2019-01-25 11:39:31 +01:00
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BEGIN_PROVIDER [ double precision, nucl_coord, (nucl_num,3) ]
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implicit none
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BEGIN_DOC
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! Nuclear coordinates in the format (:, {x,y,z})
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END_DOC
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PROVIDE ezfio_filename nucl_label nucl_charge
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if (mpi_master) then
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double precision, allocatable :: buffer(:,:)
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nucl_coord = 0.d0
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allocate (buffer(nucl_num,3))
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buffer = 0.d0
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logical :: has
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call ezfio_has_nuclei_nucl_coord(has)
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if (.not.has) then
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print *, irp_here
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stop 1
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endif
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call ezfio_get_nuclei_nucl_coord(buffer)
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integer :: i,j
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do i=1,3
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do j=1,nucl_num
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nucl_coord(j,i) = buffer(j,i)
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enddo
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enddo
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deallocate(buffer)
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character*(64), parameter :: f = '(A16, 4(1X,F12.6))'
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character*(64), parameter :: ft= '(A16, 4(1X,A12 ))'
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double precision, parameter :: a0= 0.529177249d0
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call write_time(6)
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write(6,'(A)') ''
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write(6,'(A)') 'Nuclear Coordinates (Angstroms)'
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write(6,'(A)') '==============================='
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write(6,'(A)') ''
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write(6,ft) &
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'================','============','============','============','============'
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write(6,*) &
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' Atom Charge X Y Z '
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write(6,ft) &
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'================','============','============','============','============'
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2020-05-25 09:18:31 +02:00
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2019-01-25 11:39:31 +01:00
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do i=1,nucl_num
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write(6,f) nucl_label(i), nucl_charge(i), &
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nucl_coord(i,1)*a0, &
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nucl_coord(i,2)*a0, &
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nucl_coord(i,3)*a0
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enddo
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write(6,ft) &
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'================','============','============','============','============'
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write(6,'(A)') ''
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2020-05-25 18:11:27 +02:00
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if (nucl_num > 1) then
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double precision :: dist_min, x, y, z
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dist_min = huge(1.d0)
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do i=1,nucl_num
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do j=i+1,nucl_num
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x = nucl_coord(i,1)-nucl_coord(j,1)
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y = nucl_coord(i,2)-nucl_coord(j,2)
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z = nucl_coord(i,3)-nucl_coord(j,3)
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dist_min = min(x*x + y*y + z*z, dist_min)
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enddo
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2020-05-25 09:18:31 +02:00
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enddo
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2020-05-25 18:11:27 +02:00
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write(6,'(A,F12.4,A)') 'Minimal interatomic distance found: ', &
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dsqrt(dist_min)*a0,' Angstrom'
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endif
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2020-05-25 09:18:31 +02:00
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2019-01-25 11:39:31 +01:00
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endif
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IRP_IF MPI_DEBUG
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print *, irp_here, mpi_rank
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call MPI_BARRIER(MPI_COMM_WORLD, ierr)
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IRP_ENDIF
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IRP_IF MPI
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include 'mpif.h'
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integer :: ierr
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call MPI_BCAST( nucl_coord, 3*nucl_num, MPI_DOUBLE_PRECISION, 0, MPI_COMM_WORLD, ierr)
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if (ierr /= MPI_SUCCESS) then
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stop 'Unable to read nucl_coord with MPI'
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endif
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IRP_ENDIF
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END_PROVIDER
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BEGIN_PROVIDER [ double precision, nucl_coord_transp, (3,nucl_num) ]
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implicit none
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BEGIN_DOC
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! Transposed array of nucl_coord
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END_DOC
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integer :: i, k
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nucl_coord_transp = 0.d0
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do i=1,nucl_num
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nucl_coord_transp(1,i) = nucl_coord(i,1)
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nucl_coord_transp(2,i) = nucl_coord(i,2)
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nucl_coord_transp(3,i) = nucl_coord(i,3)
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enddo
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END_PROVIDER
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BEGIN_PROVIDER [ double precision, nucl_dist_inv, (nucl_num,nucl_num) ]
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implicit none
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BEGIN_DOC
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! Inverse of the distance between nucleus I and nucleus J
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END_DOC
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integer :: ie1, ie2, l
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do ie1 = 1, nucl_num
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do ie2 = 1, nucl_num
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if(ie1 /= ie2) then
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nucl_dist_inv(ie2,ie1) = 1.d0/nucl_dist(ie2,ie1)
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else
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nucl_dist_inv(ie2,ie1) = 0.d0
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endif
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enddo
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enddo
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END_PROVIDER
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BEGIN_PROVIDER [ double precision, nucl_dist_2, (nucl_num,nucl_num) ]
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&BEGIN_PROVIDER [ double precision, nucl_dist_vec_x, (nucl_num,nucl_num) ]
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&BEGIN_PROVIDER [ double precision, nucl_dist_vec_y, (nucl_num,nucl_num) ]
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&BEGIN_PROVIDER [ double precision, nucl_dist_vec_z, (nucl_num,nucl_num) ]
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&BEGIN_PROVIDER [ double precision, nucl_dist, (nucl_num,nucl_num) ]
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implicit none
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BEGIN_DOC
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! nucl_dist : Nucleus-nucleus distances
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! nucl_dist_2 : Nucleus-nucleus distances squared
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! nucl_dist_vec : Nucleus-nucleus distances vectors
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END_DOC
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integer :: ie1, ie2, l
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do ie2 = 1,nucl_num
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do ie1 = 1,nucl_num
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nucl_dist_vec_x(ie1,ie2) = nucl_coord(ie1,1) - nucl_coord(ie2,1)
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nucl_dist_vec_y(ie1,ie2) = nucl_coord(ie1,2) - nucl_coord(ie2,2)
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nucl_dist_vec_z(ie1,ie2) = nucl_coord(ie1,3) - nucl_coord(ie2,3)
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enddo
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do ie1 = 1,nucl_num
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nucl_dist_2(ie1,ie2) = nucl_dist_vec_x(ie1,ie2)*nucl_dist_vec_x(ie1,ie2) +&
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nucl_dist_vec_y(ie1,ie2)*nucl_dist_vec_y(ie1,ie2) + &
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nucl_dist_vec_z(ie1,ie2)*nucl_dist_vec_z(ie1,ie2)
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nucl_dist(ie1,ie2) = sqrt(nucl_dist_2(ie1,ie2))
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enddo
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enddo
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END_PROVIDER
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BEGIN_PROVIDER [ double precision, nuclear_repulsion ]
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implicit none
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BEGIN_DOC
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! Nuclear repulsion energy
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END_DOC
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PROVIDE mpi_master nucl_coord nucl_charge nucl_num
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2019-07-23 14:54:03 +02:00
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if (io_nuclear_repulsion == 'Read') then
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2019-01-25 11:39:31 +01:00
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logical :: has
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if (mpi_master) then
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call ezfio_has_nuclei_nuclear_repulsion(has)
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if (has) then
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call ezfio_get_nuclei_nuclear_repulsion(nuclear_repulsion)
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else
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print *, 'nuclei/nuclear_repulsion not found in EZFIO file'
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stop 1
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endif
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print*, 'Read nuclear_repulsion'
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endif
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IRP_IF MPI_DEBUG
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print *, irp_here, mpi_rank
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call MPI_BARRIER(MPI_COMM_WORLD, ierr)
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IRP_ENDIF
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IRP_IF MPI
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include 'mpif.h'
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integer :: ierr
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call MPI_BCAST( nuclear_repulsion, 1, MPI_DOUBLE_PRECISION, 0, MPI_COMM_WORLD, ierr)
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if (ierr /= MPI_SUCCESS) then
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stop 'Unable to read nuclear_repulsion with MPI'
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endif
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IRP_ENDIF
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else
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integer :: k,l
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double precision :: Z12, r2, x(3)
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nuclear_repulsion = 0.d0
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do l = 1, nucl_num
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do k = 1, nucl_num
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if(k == l) then
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cycle
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endif
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Z12 = nucl_charge(k)*nucl_charge(l)
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x(1) = nucl_coord(k,1) - nucl_coord(l,1)
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x(2) = nucl_coord(k,2) - nucl_coord(l,2)
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x(3) = nucl_coord(k,3) - nucl_coord(l,3)
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r2 = x(1)*x(1) + x(2)*x(2) + x(3)*x(3)
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nuclear_repulsion += Z12/dsqrt(r2)
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enddo
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enddo
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nuclear_repulsion *= 0.5d0
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2023-02-07 12:50:33 +01:00
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if(point_charges)then
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nuclear_repulsion += pt_chrg_nuclei_interaction + pt_chrg_interaction
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endif
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2019-01-25 11:39:31 +01:00
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end if
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call write_time(6)
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call write_double(6,nuclear_repulsion,'Nuclear repulsion energy')
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2019-07-23 14:54:03 +02:00
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if (io_nuclear_repulsion == 'Write') then
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2019-01-25 11:39:31 +01:00
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if (mpi_master) then
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call ezfio_set_nuclei_nuclear_repulsion(nuclear_repulsion)
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endif
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endif
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END_PROVIDER
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BEGIN_PROVIDER [ character*(4), element_name, (0:127)]
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&BEGIN_PROVIDER [ double precision, element_mass, (0:127) ]
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implicit none
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BEGIN_DOC
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! Array of the name of element, sorted by nuclear charge (integer)
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END_DOC
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integer :: iunit, i
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integer, external :: getUnitAndOpen
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2020-05-15 15:03:06 +02:00
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character*(1024) :: filename
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2019-01-25 11:39:31 +01:00
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if (mpi_master) then
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call getenv('QP_ROOT',filename)
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filename = trim(filename)//'/data/list_element.txt'
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iunit = getUnitAndOpen(filename,'r')
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element_mass(:) = 0.d0
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do i=0,127
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write(element_name(i),'(I4)') i
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enddo
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character*(80) :: buffer, dummy
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do
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read(iunit,'(A80)',end=10) buffer
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read(buffer,*) i ! First read i
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read(buffer,*) i, element_name(i), dummy, element_mass(i)
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enddo
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10 continue
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close(10)
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endif
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IRP_IF MPI_DEBUG
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print *, irp_here, mpi_rank
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call MPI_BARRIER(MPI_COMM_WORLD, ierr)
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IRP_ENDIF
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IRP_IF MPI
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include 'mpif.h'
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integer :: ierr
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call MPI_BCAST( element_name, 128*4, MPI_CHARACTER, 0, MPI_COMM_WORLD, ierr)
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if (ierr /= MPI_SUCCESS) then
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stop 'Unable to read element_name with MPI'
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endif
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call MPI_BCAST( element_mass, 128, MPI_DOUBLE_PRECISION, 0, MPI_COMM_WORLD, ierr)
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if (ierr /= MPI_SUCCESS) then
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stop 'Unable to read element_name with MPI'
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endif
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IRP_ENDIF
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END_PROVIDER
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BEGIN_PROVIDER [ double precision, center_of_mass, (3) ]
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implicit none
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BEGIN_DOC
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! Center of mass of the molecule
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END_DOC
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integer :: i,j
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double precision :: s
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center_of_mass(:) = 0.d0
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s = 0.d0
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do i=1,nucl_num
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do j=1,3
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center_of_mass(j) += nucl_coord(i,j)* element_mass(int(nucl_charge(i)))
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enddo
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s += element_mass(int(nucl_charge(i)))
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enddo
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s = 1.d0/s
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center_of_mass(:) = center_of_mass(:)*s
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END_PROVIDER
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