) then
493 +       thisStat = -1
494 +       return
495 +    endif
496      
497      allocate(excludesLocal(2,nExcludes_Local), stat=alloc_stat)
498      if (alloc_stat /= 0 ) then
# Line 282 | Line 518 | contains
518      
519      !We free in the opposite order in which we allocate in.
520  
521 +    if (allocated(skipsForAtom)) deallocate(skipsForAtom)
522 +    if (allocated(mfactLocal)) deallocate(mfactLocal)
523 +    if (allocated(mfactCol)) deallocate(mfactCol)
524 +    if (allocated(mfactRow)) deallocate(mfactRow)
525 +    if (allocated(groupListCol)) deallocate(groupListCol)    
526 +    if (allocated(groupListRow)) deallocate(groupListRow)    
527 +    if (allocated(groupStartCol)) deallocate(groupStartCol)
528 +    if (allocated(groupStartRow)) deallocate(groupStartRow)    
529      if (allocated(molMembershipList)) deallocate(molMembershipList)    
530      if (allocated(excludesGlobal)) deallocate(excludesGlobal)
531      if (allocated(excludesLocal)) deallocate(excludesLocal)
532 <
532 >    
533    end subroutine FreeSimGlobals
534 <
534 >  
535    pure function getNlocal() result(n)
536      integer :: n
537      n = nLocal
538    end function getNlocal
295 –
539    
540 +  
541   end module simulation

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