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Commit 506b9c5d authored by Antoine Cyril David Hoffmann's avatar Antoine Cyril David Hoffmann :seedling:
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Miller is now working 

kx grid uses now the Cyq0_x0 factor
grid module init first the indices
parent 9050c212
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src/auxval.F90
+ 2
− 3
View file @ 506b9c5d
......@@ -19,6 +19,7 @@ subroutine auxval
INTEGER :: i_, ierr
CALL speak('=== Set auxiliary values ===')
! Init the grids
CALL init_grids_data(Na,EM,LINEARITY)
CALL set_grids(shear,Npol,LINEARITY,N_HD,EM,Na)
! Allocate memory for global arrays
CALL memory
......@@ -40,13 +41,11 @@ subroutine auxval
! precompute the hermite fourth derivative table
CALL build_dv4Hp_table
! set the closure scheme in use
CALL set_closure_model
CALL set_closure_model
#ifdef TEST_SVD
! If we want to test SVD decomposition etc.
CALL init_CLA(local_nky,local_np*local_nj)
#endif
!! Display parallel settings
CALL mpi_barrier(MPI_COMM_WORLD, ierr)
DO i_ = 0,num_procs-1
......
src/grid_mod.F90
+ 198
− 183
View file @ 506b9c5d
......@@ -108,8 +108,8 @@ MODULE grid
REAL(xp), DIMENSION(:), ALLOCATABLE, PUBLIC,PROTECTED :: AA_y
! Public Functions
PUBLIC :: init_1Dgrid_distr
PUBLIC :: set_grids, set_kparray
PUBLIC :: init_1Dgrid_distr, init_grids_data
PUBLIC :: set_grids, set_kxgrid, set_kparray
PUBLIC :: grid_readinputs, grid_outputinputs
PUBLIC :: bar
......@@ -118,7 +118,6 @@ MODULE grid
CONTAINS
SUBROUTINE grid_readinputs
! Read the input parameters
USE prec_const
......@@ -135,6 +134,136 @@ CONTAINS
inv_Nx = 1._xp/REAL(Nx,xp)
inv_Ny = 1._xp/REAL(Ny,xp)
END SUBROUTINE grid_readinputs
!! Init the local and global number of points in all directions
SUBROUTINE init_grids_data(Na,EM,LINEARITY)
USE fourier, ONLY: init_grid_distr_and_plans
USE parallel, ONLY: num_procs_p, rank_p, num_procs_z, rank_z
IMPLICIT NONE
INTEGER, INTENT(IN) :: Na ! number of species coming from the model module
LOGICAL, INTENT(IN) :: EM ! electromagnetic effects (to skip odd Hermite or not)
CHARACTER(len=*), INTENT(IN) :: LINEARITY ! Linear or nonlinear run
INTEGER :: in, istart, iend
!!----------------- SPECIES INDICES (not parallelized)
ias = 1
iae = Na
total_Na = Na
local_Na = Na
local_Na_offset = ias - 1
!!----------------- HERMITE INDICES (parallelized)
! If no parallel dim (Nz=1) and no EM effects (beta=0), the moment hierarchy
!! is separable between odds and even P
IF((Nz .EQ. 1) .AND. .NOT. EM) THEN
deltap = 2
Ngp = 2 ! two ghosts cells for p+/-2 only
pp2 = 1 ! index p+2 is ip+1
ELSE
deltap = 1
Ngp = 4 ! four ghosts cells for p+/-1 and p+/-2 terms
pp2 = 2 ! index p+2 is ip+2
ENDIF
! Total number of Hermite polynomials we will evolve
total_np = (Pmax/deltap) + 1
! Local data distribution
CALL decomp1D(total_np, num_procs_p, rank_p, ips, ipe)
local_np = ipe - ips + 1
local_np_offset = ips - 1
! Allocate the grid arrays
ALLOCATE(parray_full(total_np))
ALLOCATE(parray(local_np+ngp))
!!----------------- LAGUERRE INDICES (not parallelized)
! Total number of J degrees
total_nj = jmax+1
local_jmax = jmax
Ngj= 2 ! 2-points ghosts for j+\-1 terms
! Indices of local data
ijs = 1; ije = jmax + 1
! Local number of J
local_nj = ije - ijs + 1
local_nj_offset = ijs - 1
! allocate global and local
ALLOCATE(jarray_full(total_nj))
ALLOCATE(jarray(local_nj+ngj))
ALLOCATE(kroneck_j0(local_nj+ngj));
ALLOCATE(kroneck_j1(local_nj+ngj));
!!----------------- SPATIAL GRIDS (parallelized)
!! Parallel distribution of kx ky grid
IF (LINEARITY .NE. 'linear') THEN ! we let FFTW distribute if we use it
IF (my_id .EQ. 0) write(*,*) 'FFTW3 y-grid distribution'
CALL init_grid_distr_and_plans(Nx,Ny,comm_ky,local_nkx_ptr,local_nkx_ptr_offset,local_nky_ptr,local_nky_ptr_offset)
ELSE ! otherwise we distribute equally
IF (my_id .EQ. 0) write(*,*) 'Manual y-grid distribution'
CALL init_1Dgrid_distr
ENDIF
!!----------------- BINORMAL KY INDICES (parallelized)
Nky = Ny/2+1 ! Defined only on positive kx since fields are real
total_nky = Nky
Ngy = 0 ! no ghosts cells in ky
ikys = local_nky_ptr_offset + 1
ikye = ikys + local_nky_ptr - 1
local_nky = ikye - ikys + 1
local_nky_offset = local_nky_ptr_offset
ALLOCATE(kyarray_full(Nky))
ALLOCATE(kyarray(local_nky))
ALLOCATE(AA_y(local_nky))
!!---------------- RADIAL KX INDICES (not parallelized)
Nkx = Nx
total_nkx = Nx
ikxs = 1
ikxe = total_nkx
local_nkx_ptr = ikxe - ikxs + 1
local_nkx = ikxe - ikxs + 1
local_nkx_offset = ikxs - 1
ALLOCATE(kxarray(local_nkx))
ALLOCATE(kxarray_full(total_nkx))
ALLOCATE(AA_x(local_nkx))
!!---------------- PARALLEL Z GRID (parallelized)
total_nz = Nz
IF (SG) THEN
CALL speak('--2 staggered z grids--')
! indices for even p and odd p grids (used in kernel, jacobian, gij etc.)
ieven = 1
iodd = 2
nzgrid = 2
ELSE
ieven = 1
iodd = 1
nzgrid = 1
ENDIF
!! Parallel data distribution
IF( (Nz .EQ. 1) .AND. (num_procs_z .GT. 1) ) &
ERROR STOP '>> ERROR << Cannot have multiple core in z-direction (Nz = 1)'
! Local data distribution
CALL decomp1D(total_nz, num_procs_z, rank_z, izs, ize)
local_nz = ize - izs + 1
local_nz_offset = izs - 1
! Ghosts boundaries (depend on the order of z operators)
IF(Nz .EQ. 1) THEN
ngz = 0
ELSEIF(Nz .GE. 4) THEN
ngz =4
IF(mod(Nz,2) .NE. 0 ) THEN
ERROR STOP '>> ERROR << Nz must be an even number for Simpson integration rule !!!!'
ENDIF
ELSE
ERROR STOP '>> ERROR << Nz is not appropriate!!'
ENDIF
ALLOCATE(zarray(local_nz+ngz,nzgrid))
ALLOCATE(zarray_full(total_nz))
ALLOCATE(counts_nz (num_procs_z))
ALLOCATE(displs_nz (num_procs_z))
CALL allocate_array(local_zmax,1,nzgrid)
CALL allocate_array(local_zmin,1,nzgrid)
ALLOCATE(zweights_SR(local_nz))
! List of shift and local numbers between the different processes (used in scatterv and gatherv)
DO in = 0,num_procs_z-1
CALL decomp1D(total_nz, num_procs_z, in, istart, iend)
counts_nz(in+1) = iend-istart+1
displs_nz(in+1) = istart-1
ENDDO
!!---------------- Kperp grid
CALL allocate_array( kparray, 1,local_nky, 1,local_nkx, 1,local_nz+ngz, 1,nzgrid)
END SUBROUTINE
!!!! GRID REPRESENTATION
! We define the grids that contain ghosts (p,j,z) with indexing from 1 to Nlocal + nghost
! e.g. nghost = 4, nlocal = 4
......@@ -145,7 +274,6 @@ CONTAINS
! |_|_|_|_|
! 1 2 3 4
SUBROUTINE set_grids(shear,Npol,LINEARITY,N_HD,EM,Na)
USE fourier, ONLY: init_grid_distr_and_plans
REAL(xp), INTENT(IN) :: shear, Npol
CHARACTER(len=*), INTENT(IN) :: LINEARITY
INTEGER, INTENT(IN) :: N_HD
......@@ -154,16 +282,8 @@ CONTAINS
CALL set_agrid(Na)
CALL set_pgrid(EM)
CALL set_jgrid
!! Parallel distribution of kx ky grid
IF (LINEARITY .NE. 'linear') THEN
IF (my_id .EQ. 0) write(*,*) 'FFTW3 y-grid distribution'
CALL init_grid_distr_and_plans(Nx,Ny,comm_ky,local_nkx_ptr,local_nkx_ptr_offset,local_nky_ptr,local_nky_ptr_offset)
ELSE
CALL init_1Dgrid_distr
IF (my_id .EQ. 0) write(*,*) 'Manual y-grid distribution'
ENDIF
CALL set_kygrid(LINEARITY,N_HD)
CALL set_kxgrid(shear,Npol,LINEARITY,N_HD)
CALL set_kxgrid(shear,Npol,1._xp,LINEARITY,N_HD) ! this will be redone after geometry if Cyq0_x0 .NE. 1
CALL set_zgrid (Npol)
END SUBROUTINE set_grids
......@@ -188,39 +308,14 @@ CONTAINS
SUBROUTINE set_pgrid(EM)
USE prec_const
USE parallel, ONLY: num_procs_p, rank_p
IMPLICIT NONE
LOGICAL, INTENT(IN) :: EM
INTEGER :: ip
! If no parallel dim (Nz=1) and no EM effects (beta=0), the moment hierarchy
!! is separable between odds and even P and since the energy is injected in
!! P=0 and P=2 for density/temperature gradients there is no need of
!! simulating the odd p which will only be damped.
!! We define in this case a grid Parray = 0,2,4,...,Pmax i.e. deltap = 2
!! instead of 1 to spare computation
IF((Nz .EQ. 1) .AND. .NOT. EM) THEN
deltap = 2
Ngp = 2 ! two ghosts cells for p+/-2 only
pp2 = 1 ! index p+2 is ip+1
ELSE
deltap = 1
Ngp = 4 ! four ghosts cells for p+/-1 and p+/-2 terms
pp2 = 2 ! index p+2 is ip+2
ENDIF
! Total number of Hermite polynomials we will evolve
total_np = (Pmax/deltap) + 1
! Build the full grids on process 0 to diagnose it without comm
ALLOCATE(parray_full(total_np))
! P
DO ip = 1,total_np; parray_full(ip) = (ip-1)*deltap; END DO
!! Parallel data distribution
! Local data distribution
CALL decomp1D(total_np, num_procs_p, rank_p, ips, ipe)
local_np = ipe - ips + 1
local_np_offset = ips - 1
!! local grid computations
! Allocate and fill pgrid array
ALLOCATE(parray(local_np+ngp))
! Fill pgrid array
DO ip = 1,local_np+ngp
parray(ip) = (ip-1-ngp/2+local_np_offset)*deltap
ENDDO
......@@ -279,20 +374,11 @@ CONTAINS
USE prec_const
IMPLICIT NONE
INTEGER :: ij
! Total number of J degrees
total_nj = jmax+1
local_jmax = jmax
Ngj= 2 ! 2-points ghosts for j+\-1 terms
! Build the full grids on process 0 to diagnose it without comm
ALLOCATE(jarray_full(total_nj))
! J
DO ij = 1,total_nj; jarray_full(ij) = (ij-1); END DO
! Indices of local data
ijs = 1; ije = jmax + 1
! Local number of J
local_nj = ije - ijs + 1
local_nj_offset = ijs - 1
ALLOCATE(jarray(local_nj+ngj))
DO ij = 1,total_nj
jarray_full(ij) = (ij-1)
END DO
DO ij = 1,local_nj+ngj
jarray(ij) = ij-1-ngj/2+local_nj_offset
END DO
......@@ -307,8 +393,8 @@ CONTAINS
IF(jarray(ij) .EQ. 1) ij1 = ij
END DO
! Kronecker arrays for j
ALLOCATE(kroneck_j0(local_nj+ngj)); kroneck_j0 = 0._xp
ALLOCATE(kroneck_j1(local_nj+ngj)); kroneck_j1 = 0._xp
kroneck_j0 = 0._xp
kroneck_j1 = 0._xp
DO ij = 1,local_nj+ngj
SELECT CASE(jarray(ij))
CASE(0)
......@@ -325,29 +411,18 @@ CONTAINS
CHARACTER(len=*), INTENT(IN) ::LINEARITY
INTEGER, INTENT(IN) :: N_HD
INTEGER :: iky
Nky = Ny/2+1 ! Defined only on positive kx since fields are real
total_nky = Nky
! Grid spacings
IF (Ny .EQ. 1) THEN
deltaky = 2._xp*PI/Ly
ky_max = deltaky
ky_min = deltaky
ERROR STOP "Gyacomo cannot run with only one ky"
ELSE
deltaky = 2._xp*PI/Ly
ky_max = (Nky-1)*deltaky
ky_min = deltaky
ENDIF
Ngy = 0 ! no ghosts cells in ky
! Build the full grids on process 0 to diagnose it without comm
ALLOCATE(kyarray_full(Nky))
DO iky = 1,Nky
kyarray_full(iky) = REAL(iky-1,xp) * deltaky
END DO
ikys = local_nky_ptr_offset + 1
ikye = ikys + local_nky_ptr - 1
local_nky = ikye - ikys + 1
local_nky_offset = local_nky_ptr_offset
ALLOCATE(kyarray(local_nky))
local_kymax = 0._xp
! Creating a grid ordered as dk*(0 1 2 3)
! We loop over the natural iky numbers (|1 2 3||4 5 6||... Nky|)
......@@ -378,7 +453,6 @@ CONTAINS
END DO
! Orszag 2/3 filter
two_third_kymax = 2._xp/3._xp*deltaky*(Nky-1)
ALLOCATE(AA_y(local_nky))
DO iky = 1,local_nky
IF ( (kyarray(iky) .LT. two_third_kymax) .OR. (LINEARITY .EQ. 'linear')) THEN
AA_y(iky) = 1._xp;
......@@ -394,10 +468,10 @@ CONTAINS
ENDIF
END SUBROUTINE set_kygrid
SUBROUTINE set_kxgrid(shear,Npol,LINEARITY,N_HD)
SUBROUTINE set_kxgrid(shear,Npol,Cyq0_x0,LINEARITY,N_HD)
USE prec_const
IMPLICIT NONE
REAL(xp), INTENT(IN) :: shear, Npol
REAL(xp), INTENT(IN) :: shear, Npol, Cyq0_x0
CHARACTER(len=*), INTENT(IN) ::LINEARITY
INTEGER, INTENT(IN) :: N_HD
INTEGER :: ikx
......@@ -405,7 +479,7 @@ CONTAINS
IF(shear .GT. 0) THEN
IF(my_id.EQ.0) write(*,*) 'Magnetic shear detected: set up sheared kx grid..'
! mininal size of box in x to respect dkx = 2pi shear dky
Lx_adapted = Ly/(2._xp*pi*shear*Npol)
Lx_adapted = Ly/(2._xp*pi*shear*Npol*Cyq0_x0)
! Put Nexc to 0 so that it is computed from a target value Lx
IF(Nexc .EQ. 0) THEN
Nexc = CEILING(0.9 * Lx/Lx_adapted)
......@@ -414,60 +488,36 @@ CONTAINS
! x length is adapted
Lx = Lx_adapted*Nexc
ENDIF
Nkx = Nx
total_nkx = Nx
! Local data
! Start and END indices of grid
ikxs = 1
ikxe = total_nkx
local_nkx_ptr = ikxe - ikxs + 1
local_nkx = ikxe - ikxs + 1
local_nkx_offset = ikxs - 1
ALLOCATE(kxarray(local_nkx))
ALLOCATE(kxarray_full(total_nkx))
IF (Nx .EQ. 1) THEN
deltakx = 1._xp
kxarray(1) = 0._xp
ikx0 = 1
contains_kx0 = .true.
kx_max = 0._xp
ikx_max = 1
kx_min = 0._xp
kxarray_full(1) = 0._xp
local_kxmax = 0._xp
ELSE ! Build apprpopriate grid
deltakx = 2._xp*PI/Lx
IF(MODULO(total_nkx,2) .EQ. 0) THEN ! Even number of kx (-2 -1 0 1 2 3)
! Creating a grid ordered as dk*(0 1 2 3 -2 -1)
DO ikx = 1,total_nkx
kxarray_full(ikx) = deltakx*REAL(MODULO(ikx-1,total_nkx/2)-(total_nkx/2)*FLOOR(2.*real(ikx-1)/real(total_nkx)),xp)
IF (ikx .EQ. total_nkx/2+1) kxarray_full(ikx) = -kxarray_full(ikx)
END DO
kx_max = MAXVAL(kxarray_full)!(total_nkx/2)*deltakx
kx_min = MINVAL(kxarray_full)!-kx_max+deltakx
! Set local grid (not parallelized so same as full one)
local_kxmax = 0._xp
DO ikx = 1,local_nkx
kxarray(ikx) = kxarray_full(ikx+local_nkx_offset)
! Finding kx=0
IF (kxarray(ikx) .EQ. 0) THEN
ikx0 = ikx
contains_kx0 = .true.
ENDIF
! Finding local kxmax
IF (ABS(kxarray(ikx)) .GT. local_kxmax) THEN
local_kxmax = ABS(kxarray(ikx))
ikx_max = ikx
ENDIF
END DO
ELSE ! Odd number of kx (-2 -1 0 1 2)
ERROR STOP "Gyacomo is safer with a even Kx number"
ENDIF
deltakx = 2._xp*PI/Lx
IF(MODULO(total_nkx,2) .EQ. 0) THEN ! Even number of kx (-2 -1 0 1 2 3)
! Creating a grid ordered as dk*(0 1 2 3 -2 -1)
DO ikx = 1,total_nkx
kxarray_full(ikx) = deltakx*REAL(MODULO(ikx-1,total_nkx/2)-(total_nkx/2)*FLOOR(2.*real(ikx-1)/real(total_nkx)),xp)
IF (ikx .EQ. total_nkx/2+1) kxarray_full(ikx) = -kxarray_full(ikx)
END DO
kx_max = MAXVAL(kxarray_full)!(total_nkx/2)*deltakx
kx_min = MINVAL(kxarray_full)!-kx_max+deltakx
! Set local grid (not parallelized so same as full one)
local_kxmax = 0._xp
DO ikx = 1,local_nkx
kxarray(ikx) = kxarray_full(ikx+local_nkx_offset)
! Finding kx=0
IF (kxarray(ikx) .EQ. 0) THEN
ikx0 = ikx
contains_kx0 = .true.
ENDIF
! Finding local kxmax
IF (ABS(kxarray(ikx)) .GT. local_kxmax) THEN
local_kxmax = ABS(kxarray(ikx))
ikx_max = ikx
ENDIF
END DO
ELSE ! Odd number of kx (-2 -1 0 1 2)
ERROR STOP "Gyacomo is safer with an even Kx number"
ENDIF
! Orszag 2/3 filter
two_third_kxmax = 2._xp/3._xp*kx_max;
! Antialiasing filter
ALLOCATE(AA_x(local_nkx))
DO ikx = 1,local_nkx
IF ( ((kxarray(ikx) .GT. -two_third_kxmax) .AND. &
(kxarray(ikx) .LT. two_third_kxmax)) .OR. (LINEARITY .EQ. 'linear')) THEN
......@@ -486,11 +536,9 @@ CONTAINS
SUBROUTINE set_zgrid(Npol)
USE prec_const
USE parallel, ONLY: num_procs_z, rank_z
IMPLICIT NONE
REAL(xp):: grid_shift, Lz, zmax, zmin, Npol
INTEGER :: istart, iend, in, iz, ig, eo, iglob
total_nz = Nz
INTEGER :: iz, ig, eo
! Length of the flux tube (in ballooning angle)
Lz = 2._xp*pi*Npol
! Z stepping (#interval = #points since periodic)
......@@ -499,80 +547,48 @@ CONTAINS
! Parallel hyperdiffusion coefficient
diff_dz_coeff = (deltaz/2._xp)**4 ! adaptive fourth derivative (~GENE)
IF (SG) THEN
CALL speak('--2 staggered z grids--')
grid_shift = deltaz/2._xp
! indices for even p and odd p grids (used in kernel, jacobian, gij etc.)
ieven = 1
iodd = 2
nzgrid = 2
ELSE
grid_shift = 0._xp
ieven = 1
iodd = 1
nzgrid = 1
ENDIF
! Build the full grids on process 0 to diagnose it without comm
ALLOCATE(zarray_full(total_nz))
IF (Nz .EQ. 1) Npol = 0._xp
zmax = 0; zmin = 0;
DO iz = 1,total_nz ! z in [-pi pi-dz] x Npol
zarray_full(iz) = REAL(iz-1,xp)*deltaz - Lz/2._xp
IF(zarray_full(iz) .GT. zmax) zmax = zarray_full(iz)
IF(zarray_full(iz) .LT. zmin) zmin = zarray_full(iz)
END DO
!! Parallel data distribution
IF( (Nz .EQ. 1) .AND. (num_procs_z .GT. 1) ) &
ERROR STOP '>> ERROR << Cannot have multiple core in z-direction (Nz = 1)'
! Local data distribution
CALL decomp1D(total_nz, num_procs_z, rank_z, izs, ize)
local_nz = ize - izs + 1
local_nz_offset = izs - 1
! Ghosts boundaries (depend on the order of z operators)
IF(Nz .EQ. 1) THEN
ngz = 0
zarray_full(izs) = 0
ELSEIF(Nz .GE. 4) THEN
ngz =4
IF(mod(Nz,2) .NE. 0 ) THEN
ERROR STOP '>> ERROR << Nz must be an even number for Simpson integration rule !!!!'
ENDIF
ELSE
ERROR STOP '>> ERROR << Nz is not appropriate!!'
ENDIF
! List of shift and local numbers between the different processes (used in scatterv and gatherv)
ALLOCATE(counts_nz (num_procs_z))
ALLOCATE(displs_nz (num_procs_z))
DO in = 0,num_procs_z-1
CALL decomp1D(total_nz, num_procs_z, in, istart, iend)
counts_nz(in+1) = iend-istart+1
displs_nz(in+1) = istart-1
ENDDO
! Build the full grids on process 0 to diagnose it without comm
IF (Nz .EQ. 1) &
Npol = 0._xp
zmax = 0; zmin = 0;
DO iz = 1,total_nz ! z in [-pi pi-dz] x Npol
zarray_full(iz) = REAL(iz-1,xp)*deltaz - Lz/2._xp
IF(zarray_full(iz) .GT. zmax) zmax = zarray_full(iz)
IF(zarray_full(iz) .LT. zmin) zmin = zarray_full(iz)
END DO
IF(Nz .EQ. 1) &
zarray_full(izs) = 0
! Local z array
ALLOCATE(zarray(local_nz+ngz,nzgrid))
!! interior point loop
DO iz = 1,local_nz
DO eo = 1,nzgrid
zarray(iz+ngz/2,eo) = zarray_full(iz+local_nz_offset) + REAL(eo-1,xp)*grid_shift
ENDDO
ENDDO
CALL allocate_array(local_zmax,1,nzgrid)
CALL allocate_array(local_zmin,1,nzgrid)
DO eo = 1,nzgrid
! Find local extrema
local_zmax(eo) = zarray(local_nz+ngz/2,eo)
local_zmin(eo) = zarray(1+ngz/2,eo)
! Periodic z \in (-pi pi-dz)
DO ig = 1,ngz/2 ! first ghost cells
iglob = ig+local_nz_offset-ngz/2
IF (iglob .LE. 0) &
iglob = iglob + total_nz
zarray(ig,eo) = zarray_full(iglob)
ENDDO
DO ig = local_nz+ngz/2,local_nz+ngz ! last ghost cells
iglob = ig+local_nz_offset-ngz/2
IF (iglob .GT. total_nz) &
iglob = iglob - total_nz
zarray(ig,eo) = zarray_full(iglob)
! DO ig = 1,ngz/2 ! first ghost cells
! iglob = ig+local_nz_offset-ngz/2
! IF (iglob .LE. 0) &
! iglob = iglob + total_nz
! zarray(ig,eo) = zarray_full(iglob)
! ENDDO
! DO ig = local_nz+ngz/2,local_nz+ngz ! last ghost cells
! iglob = ig+local_nz_offset-ngz/2
! IF (iglob .GT. total_nz) &
! iglob = iglob - total_nz
! zarray(ig,eo) = zarray_full(iglob)
! ENDDO
! continue in z<pi and z>pi
DO ig = 1,ngz/2
zarray(local_nz+ngz/2+ig,eo) = zarray(local_nz+ngz/2,eo) + ig*deltaz
zarray(ig,eo) = zarray(1+ngz/2,eo) - (3-ig)*deltaz
ENDDO
! Set up the flags to know if the process contains the tip and/or the tail
! of the z domain (important for z-boundary condition)
......@@ -582,7 +598,6 @@ CONTAINS
contains_zmax = .TRUE.
ENDDO
! local weights for Simpson rule
ALLOCATE(zweights_SR(local_nz))
IF(total_nz .EQ. 1) THEN
zweights_SR = 1._xp
ELSE
......@@ -597,10 +612,10 @@ CONTAINS
END SUBROUTINE set_zgrid
SUBROUTINE set_kparray(gxx, gxy, gyy,hatB)
IMPLICIT NONE
REAL(xp), DIMENSION(local_nz+ngz,nzgrid), INTENT(IN) :: gxx,gxy,gyy,hatB
INTEGER :: eo,iz,iky,ikx
REAL(xp) :: kx, ky
CALL allocate_array( kparray, 1,local_nky, 1,local_nkx, 1,local_nz+ngz, 1,nzgrid)
DO eo = 1,nzgrid
DO iz = 1,local_nz+ngz
DO iky = 1,local_nky
......
src/miller_mod.F90
+ 274
− 286
View file @ 506b9c5d
......@@ -6,10 +6,9 @@ MODULE miller
USE basic
USE parallel, ONLY: my_id, num_procs_z, nbr_U, nbr_D, comm0
! use coordinates,only: gcoor, get_dzprimedz
USE grid, ONLY: local_Nky, local_Nkx, local_nz, ngz, nzgrid, kyarray, kxarray, zarray, total_nz, local_nz_offset
USE grid, ONLY: local_Nky, local_Nkx, local_nz, ngz, nzgrid, kyarray, kxarray, zarray, total_nz, local_nz_offset, iodd, ieven
! use discretization
USE lagrange_interpolation
! use par_in, only: beta, sign_Ip_CW, sign_Bt_CW, Npol
USE model
implicit none
......@@ -29,25 +28,24 @@ CONTAINS
!>Set defaults for miller parameters
subroutine set_miller_parameters(kappa_,s_kappa_,delta_,s_delta_,zeta_,s_zeta_)
real(xp), INTENT(IN) :: kappa_,s_kappa_,delta_,s_delta_,zeta_,s_zeta_
rho = -1.0
rho = -1._xp
kappa = kappa_
s_kappa = s_kappa_
delta = delta_
s_delta = s_delta_
zeta = zeta_
s_zeta = s_zeta_
drR = 0.0
drZ = 0.0
thetak = 0.0
thetad = 0.0
drR = 0._xp
drZ = 0._xp
thetak = 0._xp
thetad = 0._xp
end subroutine set_miller_parameters
!>Get Miller metric, magnetic field, jacobian etc.
subroutine get_miller(trpeps,major_R,major_Z,q0,shat,Npol,amhd,edge_opt,&
C_y,C_xy,xpdx_pm_geom,gxx_,gyy_,gzz_,gxy_,gxz_,gyz_,dBdx_,dBdy_,&
Bfield_,jacobian_,dBdz_,R_hat_,Z_hat_,dxdR_,dxdZ_,Ckxky_,gradz_coeff_)
C_y,C_xy,Cyq0_x0,xpdx_pm_geom,gxx_,gxy_,gxz_,gyy_,gyz_,gzz_,dBdx_,dBdy_,dBdz_,&
Bfield_,jacobian_,R_hat_,Z_hat_,dxdR_,dxdZ_)
!!!!!!!!!!!!!!!! GYACOMO INTERFACE !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
real(xp), INTENT(INOUT) :: trpeps ! eps in gyacomo (inverse aspect ratio)
real(xp), INTENT(INOUT) :: major_R ! major radius
......@@ -58,20 +56,16 @@ CONTAINS
real(xp), INTENT(INOUT) :: amhd ! alpha mhd
real(xp), INTENT(INOUT) :: edge_opt ! optimization of point placement
real(xp), INTENT(INOUT) :: xpdx_pm_geom ! amplitude mag. eq. pressure grad.
real(xp), INTENT(INOUT) :: C_y, C_xy
real(xp), dimension(local_nz+ngz,nzgrid), INTENT(INOUT) :: &
gxx_,gyy_,gzz_,gxy_,gxz_,gyz_,&
dBdx_,dBdy_,Bfield_,jacobian_,&
dBdz_,R_hat_,Z_hat_,dxdR_,dxdZ_, &
gradz_coeff_
real(xp), dimension(local_Nky,local_Nkx,local_nz+ngz,nzgrid), INTENT(INOUT) :: Ckxky_
INTEGER :: iz, ikx, iky, eo
real(xp), INTENT(INOUT) :: C_y, C_xy, Cyq0_x0
real(xp), dimension(local_nz+ngz,nzgrid), INTENT(OUT) :: &
gxx_,gxy_,gxz_,gyy_,gyz_,gzz_,&
dBdx_,dBdy_,dBdz_,Bfield_,jacobian_,&
R_hat_,Z_hat_,dxdR_,dxdZ_
INTEGER :: iz,eo
! No parameter in gyacomo yet
real(xp) :: sign_Ip_CW=1 ! current sign (only normal current)
real(xp) :: sign_Bt_CW=1 ! current sign (only normal current)
real(xp) :: sign_Ip_CW=1._xp ! current sign (only normal current)
real(xp) :: sign_Bt_CW=1._xp ! current sign (only normal current)
!!!!!!!!!!!!!! END GYACOMO INTERFACE !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Auxiliary variables for curvature computation
real(xp) :: G1,G2,G3,Cx,Cy,ky,kx
integer:: np, np_s, Npol_ext, Npol_s
......@@ -96,9 +90,9 @@ CONTAINS
real(xp), dimension(500*(Npol+1)):: gxx, gxy, gxz, gyy, gyz, gzz, dtheta_dchi_s, dBp_dchi_s, jacobian, dBdx, dBdz
real(xp), dimension(500*(Npol+1)):: g_xx, g_xy, g_xz, g_yy, g_yz, g_zz, tmp_arr_s, dxdR_s, dxdZ_s, K_x, K_y !tmp_arr2
real(xp), dimension(1:total_nz):: gxx_out,gxy_out,gxz_out,gyy_out,gyz_out,gzz_out,Bfield_out,jacobian_out, dBdx_out, dBdz_out, chi_out
real(xp), dimension(1:total_nz):: R_out, Z_out, dxdR_out, dxdZ_out
real(xp):: d_inv, drPsi, dxPsi, dq_dx, dq_xpsi, R0, Z0, B0, F, D0_full, D1_full, D2_full, D3_full
real(xp), dimension(1:total_nz+ngz):: gxx_out,gxy_out,gxz_out,gyy_out,gyz_out,gzz_out,Bfield_out,jacobian_out, dBdx_out, dBdz_out, chi_out
real(xp), dimension(1:total_nz+ngz):: R_out, Z_out, dxdR_out, dxdZ_out
real(xp):: d_inv, drPsi, dxPsi, dq_dx, dq_dpsi, R0, Z0, B0, F, D0_full, D1_full, D2_full, D3_full
!real(xp) :: Lnorm, Psi0 ! currently module-wide defined anyway
real(xp):: pprime, ffprime, D0_mid, D1_mid, D2_mid, D3_mid, dx_drho, pi, mu_0, dzprimedz
! real(xp):: rho_a, psiN, drpsiN, CN2, CN3, Rcenter, Zcenter, drRcenter, drZcenter
......@@ -111,139 +105,140 @@ CONTAINS
np_s = 500*Npol_s
rho = trpeps*major_R
if (rho.le.0.0) ERROR STOP '>> ERROR << flux surface radius not defined'
if (rho.le.0._xp) ERROR STOP '>> ERROR << flux surface radius not defined'
trpeps = rho/major_R
q0 = sign_Ip_CW * sign_Bt_CW * abs(q0)
R0=major_R
B0=1.0*sign_Bt_CW
B0=1._xp*sign_Bt_CW
F=R0*B0
Z0=major_Z
pi = acos(-1.0)
mu_0=4.0*pi
pi = acos(-1._xp)
mu_0=4._xp*pi
theta=linspace(-pi*Npol_ext,pi*Npol_ext-2._xp*pi*Npol_ext/np,np)
d_inv=asin(delta)
thetaShift = 0.0
thetaShift = 0._xp
iBmax = 1
bMaxShift = .true. ! limits the initialization routine to run no more than twice
do while (bMaxShift)
!flux surface parametrization
thAdj = theta + thetaShift
if (zeta/=0._xp .or. s_zeta/=0._xp) then
R = R0 + rho*Cos(thAdj + d_inv*Sin(thAdj))
Z = Z0 + kappa*rho*Sin(thAdj + zeta*Sin(2*thAdj))
R_rho = drR + Cos(thAdj + d_inv*Sin(thAdj)) - s_delta*Sin(thAdj)*Sin(thAdj + d_inv*Sin(thAdj))
Z_rho = drZ + kappa*s_zeta*Cos(thAdj + zeta*Sin(2*thAdj))*Sin(2*thAdj) &
+ kappa*Sin(thAdj + zeta*Sin(2*thAdj)) + kappa*s_kappa*Sin(thAdj + zeta*Sin(2*thAdj))
R_theta = -(rho*(1 + d_inv*Cos(thAdj))*Sin(thAdj + d_inv*Sin(thAdj)))
Z_theta = kappa*rho*(1 + 2*zeta*Cos(2*thAdj))*Cos(thAdj + zeta*Sin(2*thAdj))
R_theta_theta = -(rho*(1 + d_inv*Cos(thAdj))**2*Cos(thAdj + d_inv*Sin(thAdj))) &
+ d_inv*rho*Sin(thAdj)*Sin(thAdj + d_inv*Sin(thAdj))
Z_theta_theta = -4*kappa*rho*zeta*Cos(thAdj + zeta*Sin(2*thAdj))*Sin(2*thAdj) &
- kappa*rho*(1 + 2*zeta*Cos(2*thAdj))**2*Sin(thAdj + zeta*Sin(2*thAdj))
else
Rcirc = rho*Cos(thAdj - thetad + thetak)
Zcirc = rho*Sin(thAdj - thetad + thetak)
Relong = Rcirc
Zelong = Zcirc + (-1 + kappa)*rho*Sin(thAdj - thetad + thetak)
RelongTilt = Relong*Cos(thetad - thetak) - Zelong*Sin(thetad - thetak)
ZelongTilt = Zelong*Cos(thetad - thetak) + Relong*Sin(thetad - thetak)
Rtri = RelongTilt - rho*Cos(thAdj) + rho*Cos(thAdj + delta*Sin(thAdj))
Ztri = ZelongTilt
RtriTilt = Rtri*Cos(thetad) + Ztri*Sin(thetad)
ZtriTilt = Ztri*Cos(thetad) - Rtri*Sin(thetad)
R = R0 + RtriTilt
Z = Z0 + ZtriTilt
drRcirc = Cos(thAdj - thetad + thetak)
drZcirc = Sin(thAdj - thetad + thetak)
drRelong = drRcirc
drZelong = drZcirc - (1 - kappa - kappa*s_kappa)*Sin(thAdj - thetad + thetak)
drRelongTilt = drRelong*Cos(thetad - thetak) - drZelong*Sin(thetad - thetak)
drZelongTilt = drZelong*Cos(thetad - thetak) + drRelong*Sin(thetad - thetak)
drRtri = drRelongTilt - Cos(thAdj) + Cos(thAdj + delta*Sin(thAdj)) &
- s_delta*Sin(thAdj)*Sin(thAdj + delta*Sin(thAdj))
drZtri = drZelongTilt
drRtriTilt = drRtri*Cos(thetad) + drZtri*Sin(thetad)
drZtriTilt = drZtri*Cos(thetad) - drRtri*Sin(thetad)
R_rho = drR + drRtriTilt
Z_rho = drZ + drZtriTilt
dtRcirc = -(rho*Sin(thAdj - thetad + thetak))
dtZcirc = rho*Cos(thAdj - thetad + thetak)
dtRelong = dtRcirc
dtZelong = dtZcirc + (-1 + kappa)*rho*Cos(thAdj - thetad + thetak)
dtRelongTilt = dtRelong*Cos(thetad - thetak) - dtZelong*Sin(thetad - thetak)
dtZelongTilt = dtZelong*Cos(thetad - thetak) + dtRelong*Sin(thetad - thetak)
dtRtri = dtRelongTilt + rho*Sin(thAdj) - rho*(1 + delta*Cos(thAdj))*Sin(thAdj + delta*Sin(thAdj))
dtZtri = dtZelongTilt
dtRtriTilt = dtRtri*Cos(thetad) + dtZtri*Sin(thetad)
dtZtriTilt = dtZtri*Cos(thetad) - dtRtri*Sin(thetad)
R_theta = dtRtriTilt
Z_theta = dtZtriTilt
dtdtRcirc = -(rho*Cos(thAdj - thetad + thetak))
dtdtZcirc = -(rho*Sin(thAdj - thetad + thetak))
dtdtRelong = dtdtRcirc
dtdtZelong = dtdtZcirc - (-1 + kappa)*rho*Sin(thAdj - thetad + thetak)
dtdtRelongTilt = dtdtRelong*Cos(thetad - thetak) - dtdtZelong*Sin(thetad - thetak)
dtdtZelongTilt = dtdtZelong*Cos(thetad - thetak) + dtdtRelong*Sin(thetad - thetak)
dtdtRtri = dtdtRelongTilt + rho*Cos(thAdj) - rho*(1 + delta*Cos(thAdj))**2*Cos(thAdj + delta*Sin(thAdj)) &
+ delta*rho*Sin(thAdj)*Sin(thAdj + delta*Sin(thAdj))
dtdtZtri = dtdtZelongTilt
dtdtRtriTilt = dtdtRtri*Cos(thetad) + dtdtZtri*Sin(thetad)
dtdtZtriTilt = dtdtZtri*Cos(thetad) - dtdtRtri*Sin(thetad)
R_theta_theta = dtdtRtriTilt
Z_theta_theta = dtdtZtriTilt
endif
!flux surface parametrization
thAdj = theta + thetaShift
if (zeta/=0.0 .or. s_zeta/=0.0) then
R = R0 + rho*Cos(thAdj + d_inv*Sin(thAdj))
Z = Z0 + kappa*rho*Sin(thAdj + zeta*Sin(2*thAdj))
R_rho = drR + Cos(thAdj + d_inv*Sin(thAdj)) - s_delta*Sin(thAdj)*Sin(thAdj + d_inv*Sin(thAdj))
Z_rho = drZ + kappa*s_zeta*Cos(thAdj + zeta*Sin(2*thAdj))*Sin(2*thAdj) &
+ kappa*Sin(thAdj + zeta*Sin(2*thAdj)) + kappa*s_kappa*Sin(thAdj + zeta*Sin(2*thAdj))
R_theta = -(rho*(1 + d_inv*Cos(thAdj))*Sin(thAdj + d_inv*Sin(thAdj)))
Z_theta = kappa*rho*(1 + 2*zeta*Cos(2*thAdj))*Cos(thAdj + zeta*Sin(2*thAdj))
R_theta_theta = -(rho*(1 + d_inv*Cos(thAdj))**2*Cos(thAdj + d_inv*Sin(thAdj))) &
+ d_inv*rho*Sin(thAdj)*Sin(thAdj + d_inv*Sin(thAdj))
Z_theta_theta = -4*kappa*rho*zeta*Cos(thAdj + zeta*Sin(2*thAdj))*Sin(2*thAdj) &
- kappa*rho*(1 + 2*zeta*Cos(2*thAdj))**2*Sin(thAdj + zeta*Sin(2*thAdj))
else
Rcirc = rho*Cos(thAdj - thetad + thetak)
Zcirc = rho*Sin(thAdj - thetad + thetak)
Relong = Rcirc
Zelong = Zcirc + (-1 + kappa)*rho*Sin(thAdj - thetad + thetak)
RelongTilt = Relong*Cos(thetad - thetak) - Zelong*Sin(thetad - thetak)
ZelongTilt = Zelong*Cos(thetad - thetak) + Relong*Sin(thetad - thetak)
Rtri = RelongTilt - rho*Cos(thAdj) + rho*Cos(thAdj + delta*Sin(thAdj))
Ztri = ZelongTilt
RtriTilt = Rtri*Cos(thetad) + Ztri*Sin(thetad)
ZtriTilt = Ztri*Cos(thetad) - Rtri*Sin(thetad)
R = R0 + RtriTilt
Z = Z0 + ZtriTilt
drRcirc = Cos(thAdj - thetad + thetak)
drZcirc = Sin(thAdj - thetad + thetak)
drRelong = drRcirc
drZelong = drZcirc - (1 - kappa - kappa*s_kappa)*Sin(thAdj - thetad + thetak)
drRelongTilt = drRelong*Cos(thetad - thetak) - drZelong*Sin(thetad - thetak)
drZelongTilt = drZelong*Cos(thetad - thetak) + drRelong*Sin(thetad - thetak)
drRtri = drRelongTilt - Cos(thAdj) + Cos(thAdj + delta*Sin(thAdj)) &
- s_delta*Sin(thAdj)*Sin(thAdj + delta*Sin(thAdj))
drZtri = drZelongTilt
drRtriTilt = drRtri*Cos(thetad) + drZtri*Sin(thetad)
drZtriTilt = drZtri*Cos(thetad) - drRtri*Sin(thetad)
R_rho = drR + drRtriTilt
Z_rho = drZ + drZtriTilt
dtRcirc = -(rho*Sin(thAdj - thetad + thetak))
dtZcirc = rho*Cos(thAdj - thetad + thetak)
dtRelong = dtRcirc
dtZelong = dtZcirc + (-1 + kappa)*rho*Cos(thAdj - thetad + thetak)
dtRelongTilt = dtRelong*Cos(thetad - thetak) - dtZelong*Sin(thetad - thetak)
dtZelongTilt = dtZelong*Cos(thetad - thetak) + dtRelong*Sin(thetad - thetak)
dtRtri = dtRelongTilt + rho*Sin(thAdj) - rho*(1 + delta*Cos(thAdj))*Sin(thAdj + delta*Sin(thAdj))
dtZtri = dtZelongTilt
dtRtriTilt = dtRtri*Cos(thetad) + dtZtri*Sin(thetad)
dtZtriTilt = dtZtri*Cos(thetad) - dtRtri*Sin(thetad)
R_theta = dtRtriTilt
Z_theta = dtZtriTilt
dtdtRcirc = -(rho*Cos(thAdj - thetad + thetak))
dtdtZcirc = -(rho*Sin(thAdj - thetad + thetak))
dtdtRelong = dtdtRcirc
dtdtZelong = dtdtZcirc - (-1 + kappa)*rho*Sin(thAdj - thetad + thetak)
dtdtRelongTilt = dtdtRelong*Cos(thetad - thetak) - dtdtZelong*Sin(thetad - thetak)
dtdtZelongTilt = dtdtZelong*Cos(thetad - thetak) + dtdtRelong*Sin(thetad - thetak)
dtdtRtri = dtdtRelongTilt + rho*Cos(thAdj) - rho*(1 + delta*Cos(thAdj))**2*Cos(thAdj + delta*Sin(thAdj)) &
+ delta*rho*Sin(thAdj)*Sin(thAdj + delta*Sin(thAdj))
dtdtZtri = dtdtZelongTilt
dtdtRtriTilt = dtdtRtri*Cos(thetad) + dtdtZtri*Sin(thetad)
dtdtZtriTilt = dtdtZtri*Cos(thetad) - dtdtRtri*Sin(thetad)
R_theta_theta = dtdtRtriTilt
Z_theta_theta = dtdtZtriTilt
endif
!dl/dtheta
dlp=(R_theta**2+Z_theta**2)**0.5
!curvature radius
Rc=dlp**3*(R_theta*Z_theta_theta-Z_theta*R_theta_theta)**(-1)
! some useful quantities (see papers for definition of u)
cosu=Z_theta/dlp
sinu=-R_theta/dlp
!Jacobian J_r = (dPsi/dr) J_psi = (dPsi/dr) / [(nabla fz x nabla psi)* nabla theta]
! = R * (dR/drho dZ/dtheta - dR/dtheta dZ/drho) = R dlp / |nabla r|
J_r=R*(R_rho*Z_theta-R_theta*Z_rho)
!From definition of q = 1/(2 pi) int (B nabla fz) / (B nabla theta) dtheta:
!dPsi/dr = sign_Bt sign_Ip / (2 pi q) int F / R^2 J_r dtheta
! = F / (2 pi |q|) int J_r/R^2 dtheta
tmp_arr=J_r/R**2
drPsi=sign_Ip_CW*F/(2.*pi*Npol_ext*q0)*sum(tmp_arr)*2*pi*Npol_ext/np !dlp_int(tmp_arr,1.0)
!Poloidal field (Bp = Bvec * nabla l)
Bp=sign_Ip_CW * drPsi / J_r * dlp
!toroidal field
Bphi=F/R
!total modulus of Bfield
B=sqrt(Bphi**2+Bp**2)
bMaxShift = .false.
! if (thetaShift==0.0.and.trim(magn_geometry).ne.'miller_general') then
if (thetaShift==0.0) then
do i = 2,np-1
if (B(iBmax)<B(i)) then
iBmax = i
end if
enddo
if (iBmax/=1) then
bMaxShift = .true.
thetaShift = theta(iBmax)-theta(1)
!dl/dtheta
dlp=(R_theta**2+Z_theta**2)**0.5_xp
!curvature radius
Rc=dlp**3*(R_theta*Z_theta_theta-Z_theta*R_theta_theta)**(-1)
! some useful quantities (see papers for definition of u)
cosu=Z_theta/dlp
sinu=-R_theta/dlp
!Jacobian J_r = (dPsi/dr) J_psi = (dPsi/dr) / [(nabla fz x nabla psi)* nabla theta]
! = R * (dR/drho dZ/dtheta - dR/dtheta dZ/drho) = R dlp / |nabla r|
J_r=R*(R_rho*Z_theta-R_theta*Z_rho)
!From definition of q = 1/(2 pi) int (B nabla fz) / (B nabla theta) dtheta:
!dPsi/dr = sign_Bt sign_Ip / (2 pi q) int F / R^2 J_r dtheta
! = F / (2 pi |q|) int J_r/R^2 dtheta
tmp_arr=J_r/R**2
drPsi=sign_Ip_CW*F/(2._xp*pi*Npol_ext*q0)*sum(tmp_arr)*2._xp*pi*Npol_ext/np !dlp_int(tmp_arr,1.0)
!Poloidal field (Bp = Bvec * nabla l)
Bp=sign_Ip_CW * drPsi / J_r * dlp
!toroidal field
Bphi=F/R
!total modulus of Bfield
B=sqrt(Bphi**2+Bp**2)
bMaxShift = .false.
if (thetaShift==0._xp) then
do i = 2,np-1
if (B(iBmax)<B(i)) then
iBmax = i
end if
enddo
if (iBmax/=1) then
bMaxShift = .true.
thetaShift = theta(iBmax)-theta(1)
end if
end if
end if
enddo
!definition of radial coordinate! dx_drho=1 --> x = r
dx_drho=1. !drPsi/Psi0*Lnorm*q0
......@@ -257,14 +252,15 @@ CONTAINS
"Setting C_xy = ",C_xy,' C_y = ', C_y," C_x' = ", 1./dxPsi
write(*,'(A,ES12.4)') "B_unit/Bref conversion factor = ", q0/rho*drPsi
write(*,'(A,ES12.4)') "dPsi/dr = ", drPsi
if (thetaShift.ne.0.0) write(*,'(A,ES12.4)') "thetaShift = ", thetaShift
if (thetaShift.ne.0._xp) write(*,'(A,ES12.4)') "thetaShift = ", thetaShift
endif
!--------shear is expected to be defined as rho/q*dq/drho--------!
dq_dx=shat*q0/rho/dx_drho
dq_xpsi=dq_dx/dxPsi
pprime=-amhd/q0**2/R0/(2*mu_0)*B0**2/drPsi
dq_dx = shat*q0/rho/dx_drho
Cyq0_x0 = C_y*q0/rho
dq_dpsi = dq_dx/dxPsi
pprime = -amhd/q0**2/R0/(2*mu_0)*B0**2/drPsi
!neg. xpdx normalized to magnetic pressure for pressure term
xpdx_pm_geom=amhd/q0**2/R0/dx_drho
......@@ -274,7 +270,7 @@ CONTAINS
!integrals for ffprime evaluation
do i=1,np
tmp_arr=(2./Rc-2.*cosu/R)/(R*psi1**2)
tmp_arr=(2._xp/Rc-2._xp*cosu/R)/(R*psi1**2)
D0(i)=-F*dlp_int_ind(tmp_arr,dlp,i)
tmp_arr=B**2*R/psi1**3
D1(i)=-dlp_int_ind(tmp_arr,dlp,i)/F
......@@ -283,7 +279,7 @@ CONTAINS
tmp_arr=1./(R*psi1)
D3(i)=-dlp_int_ind(tmp_arr,dlp,i)*F
enddo
tmp_arr=(2./Rc-2.*cosu/R)/(R*psi1**2)
tmp_arr=(2._xp/Rc-2._xp*cosu/R)/(R*psi1**2)
D0_full=-F*dlp_int(tmp_arr,dlp)
tmp_arr=B**2*R/psi1**3
D1_full=-dlp_int(tmp_arr,dlp)/F
......@@ -296,7 +292,7 @@ CONTAINS
D2_mid=D2(np/2+1)
D3_mid=D3(np/2+1)
ffprime=-(sign_Ip_CW*dq_xpsi*2.*pi*Npol_ext+D0_full+D2_full*pprime)/D1_full
ffprime=-(sign_Ip_CW*dq_dpsi*2._xp*pi*Npol_ext+D0_full+D2_full*pprime)/D1_full
if (my_id==0) then
write(*,'(A,ES12.4)') "ffprime = ", ffprime
......@@ -318,7 +314,7 @@ CONTAINS
!new grid equidistant in straight field line angle
chi_s = linspace(-pi*Npol_s,pi*Npol_s-2*pi*Npol_s/np_s,np_s)
if (sign_Ip_CW.lt.0.0) then !make chi increasing function to not confuse lag3interp
if (sign_Ip_CW.lt.0._xp) then !make chi increasing function to not confuse lag3interp
tmp_reverse = chi(np:1:-1)
theta_reverse = theta(np:1:-1)
call lag3interp(theta_reverse,tmp_reverse,np,theta_s,chi_s,np_s)
......@@ -332,7 +328,7 @@ CONTAINS
!arrays equidistant in straight field line angle
thAdj_s = theta_s + thetaShift
if (zeta/=0.0 .or. s_zeta/=0.0) then
if (zeta/=0._xp .or. s_zeta/=0._xp) then
R_s = R0 + rho*Cos(thAdj_s + d_inv*Sin(thAdj_s))
Z_s = Z0 + kappa*rho*Sin(thAdj_s + zeta*Sin(2*thAdj_s))
......@@ -366,7 +362,7 @@ CONTAINS
R_theta_s = dtheta_dchi_s*dtRtriTilt_s
Z_theta_s = dtheta_dchi_s*dtZtriTilt_s
endif
if (sign_Ip_CW.lt.0.0) then
if (sign_Ip_CW.lt.0._xp) then
call lag3interp(nu1,theta,np,tmp_arr_s,theta_s_reverse,np_s)
nu1_s = tmp_arr_s(np_s:1:-1)
call lag3interp(Bp,theta,np,tmp_arr_s,theta_s_reverse,np_s)
......@@ -402,13 +398,13 @@ CONTAINS
dnu_dl_s=-F/(R_s*psi1_s)
grad_nu_s=sqrt(dnu_drho_s**2+dnu_dl_s**2)
!contravariant metric coefficients (varrho,l,fz)->(x,y,z)
!contravariant metric coefficients (varrho,l,phi)->(x,y,z)
gxx=(psi1_s/dxPsi)**2
gxy=-psi1_s/dxPsi*C_y*sign_Ip_CW*nu1_s
gxz=-psi1_s/dxPsi*(nu1_s+psi1_s*dq_xpsi*chi_s)/q0
gxz=-psi1_s/dxPsi*(nu1_s+psi1_s*dq_dpsi*chi_s)/q0
gyy=C_y**2*(grad_nu_s**2+1/R_s**2)
gyz=sign_Ip_CW*C_y/q0*(grad_nu_s**2+dq_xpsi*nu1_s*psi1_s*chi_s)
gzz=1./q0**2*(grad_nu_s**2+2.*dq_xpsi*nu1_s*psi1_s*chi_s+(dq_xpsi*psi1_s*chi_s)**2)
gyz=sign_Ip_CW*C_y/q0*(grad_nu_s**2+dq_dpsi*nu1_s*psi1_s*chi_s)
gzz=1./q0**2*(grad_nu_s**2+2.*dq_dpsi*nu1_s*psi1_s*chi_s+(dq_dpsi*psi1_s*chi_s)**2)
jacobian=1./sqrt(gxx*gyy*gzz + 2.*gxy*gyz*gxz - gxz**2*gyy - gyz**2*gxx - gzz*gxy**2)
......@@ -422,32 +418,35 @@ CONTAINS
!Bfield derivatives
!dBdx = e_x * nabla B = J (nabla y x nabla z) * nabla B
dBdx=jacobian*C_y/(q0*R_s)*(F/(R_s*psi1_s)*dB_drho_s+(nu1_s+dq_xpsi*chi_s*psi1_s)*dB_dl_s)
dBdx=jacobian*C_y/(q0*R_s)*(F/(R_s*psi1_s)*dB_drho_s+(nu1_s+dq_dpsi*chi_s*psi1_s)*dB_dl_s)
dBdz=1./B_s*(Bp_s*dBp_dchi_s-F**2/R_s**3*R_theta_s)
!curvature terms (these are just local and will be recalculated in geometry.F90)
K_x = (0.-g_yz/g_zz*dBdz)
!curvature terms (these are just local and will be recalculated in geometry module)
K_x = (0._xp-g_yz/g_zz*dBdz)
K_y = (dBdx-g_xz/g_zz*dBdz)
!(R,Z) derivatives for visualization
dxdR_s = dx_drho/drPsi*psi1_s*cosu_s
dxdZ_s = dx_drho/drPsi*psi1_s*sinu_s
if (edge_opt==0.0) then
!gene z-grid
chi_out=linspace(-pi*Npol,pi*Npol-2*pi*Npol/total_nz,total_nz)
! GHOSTS ADAPTED VERSION
if (edge_opt==0._xp) then
!gyacomo z-grid wo ghosts
! chi_out=linspace(-pi*Npol,pi*Npol-2*pi*Npol/total_nz,total_nz)
!gyacomo z-grid with ghosts
chi_out=linspace(-pi*Npol-4._xp*pi*Npol/total_nz,pi*Npol+2._xp*pi*Npol/total_nz,total_nz+ngz)
else
ERROR STOP '>> ERROR << ghosts not implemented for edge_opt yet'
!new parallel coordinate chi_out==zprime
!see also tracer_aux.F90
if (Npol>1) ERROR STOP '>> ERROR << Npol>1 has not been implemented for edge_opt=\=0.0'
if (Npol>1) ERROR STOP '>> ERROR << Npol>1 has not been implemented for edge_opt=\=0._xp'
do k=1,total_nz
chi_out(k)=sinh((-pi+k*2.*pi/total_nz)*log(edge_opt*pi+sqrt(edge_opt**2*pi**2+1))/pi)/edge_opt
chi_out(k)=sinh((-pi+k*2._xp*pi/total_nz)*log(edge_opt*pi+sqrt(edge_opt**2*pi**2+1))/pi)/edge_opt
enddo
!transform metrics according to chain rule
do k=1,np_s
!>dz'/dz conversion for edge_opt as function of z
if (edge_opt.gt.0) then
dzprimedz = edge_opt*pi/log(edge_opt*pi+sqrt((edge_opt*pi)**2+1))/&
dzprimedz = edge_opt*pi/log(edge_opt*pi+sqrt((edge_opt*pi)**2+1._xp))/&
sqrt((edge_opt*chi_s(k))**2+1)
else
dzprimedz = 1.0
......@@ -459,123 +458,117 @@ CONTAINS
dBdz(k)=dBdz(k)/dzprimedz
enddo
endif !edge_opt
!interpolate down to GENE z-grid
call lag3interp(gxx,chi_s,np_s,gxx_out,chi_out,total_nz)
call lag3interp(gxy,chi_s,np_s,gxy_out,chi_out,total_nz)
call lag3interp(gxz,chi_s,np_s,gxz_out,chi_out,total_nz)
call lag3interp(gyy,chi_s,np_s,gyy_out,chi_out,total_nz)
call lag3interp(gyz,chi_s,np_s,gyz_out,chi_out,total_nz)
call lag3interp(gzz,chi_s,np_s,gzz_out,chi_out,total_nz)
call lag3interp(B_s,chi_s,np_s,Bfield_out,chi_out,total_nz)
call lag3interp(jacobian,chi_s,np_s,jacobian_out,chi_out,total_nz)
call lag3interp(dBdx,chi_s,np_s,dBdx_out,chi_out,total_nz)
call lag3interp(dBdz,chi_s,np_s,dBdz_out,chi_out,total_nz)
call lag3interp(R_s,chi_s,np_s,R_out,chi_out,total_nz)
call lag3interp(Z_s,chi_s,np_s,Z_out,chi_out,total_nz)
call lag3interp(dxdR_s,chi_s,np_s,dxdR_out,chi_out,total_nz)
call lag3interp(dxdZ_s,chi_s,np_s,dxdZ_out,chi_out,total_nz)
! Fill the interior of the geom arrays with the results
do eo=1,nzgrid
DO iz = 1,local_nz
gxx_(iz+ngz/2,eo) = gxx_out(iz+local_nz_offset)
gyy_(iz+ngz/2,eo) = gyy_out(iz+local_nz_offset)
gxz_(iz+ngz/2,eo) = gxz_out(iz+local_nz_offset)
gyz_(iz+ngz/2,eo) = gyz_out(iz+local_nz_offset)
dBdx_(iz+ngz/2,eo) = dBdx_out(iz+local_nz_offset)
dBdy_(iz+ngz/2,eo) = 0.
gxy_(iz+ngz/2,eo) = gxy_out(iz+local_nz_offset)
gzz_(iz+ngz/2,eo) = gzz_out(iz+local_nz_offset)
Bfield_(iz+ngz/2,eo) = Bfield_out(iz+local_nz_offset)
jacobian_(iz+ngz/2,eo) = jacobian_out(iz+local_nz_offset)
dBdz_(iz+ngz/2,eo) = dBdz_out(iz+local_nz_offset)
R_hat_(iz+ngz/2,eo) = R_out(iz+local_nz_offset)
Z_hat_(iz+ngz/2,eo) = Z_out(iz+local_nz_offset)
dxdR_(iz+ngz/2,eo) = dxdR_out(iz+local_nz_offset)
dxdZ_(iz+ngz/2,eo) = dxdZ_out(iz+local_nz_offset)
ENDDO
!! UPDATE GHOSTS VALUES (since the miller function in GENE does not)
CALL update_ghosts_z(gxx_(:,eo))
CALL update_ghosts_z(gyy_(:,eo))
CALL update_ghosts_z(gxz_(:,eo))
CALL update_ghosts_z(gxy_(:,eo))
CALL update_ghosts_z(gzz_(:,eo))
CALL update_ghosts_z(Bfield_(:,eo))
CALL update_ghosts_z(dBdx_(:,eo))
CALL update_ghosts_z(dBdy_(:,eo))
CALL update_ghosts_z(dBdz_(:,eo))
CALL update_ghosts_z(jacobian_(:,eo))
CALL update_ghosts_z(R_hat_(:,eo))
CALL update_ghosts_z(Z_hat_(:,eo))
CALL update_ghosts_z(dxdR_(:,eo))
CALL update_ghosts_z(dxdZ_(:,eo))
! Curvature operator (Frei et al. 2022 eq 2.15)
DO iz = 1,local_nz+ngz
G1 = gxy_(iz,eo)*gxy_(iz,eo)-gxx_(iz,eo)*gyy_(iz,eo)
G2 = gxy_(iz,eo)*gxz_(iz,eo)-gxx_(iz,eo)*gyz_(iz,eo)
G3 = gyy_(iz,eo)*gxz_(iz,eo)-gxy_(iz,eo)*gyz_(iz,eo)
Cx = (G1*dBdy_(iz,eo) + G2*dBdz_(iz,eo))/Bfield_(iz,eo)
Cy = (G3*dBdz_(iz,eo) - G1*dBdx_(iz,eo))/Bfield_(iz,eo)
DO iky = 1,local_Nky
ky = kyarray(iky)
DO ikx= 1,local_Nkx
kx = kxarray(ikx)
Ckxky_(iky, ikx, iz,eo) = Cx*kx + Cy*ky
ENDDO
ENDDO
! coefficient in the front of parallel derivative
gradz_coeff_(iz,eo) = 1._xp / jacobian_(iz,eo) / Bfield_(iz,eo)
! interpolate with ghosts
call lag3interp(gxx,chi_s,np_s,gxx_out,chi_out,total_nz+ngz)
call lag3interp(gxy,chi_s,np_s,gxy_out,chi_out,total_nz+ngz)
call lag3interp(gxz,chi_s,np_s,gxz_out,chi_out,total_nz+ngz)
call lag3interp(gyy,chi_s,np_s,gyy_out,chi_out,total_nz+ngz)
call lag3interp(gyz,chi_s,np_s,gyz_out,chi_out,total_nz+ngz)
call lag3interp(gzz,chi_s,np_s,gzz_out,chi_out,total_nz+ngz)
call lag3interp(B_s,chi_s,np_s,Bfield_out,chi_out,total_nz+ngz)
call lag3interp(dBdx,chi_s,np_s,dBdx_out,chi_out,total_nz+ngz)
call lag3interp(dBdz,chi_s,np_s,dBdz_out,chi_out,total_nz+ngz)
call lag3interp(jacobian,chi_s,np_s,jacobian_out,chi_out,total_nz+ngz)
call lag3interp(R_s,chi_s,np_s,R_out,chi_out,total_nz+ngz)
call lag3interp(Z_s,chi_s,np_s,Z_out,chi_out,total_nz+ngz)
call lag3interp(dxdR_s,chi_s,np_s,dxdR_out,chi_out,total_nz+ngz)
call lag3interp(dxdZ_s,chi_s,np_s,dxdZ_out,chi_out,total_nz+ngz)
! Fill the local geom arrays with the results
do eo=iodd,ieven
DO iz = 1,local_nz + ngz
gxx_(iz,eo) = gxx_out(iz+local_nz_offset)
gxy_(iz,eo) = gxy_out(iz+local_nz_offset)
gxz_(iz,eo) = gxz_out(iz+local_nz_offset)
gyy_(iz,eo) = gyy_out(iz+local_nz_offset)
gyz_(iz,eo) = gyz_out(iz+local_nz_offset)
gzz_(iz,eo) = gzz_out(iz+local_nz_offset)
Bfield_(iz,eo) = Bfield_out(iz+local_nz_offset)
dBdx_(iz,eo) = dBdx_out(iz+local_nz_offset)
dBdy_(iz,eo) = 0._xp
dBdz_(iz,eo) = dBdz_out(iz+local_nz_offset)
jacobian_(iz,eo) = jacobian_out(iz+local_nz_offset)
R_hat_(iz,eo) = R_out(iz+local_nz_offset)
Z_hat_(iz,eo) = Z_out(iz+local_nz_offset)
dxdR_(iz,eo) = dxdR_out(iz+local_nz_offset)
dxdZ_(iz,eo) = dxdZ_out(iz+local_nz_offset)
ENDDO
ENDDO
ENDDO
contains
SUBROUTINE update_ghosts_z(fz_)
! Update (and communicate) ghosts of the metric arrays
SUBROUTINE update_ghosts_z(fz_,eo,periodic)
IMPLICIT NONE
! INTEGER, INTENT(IN) :: nztot_
REAL(xp), DIMENSION(1:local_nz+ngz), INTENT(INOUT) :: fz_
REAL(xp), DIMENSION(-2:2) :: buff
INTEGER :: status(MPI_STATUS_SIZE), count, last, first
last = local_nz+ngz/2
REAL(xp), DIMENSION(local_nz+ngz), INTENT(INOUT) :: fz_
LOGICAL, INTENT(IN) :: periodic
INTEGER, INTENT(IN) :: eo !even/odd z grid
REAL(xp), DIMENSION(-ngz/2:ngz/2) :: buff
INTEGER :: status(MPI_STATUS_SIZE), count, last, first, ig
REAL(xp):: dfdz, beta, z1, z2, f1, f2, z3, f3
first= 1 + ngz/2
IF(total_nz .GT. 1) THEN
IF (num_procs_z .GT. 1) THEN
CALL MPI_BARRIER(MPI_COMM_WORLD,ierr)
count = 1 ! one point to exchange
!!!!!!!!!!! Send ghost to up neighbour !!!!!!!!!!!!!!!!!!!!!!
CALL mpi_sendrecv(fz_(last), count, MPI_DOUBLE, nbr_U, 0, & ! Send to Up the last
buff(-1), count, MPI_DOUBLE, nbr_D, 0, & ! Receive from Down the first-1
comm0, status, ierr)
CALL mpi_sendrecv(fz_(last-1), count, MPI_DOUBLE, nbr_U, 0, & ! Send to Up the last
buff(-2), count, MPI_DOUBLE, nbr_D, 0, & ! Receive from Down the first-2
comm0, status, ierr)
!!!!!!!!!!! Send ghost to down neighbour !!!!!!!!!!!!!!!!!!!!!!
CALL mpi_sendrecv(fz_(first), count, MPI_DOUBLE, nbr_D, 0, & ! Send to Down the first
buff(+1), count, MPI_DOUBLE, nbr_U, 0, & ! Recieve from Up the last+1
comm0, status, ierr)
CALL mpi_sendrecv(fz_(first+1), count, MPI_DOUBLE, nbr_D, 0, & ! Send to Down the first
buff(+2), count, MPI_DOUBLE, nbr_U, 0, & ! Recieve from Up the last+2
comm0, status, ierr)
ELSE
buff(-1) = fz_(last )
buff(-2) = fz_(last-1)
buff(+1) = fz_(first )
buff(+2) = fz_(first+1)
ENDIF
fz_(last +1) = buff(+1)
fz_(last +2) = buff(+2)
fz_(first-1) = buff(-1)
fz_(first-2) = buff(-2)
last = local_nz+ngz/2
count = 1 ! one point to exchange
IF (num_procs_z .GT. 1) THEN
CALL MPI_BARRIER(MPI_COMM_WORLD,ierr)
!!!!!!!!!!! Send ghost to up neighbour !!!!!!!!!!!!!!!!!!!!!!
DO ig = 1,ngz/2
CALL mpi_sendrecv(fz_(last-(ig-1)), count, mpi_xp_r, nbr_U, 1206+ig, & ! Send to Up the last
buff(-ig), count, mpi_xp_r, nbr_D, 1206+ig, & ! Receive from Down the first-1
comm0, status, ierr)
ENDDO
!!!!!!!!!!! Send ghost to down neighbour !!!!!!!!!!!!!!!!!!!!!!\
DO ig = 1,ngz/2
CALL mpi_sendrecv(fz_(first+(ig-1)), count, mpi_xp_r, nbr_D, 1208+ig, & ! Send to Down the first
buff(ig), count, mpi_xp_r, nbr_U, 1208+ig, & ! Recieve from Up the last+1
comm0, status, ierr)
ENDDO
ELSE
DO ig = 1,ngz/2
buff(-ig) = fz_(last-(ig-1))
buff( ig) = fz_(first+(ig-1))
ENDDO
ENDIF
! if the metric is not periodic, we extrapolate it linearly
IF(.NOT. periodic) THEN
!!!! Right side
! extrapolation from a linear fit
! g(z) = dfdz*(z-z1) + f1
f1 = fz_(last-1)
f2 = fz_(last)
z1 = zarray(last-1,eo)
z2 = zarray(last,eo)
dfdz = (f2-f1)/(z2-z1) ! slope
beta = f1 ! shift
! right ghosts values
DO ig = 1,ngz/2
z3 = z2 + REAL(ig,xp)*(z2 - z1) ! z3 = z2 + ig * dz
f3 = dfdz*(z3 - z1) + beta
buff(ig) = f3
ENDDO
!!!! Left side
! extrapolation from a linear fit
! g(z) = dfdz*(z-z1) + f1
f1 = fz_(first)
f2 = fz_(first+1)
z1 = zarray(first,eo)
z2 = zarray(first+1,eo)
dfdz = (f2-f1)/(z2-z1) ! slope
beta = f1 ! shift
! right ghosts values
DO ig = 1,ngz/2
z3 = z1 - REAL(ig,xp)*(z2 - z1) ! z3 = z1 - ig * dz
f3 = dfdz*(z3 -z1) + beta
buff(-ig) = f3
ENDDO
ENDIF
! Updating ghosts
DO ig = 1,ngz/2
fz_(last +ig) = buff(ig)
fz_(first-ig) = buff(-ig)
ENDDO
! print*,fz_
END SUBROUTINE update_ghosts_z
!> Generate an equidistant array from min to max with n points
function linspace(min,max,n) result(out)
real(xp), INTENT(IN):: min, max
......@@ -596,15 +589,14 @@ CONTAINS
!> full theta integral with weight function dlp
real(xp) function dlp_int(var,dlp)
real(xp), dimension(np), INTENT(IN):: var, dlp
dlp_int=sum(var*dlp)*2*pi*Npol_ext/np
dlp_int=sum(var*dlp)*2._xp*pi*Npol_ext/np
end function dlp_int
!> theta integral with weight function dlp, up to index 'ind'
real(xp) function dlp_int_ind(var,dlp,ind)
real(xp), dimension(np), INTENT(IN):: var, dlp
integer, INTENT(IN):: ind
dlp_int_ind=0.
dlp_int_ind=0._xp
if (ind.gt.1) then
dlp_int_ind=dlp_int_ind+var(1)*dlp(1)*pi*Npol_ext/np
dlp_int_ind=dlp_int_ind+(sum(var(2:ind-1)*dlp(2:ind-1)))*2*pi*Npol_ext/np
......@@ -617,22 +609,18 @@ CONTAINS
integer, INTENT(IN) :: n
real(xp), dimension(n), INTENT(IN):: x,y
real(xp), dimension(n) :: out,dx
!call lag3deriv(y,x,n,out,x,n)
out=0.
out=0._xp
do i=2,n-1
out(i)=out(i)-y(i-1)/2
out(i)=out(i)+y(i+1)/2
out(i)=out(i)-y(i-1)/2._xp
out(i)=out(i)+y(i+1)/2._xp
enddo
out(1)=y(2)-y(1)
out(n)=y(n)-y(n-1)
dx=x(2)-x(1)
out=out/dx
end function deriv_fd
end subroutine get_miller
......
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