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stella_save.fpp
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# include "define.inc"
module stella_save
use mp, only: mp_comm, mp_info
# ifdef NETCDF
! use netcdf, only: NF90_FLOAT, NF90_DOUBLE
# ifdef NETCDF_PARALLEL
! If using netcdf version 4.1.2 or older delete NF90_MPIIO
use netcdf, only: NF90_HDF5,NF90_MPIIO
use netcdf, only: nf90_var_par_access, NF90_COLLECTIVE
use netcdf, only: nf90_put_att, NF90_GLOBAL, nf90_get_att
# endif
use netcdf, only: NF90_NOWRITE, NF90_CLOBBER, NF90_NOERR
use netcdf, only: nf90_create, nf90_open, nf90_sync, nf90_close
use netcdf, only: nf90_def_dim, nf90_def_var, nf90_enddef
use netcdf, only: nf90_put_var, nf90_get_var, nf90_strerror
use netcdf, only: nf90_inq_dimid, nf90_inquire_dimension
use netcdf, only: nf90_inq_varid, nf90_inquire_variable
use netcdf, only: nf90_int
use netcdf_utils, only: get_netcdf_code_precision
use netcdf_utils, only: check_netcdf_file_precision
use netcdf_utils, only: netcdf_error
use netcdf_utils, only: netcdf_real, kind_nf
# endif
implicit none
public :: stella_restore, stella_save_for_restart
public :: read_many, save_many
public :: init_save, init_dt, init_tstart, finish_save
!# ifdef NETCDF
! public :: netcdf_real, kind_nf, get_netcdf_code_precision, netcdf_error
!# endif
interface stella_restore
module procedure stella_restore_many
end interface
logical :: read_many = .true., save_many = .true. ! Read and write single or multiple restart files
private
character (300), save :: restart_file
# ifdef NETCDF
real, allocatable, dimension (:,:,:) :: tmpr, tmpi
real, allocatable, dimension (:,:,:) :: ktmpr, ktmpi
real, allocatable, dimension (:,:,:) :: ptmpr, ptmpi
integer (kind_nf) :: ncid, zedid, vpaid, gloid, gvmuloid, kyid, kxid, muid, tubeid
integer (kind_nf) :: krookr_id, krooki_id, projr_id, proji_id
! integer (kind_nf) :: bparr_id, bpari_id
integer (kind_nf) :: t0id, gr_id, gi_id, delt0id, istep0id
integer (kind_nf) :: intkrook_id, intproj_id;
integer (kind_nf) :: shift_id
logical :: initialized = .false.
# endif
contains
!!----------------------------------------------------------------------!!
!!----------------------------------------------------------------------!!
!!--Save----------------------------------------------------------------!!
!!----------------------------------------------------------------------!!
!!----------------------------------------------------------------------!!
subroutine stella_save_for_restart &
(g, istep0, t0, delt0, istatus, exit_in, fileopt)
# ifdef NETCDF
use fields_arrays, only: shift_state
use dist_fn_arrays, only: g_krook, g_proj
use kt_grids, only: naky, nakx
# else
use mp, only: proc0
# endif
use mp, only: iproc, barrier
use zgrid, only: nzgrid, ntubes
! Must include kxkyz_layout_type here to avoid obscure bomb while compiling
! stella_diagnostics.f90 (which uses this module) with the Compaq F90 compiler:
use stella_layouts, only: kxkyz_lo, xyzs_layout, vms_layout, vmu_lo
use common_types, only: kxkyz_layout_type
use file_utils, only: error_unit
use vpamu_grids, only: nvpa, nmu
use dissipation, only: include_krook_operator, int_krook
use dissipation, only: remove_zero_projection, int_proj
use physics_flags, only: prp_shear_enabled
implicit none
complex, dimension (:,:,kxkyz_lo%llim_proc:), intent (in) :: g
real, intent (in) :: t0, delt0
integer, intent (in) :: istep0
integer, intent (out) :: istatus
logical, intent (in), optional :: exit_in
character (20), INTENT (in), optional :: fileopt
# ifdef NETCDF
character (306) :: file_proc
character (10) :: suffix
integer :: i, n_elements, nvmulo_elements, ierr
integer :: total_elements, total_vmulo_elements
logical :: has_vmulo
# ifdef NETCDF_PARALLEL
integer, dimension(3) :: start_pos, counts
# endif
logical :: exit
!*********-----------------------_**********************
istatus = 0
if (present(exit_in)) then
exit = exit_in
else
exit = .false.
end if
! if (proc0) then
! write (*,*) "Starting save_for_restart in ", restart_file
! write (*,*) "List restart files"
! call system("echo 'start' >> filelist.txt; ls nc/* >> filelist.txt; ")
! end if
n_elements = kxkyz_lo%ulim_proc-kxkyz_lo%llim_proc+1
total_elements = kxkyz_lo%ulim_world+1
nvmulo_elements = vmu_lo%ulim_proc-vmu_lo%llim_proc+1
total_vmulo_elements = vmu_lo%ulim_world+1
if (n_elements <= 0) return
has_vmulo = nvmulo_elements.gt.0.or..not.save_many
if (.not.initialized) then
initialized = .true.
file_proc = trim(restart_file)
!CMR, 5/4/2011: Add optional piece of filename
IF (PRESENT(fileopt)) THEN
file_proc=trim(file_proc)//trim(fileopt)
END IF
!CMRend
!</HL> The NETCDF_PARALLEL directives include code for parallel
! netcdf using HDF5 to write the output to a single restart file
! The read_many flag allows the old style multiple file output
# ifdef NETCDF_PARALLEL
if(save_many) then
# endif
WRITE (suffix,'(a1,i0)') '.', iproc
# ifdef NETCDF_PARALLEL
else
WRITE (suffix,*) ''
endif
# endif
file_proc = trim(trim(file_proc)//adjustl(suffix))
# ifdef NETCDF_PARALLEL
if(save_many) then
# endif
istatus = nf90_create (file_proc, NF90_CLOBBER, ncid)
# ifdef NETCDF_PARALLEL
else
call barrier
if(iproc .eq. 0) then
open(unit=tmpunit, file=file_proc)
close(unit=tmpunit, status='delete')
end if
call barrier
! If using netcdf version 4.1.2 or older replace NF90_MPIIO with NF90_CLOBBER
istatus = nf90_create (file_proc, IOR(NF90_HDF5,NF90_MPIIO), ncid, comm=mp_comm, info=mp_info)
end if
# endif
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_create error: ", nf90_strerror(istatus)
goto 1
end if
# ifdef NETCDF_PARALLEL
if(.not.save_many) then
istatus = nf90_put_att(ncid, NF90_GLOBAL, 'xyzs_layout', xyzs_layout)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_put_attr error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_put_att(ncid, NF90_GLOBAL, 'vms_layout', vms_layout)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_put_attr error: ", nf90_strerror(istatus)
goto 1
end if
endif
# endif
if (n_elements > 0) then
istatus = nf90_def_dim (ncid, "tube", ntubes, tubeid)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_dim zed error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_def_dim (ncid, "zed", 2*nzgrid+1, zedid)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_dim zed error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_def_dim (ncid, "vpa", nvpa, vpaid)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_dim vpa error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_def_dim (ncid, "mu", nmu, muid)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_dim mu error: ", nf90_strerror(istatus)
goto 1
end if
# ifdef NETCDF_PARALLEL
if(save_many) then
# endif
istatus = nf90_def_dim (ncid, "glo", n_elements, gloid)
# ifdef NETCDF_PARALLEL
else
istatus = nf90_def_dim (ncid, "glo", total_elements, gloid)
endif
# endif
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_dim glo error: ", nf90_strerror(istatus)
goto 1
end if
# ifdef NETCDF_PARALLEL
if(save_many) then
# endif
if(nvmulo_elements.gt.0) then
istatus = nf90_def_dim (ncid, "gvmulo", nvmulo_elements, gvmuloid)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_dim gvmulo error: ", nf90_strerror(istatus)
goto 1
endif
endif
# ifdef NETCDF_PARALLEL
else
istatus = nf90_def_dim (ncid, "gvmulo", total_vmulo_elements, gvmuloid)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_dim gvmulo error: ", nf90_strerror(istatus)
goto 1
endif
endif
# endif
istatus = nf90_def_dim (ncid, "aky", naky, kyid)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_dim aky error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_def_dim (ncid, "akx", nakx, kxid)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_dim akx error: ", nf90_strerror(istatus)
goto 1
end if
end if
if (netcdf_real == 0) netcdf_real = get_netcdf_code_precision()
istatus = nf90_def_var (ncid, "t0", netcdf_real, t0id)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_var t0 error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_def_var (ncid, "istep0", nf90_int, istep0id)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_var istep0 error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_def_var (ncid, "delt0", netcdf_real, delt0id)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_var delt0 error: ", nf90_strerror(istatus)
goto 1
end if
if (n_elements > 0) then
istatus = nf90_def_var (ncid, "gr", netcdf_real, &
(/ vpaid, muid, gloid /), gr_id)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_var g error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_def_var (ncid, "gi", netcdf_real, &
(/ vpaid, muid, gloid /), gi_id)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_var g error: ", nf90_strerror(istatus)
goto 1
end if
if (include_krook_operator.and.has_vmulo) then
istatus = nf90_def_var (ncid, "intkrook", netcdf_real, intkrook_id)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_var intkrook error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_def_var (ncid, "krookr", netcdf_real, &
(/ kxid, tubeid, gvmuloid /), krookr_id)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_var apar error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_def_var (ncid, "krooki", netcdf_real, &
(/ kxid, tubeid, gvmuloid /), krooki_id)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_var krooki error: ", nf90_strerror(istatus)
goto 1
end if
end if
if (remove_zero_projection.and.has_vmulo) then
istatus = nf90_def_var (ncid, "intproj", netcdf_real, intproj_id)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_var intproj error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_def_var (ncid, "projr", netcdf_real, &
(/ kxid, tubeid, gvmuloid /), projr_id)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_var projr error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_def_var (ncid, "proji", netcdf_real, &
(/ kxid, tubeid, gvmuloid /), proji_id)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_var proji error: ", nf90_strerror(istatus)
goto 1
end if
end if
if (prp_shear_enabled) then
istatus = nf90_def_var (ncid, "shiftstate", netcdf_real,&
(/ kyid /), shift_id)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_def_var shiftstate error: ", nf90_strerror(istatus)
goto 1
end if
endif
! if (fbpar > epsilon(0.)) then
! istatus = nf90_def_var (ncid, "bpar_r", netcdf_real, &
! (/ zedid, kxid, kyid /), bparr_id)
! if (istatus /= NF90_NOERR) then
! ierr = error_unit()
! write(ierr,*) "nf90_def_var bparr error: ", nf90_strerror(istatus)
! goto 1
! end if
! istatus = nf90_def_var (ncid, "bpar_i", netcdf_real, &
! (/ zedid, kxid, kyid /), bpari_id)
! if (istatus /= NF90_NOERR) then
! ierr = error_unit()
! write(ierr,*) "nf90_def_var bpari error: ", nf90_strerror(istatus)
! goto 1
! end if
! end if
end if
! remove allocated conditional because we want to be able to restart
! using exb shear from a case which does not have exb shear (i.e.
! we need kx_shift variable defined in netcdf file even if no exb
! shear present in simulation) -- MAB + CMR
! if (allocated(kx_shift)) then ! MR begin
! istatus = nf90_def_var (ncid, "kx_shift", netcdf_real, &
! (/ kyid /), kx_shift_id)
! if (istatus /= NF90_NOERR) then
! ierr = error_unit()
! write(ierr,*) "nf90_def_var kx_shift error: ", nf90_strerror(istatus)
! goto 1
! endif
! endif ! MR end
! if (proc0) then
! write (*,*) "Finished definitions"
! write (*,*) "List restart files"
! call system("echo 'defs' >> filelist.txt; ls nc/* >> filelist.txt; ")
! end if
istatus = nf90_enddef (ncid)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write (ierr,*) "nf90_enddef error: ", nf90_strerror(istatus)
goto 1
end if
end if
!!!-----------------------!!!
!!!-----------------------!!!
!!!-----------------------!!!
# ifdef NETCDF_PARALLEL
if(save_many .or. iproc == 0) then
# endif
istatus = nf90_put_var (ncid, delt0id, delt0)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write (ierr,*) "nf90_put_var delt0 error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_put_var (ncid, t0id, t0)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write (ierr,*) "nf90_put_var t0 error: ", nf90_strerror(istatus)
goto 1
end if
istatus = nf90_put_var (ncid, istep0id, istep0)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write (ierr,*) "nf90_put_var istep0 error: ", nf90_strerror(istatus)
goto 1
end if
# ifdef NETCDF_PARALLEL
endif
# endif
1 continue
if (istatus /= NF90_NOERR) then
i = nf90_close (ncid)
return
end if
if (n_elements > 0) then
if (.not. allocated(tmpr)) &
allocate (tmpr(nvpa,nmu,kxkyz_lo%llim_proc:kxkyz_lo%ulim_alloc))
tmpr = real(g)
# ifdef NETCDF_PARALLEL
if(save_many) then
# endif
istatus = nf90_put_var (ncid, gr_id, tmpr)
#ifdef NETCDF_PARALLEL
else
istatus = nf90_var_par_access(ncid, gr_id, NF90_COLLECTIVE)
istatus = nf90_var_par_access(ncid, gi_id, NF90_COLLECTIVE)
start_pos = (/1,1,kxkyz_lo%llim_proc+1/)
counts = (/nvpa, nmu, n_elements/)
istatus = nf90_put_var (ncid, gr_id, tmpr, start=start_pos, count=counts)
endif
# endif
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, gr_id)
tmpr = aimag(g)
# ifdef NETCDF_PARALLEL
if(save_many) then
# endif
istatus = nf90_put_var (ncid, gi_id, tmpr)
#ifdef NETCDF_PARALLEL
else
istatus = nf90_put_var (ncid, gi_id, tmpr, start=start_pos, count=counts)
endif
# endif
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, gi_id)
if (include_krook_operator) then
if (.not. allocated(ktmpr)) &
allocate (ktmpr(nakx,ntubes,vmu_lo%llim_proc:vmu_lo%ulim_alloc))
if (.not. allocated(ktmpi)) &
allocate (ktmpi(nakx,ntubes,vmu_lo%llim_proc:vmu_lo%ulim_alloc))
# ifdef NETCDF_PARALLEL
if(save_many .or. iproc == 0) then
# endif
istatus = nf90_put_var (ncid, intkrook_id, int_krook)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write (ierr,*) "nf90_put_var int_krook error: ", nf90_strerror(istatus)
goto 1
end if
# ifdef NETCDF_PARALLEL
endif
# endif
ktmpr = real(g_krook)
ktmpi = aimag(g_krook)
# ifdef NETCDF_PARALLEL
if(save_many) then
# endif
istatus = nf90_put_var (ncid, krookr_id, ktmpr)
#ifdef NETCDF_PARALLEL
else
istatus = nf90_var_par_access(ncid, krookr_id, NF90_COLLECTIVE)
istatus = nf90_var_par_access(ncid, krooki_id, NF90_COLLECTIVE)
start_pos = (/1,1,vmu_lo%llim_proc+1/)
counts = (/nakx, ntubes, nvmulo_elements/)
istatus = nf90_put_var (ncid, krookr_id, ktmpr, start=start_pos, count=counts)
endif
# endif
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, krookr_id)
# ifdef NETCDF_PARALLEL
if(save_many) then
# endif
istatus = nf90_put_var (ncid, krooki_id, ktmpi)
#ifdef NETCDF_PARALLEL
else
istatus = nf90_put_var (ncid, krooki_id, ktmpi, start=start_pos, count=counts)
endif
# endif
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, krooki_id)
end if
if (remove_zero_projection) then
if (.not. allocated(ptmpr)) &
allocate (ptmpr(nakx,ntubes,vmu_lo%llim_proc:vmu_lo%ulim_alloc))
if (.not. allocated(ptmpi)) &
allocate (ptmpi(nakx,ntubes,vmu_lo%llim_proc:vmu_lo%ulim_alloc))
# ifdef NETCDF_PARALLEL
if(save_many .or. iproc == 0) then
# endif
istatus = nf90_put_var (ncid, intproj_id, int_proj)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write (ierr,*) "nf90_put_var int_proj error: ", nf90_strerror(istatus)
goto 1
end if
# ifdef NETCDF_PARALLEL
endif
# endif
ptmpr = real(g_proj)
ptmpi = aimag(g_proj)
# ifdef NETCDF_PARALLEL
if(save_many) then
# endif
istatus = nf90_put_var (ncid, projr_id, ptmpr)
#ifdef NETCDF_PARALLEL
else
istatus = nf90_var_par_access(ncid, projr_id, NF90_COLLECTIVE)
istatus = nf90_var_par_access(ncid, proji_id, NF90_COLLECTIVE)
start_pos = (/1,1,vmu_lo%llim_proc+1/)
counts = (/nakx,ntubes, nvmulo_elements/)
istatus = nf90_put_var (ncid, projr_id, ptmpr, start=start_pos, count=counts)
endif
# endif
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, projr_id)
# ifdef NETCDF_PARALLEL
if(save_many) then
# endif
istatus = nf90_put_var (ncid, proji_id, ptmpi)
#ifdef NETCDF_PARALLEL
else
istatus = nf90_put_var (ncid, proji_id, ptmpi, start=start_pos, count=counts)
endif
# endif
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, proji_id)
end if
if (prp_shear_enabled) then
istatus = nf90_put_var (ncid, shift_id, shift_state)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, shift_id)
end if
end if
if (exit) then
i = nf90_close (ncid)
if (i /= NF90_NOERR) &
call netcdf_error (istatus, message='nf90_close error')
else
i = nf90_sync (ncid)
if (i /= NF90_NOERR) &
call netcdf_error (istatus, message='nf90_sync error')
end if
# else
if (proc0) write (error_unit(),*) &
'WARNING: stella_save_for_restart is called without netcdf library'
# endif
if (allocated(tmpr)) deallocate (tmpr)
if (allocated(tmpi)) deallocate (tmpi)
if (allocated(ptmpr)) deallocate (ptmpr)
if (allocated(ptmpi)) deallocate (ptmpi)
if (allocated(ktmpr)) deallocate (ktmpr)
if (allocated(ktmpi)) deallocate (ktmpi)
end subroutine stella_save_for_restart
!!----------------------------------------------------------------------!!
!!----------------------------------------------------------------------!!
!!---Restart------------------------------------------------------------!!
!!----------------------------------------------------------------------!!
!!----------------------------------------------------------------------!!
subroutine stella_restore_many (g, scale, istatus)
# ifdef NETCDF
use mp, only: iproc
use fields_arrays, only: shift_state
use dist_fn_arrays, only: g_krook, g_proj
use kt_grids, only: naky, nakx
# endif
use zgrid, only: nzgrid, ntubes
use vpamu_grids, only: nvpa, nmu
use stella_layouts, only: kxkyz_lo, vmu_lo
use file_utils, only: error_unit
use species, only: nspec
use dissipation, only: include_krook_operator, int_krook
use dissipation, only: remove_zero_projection, int_proj
use physics_flags, only: prp_shear_enabled
implicit none
complex, dimension (:,:,kxkyz_lo%llim_proc:), intent (out) :: g
real, intent (in) :: scale
integer, intent (out) :: istatus
# ifdef NETCDF
# ifdef NETCDF_PARALLEL
integer, dimension(3) :: counts, start_pos
# endif
character (306) :: file_proc
character (10) :: suffix
integer :: i, n_elements, nvmulo_elements, ierr
logical :: has_vmulo
real :: fac
n_elements = kxkyz_lo%ulim_proc-kxkyz_lo%llim_proc+1
nvmulo_elements = vmu_lo%ulim_proc-vmu_lo%llim_proc+1
if (n_elements <= 0) return
has_vmulo = nvmulo_elements.gt.0.or.read_many
if (.not.initialized) then
! initialized = .true.
file_proc = trim(restart_file)
# ifdef NETCDF_PARALLEL
if(read_many) then
# endif
write (suffix,'(a1,i0)') '.', iproc
file_proc = trim(trim(file_proc)//adjustl(suffix))
istatus = nf90_open (file_proc, NF90_NOWRITE, ncid)
# ifdef NETCDF_PARALLEL
else
! If using netcdf version 4.1.2 deleted NF90_MPIIO and the associated IOR
istatus = nf90_open (file_proc, IOR(NF90_NOWRITE, NF90_MPIIO), ncid, comm=mp_comm, info=mp_info)
endif
# endif
if (istatus /= NF90_NOERR) call netcdf_error (istatus, file=file_proc)
! check precision
if (netcdf_real == 0) netcdf_real = get_netcdf_code_precision()
call check_netcdf_file_precision (ncid)
istatus = nf90_inq_dimid (ncid, "tube", tubeid)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, dim='tube')
istatus = nf90_inq_dimid (ncid, "zed", zedid)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, dim='zed')
istatus = nf90_inq_dimid (ncid, "aky", kyid)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, dim='aky')
istatus = nf90_inq_dimid (ncid, "akx", kxid)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, dim='akx')
istatus = nf90_inq_dimid (ncid, "glo", gloid)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, dim='glo')
if(has_vmulo) then
istatus = nf90_inq_dimid (ncid, "gvmulo", gvmuloid)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, dim='gvmulo')
endif
istatus = nf90_inquire_dimension (ncid, tubeid, len=i)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, dimid=tubeid)
if (i /= ntubes) write(*,*) 'Restart error: ntubes=? ',i,' : ',ntubes,' : ',iproc
istatus = nf90_inquire_dimension (ncid, zedid, len=i)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, dimid=zedid)
if (i /= 2*nzgrid + 1) write(*,*) 'Restart error: nzgrid=? ',i,' : ',nzgrid,' : ',iproc
istatus = nf90_inquire_dimension (ncid, kyid, len=i)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, dimid=kyid)
if (i /= naky) write(*,*) 'Restart error: naky=? ',i,' : ',naky,' : ',iproc
istatus = nf90_inquire_dimension (ncid, kxid, len=i)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, dimid=kxid)
if (i /= nakx) write(*,*) 'Restart error: nakx=? ',i,' : ',nakx,' : ',iproc
istatus = nf90_inquire_dimension (ncid, gloid, len=i)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, dimid=gloid)
#ifdef NETCDF_PARALLEL
if(read_many) then
#endif
if (i /= n_elements) write(*,*) 'Restart error: glo=? ',i,' : ',iproc
#ifdef NETCDF_PARALLEL
else
if (i /= kxkyz_lo%ulim_world+1) write(*,*) 'Restart error: glo=? ',i,' : ',iproc
endif
#endif
if(has_vmulo) then
istatus = nf90_inquire_dimension (ncid, gvmuloid, len=i)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, dimid=gvmuloid)
#ifdef NETCDF_PARALLEL
if(read_many) then
#endif
if (i /= nvmulo_elements) write(*,*) 'Restart error: gvmulo=? ',i,' : ',iproc
#ifdef NETCDF_PARALLEL
else
if (i /= vmu_lo%ulim_world+1) write(*,*) 'Restart error: gvmulo=? ',i,' : ',iproc
endif
#endif
endif
if(include_krook_operator.and.has_vmulo) then
istatus = nf90_inq_varid (ncid, "intkrook", intkrook_id)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, var='intkrook')
istatus = nf90_inq_varid (ncid, "krookr", krookr_id)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, var='krookr')
istatus = nf90_inq_varid (ncid, "krooki", krooki_id)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, var='krooki')
endif
if(remove_zero_projection.and.has_vmulo) then
istatus = nf90_inq_varid (ncid, "intproj", intproj_id)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, var='intproj')
istatus = nf90_inq_varid (ncid, "projr", projr_id)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, var='projr')
istatus = nf90_inq_varid (ncid, "proji", proji_id)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, var='proji')
endif
if(prp_shear_enabled) then
istatus = nf90_inq_varid (ncid, "shiftstate", shift_id)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, var='shiftstate')
endif
! if (fbpar > epsilon(0.)) then
! istatus = nf90_inq_varid (ncid, "bpar_r", bparr_id)
! if (istatus /= NF90_NOERR) call netcdf_error (istatus, var='bpar_r')
! istatus = nf90_inq_varid (ncid, "bpar_i", bpari_id)
! if (istatus /= NF90_NOERR) call netcdf_error (istatus, var='bpar_i')
! end if
! if (allocated(kx_shift)) then ! MR begin
! istatus = nf90_inq_varid (ncid, "kx_shift", kx_shift_id)
! if (istatus /= NF90_NOERR) call netcdf_error (istatus, var='kx_shift')
! endif ! MR end
istatus = nf90_inq_varid (ncid, "gr", gr_id)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, var='gr')
istatus = nf90_inq_varid (ncid, "gi", gi_id)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, var='gi')
end if
if (.not. allocated(tmpr)) &
allocate (tmpr(nvpa,nmu,kxkyz_lo%llim_proc:kxkyz_lo%ulim_alloc))
if (.not. allocated(tmpi)) &
allocate (tmpi(nvpa,nmu,kxkyz_lo%llim_proc:kxkyz_lo%ulim_alloc))
tmpr = 0.; tmpi = 0.
# ifdef NETCDF_PARALLEL
if(read_many) then
# endif
istatus = nf90_get_var (ncid, gr_id, tmpr)
#ifdef NETCDF_PARALLEL
else
start_pos = (/1,1,kxkyz_lo%llim_proc+1/)
counts = (/nvpa, nmu, n_elements/)
istatus = nf90_get_var (ncid, gr_id, tmpr, start=start_pos, count=counts)
end if
# endif
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, gr_id)
# ifdef NETCDF_PARALLEL
if(read_many) then
# endif
istatus = nf90_get_var (ncid, gi_id, tmpi)
#ifdef NETCDF_PARALLEL
else
istatus = nf90_get_var (ncid, gi_id, tmpi, start=start_pos, count=counts)
end if
# endif
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, gi_id)
g = cmplx(tmpr, tmpi)
if(include_krook_operator.and.has_vmulo) then
if (.not. allocated(ktmpr)) &
allocate (ktmpr(nakx,ntubes,vmu_lo%llim_proc:vmu_lo%ulim_alloc))
if (.not. allocated(ktmpi)) &
allocate (ktmpi(nakx,ntubes,vmu_lo%llim_proc:vmu_lo%ulim_alloc))
istatus = nf90_get_var (ncid, intkrook_id, int_krook)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, intkrook_id)
ktmpr = 0.; ktmpi = 0.
# ifdef NETCDF_PARALLEL
if(read_many) then
# endif
istatus = nf90_get_var (ncid, krookr_id, ktmpr)
#ifdef NETCDF_PARALLEL
else
start_pos = (/1,1,vmu_lo%llim_proc+1/)
counts = (/nakx, ntubes, nvmulo_elements/)
istatus = nf90_get_var (ncid, krookr_id, ktmpr, start=start_pos, count=counts)
end if
# endif
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, krookr_id)
# ifdef NETCDF_PARALLEL
if(read_many) then
# endif
istatus = nf90_get_var (ncid, krooki_id, ktmpi)
#ifdef NETCDF_PARALLEL
else
istatus = nf90_get_var (ncid, krooki_id, ktmpi, start=start_pos, count=counts)
end if
# endif
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, krooki_id)
g_krook = cmplx(ktmpr, ktmpi)
endif
if(remove_zero_projection.and.has_vmulo) then
if (.not. allocated(ptmpr)) &
allocate (ptmpr(nakx,ntubes,vmu_lo%llim_proc:vmu_lo%ulim_alloc))
if (.not. allocated(ptmpi)) &
allocate (ptmpi(nakx,ntubes,vmu_lo%llim_proc:vmu_lo%ulim_alloc))
istatus = nf90_get_var (ncid, intproj_id, int_proj)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, intproj_id)
ptmpr = 0.; ptmpi = 0.
# ifdef NETCDF_PARALLEL
if(read_many) then
# endif
istatus = nf90_get_var (ncid, projr_id, ptmpr)
#ifdef NETCDF_PARALLEL
else
start_pos = (/1,1,vmu_lo%llim_proc+1/)
counts = (/nakx,ntubes, nvmulo_elements/)
istatus = nf90_get_var (ncid, projr_id, ptmpr, start=start_pos, count=counts)
end if
# endif
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, projr_id)
# ifdef NETCDF_PARALLEL
if(read_many) then
# endif
istatus = nf90_get_var (ncid, proji_id, ptmpi)
#ifdef NETCDF_PARALLEL
else
istatus = nf90_get_var (ncid, proji_id, ptmpi, start=start_pos, count=counts)
end if
# endif
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, proji_id)
g_proj = cmplx(ptmpr, ptmpi)
endif
if(prp_shear_enabled) then
istatus = nf90_get_var (ncid, shift_id, shift_state)
if (istatus /= NF90_NOERR) call netcdf_error (istatus, ncid, shift_id)
endif
if (scale > 0.) then
g = g*scale
if(include_krook_operator) g_krook = g_krook*scale
if(remove_zero_projection) g_proj = g_proj*scale
endif
! RN 2008/05/23: this was commented out. why? HJL 2013/05/15 Because it stops future writing to the file
! istatus = nf90_close (ncid)
if (istatus /= NF90_NOERR) then
ierr = error_unit()
write(ierr,*) "nf90_close error: ", nf90_strerror(istatus),' ',iproc
end if
# else
write (error_unit(),*) &
'ERROR: stella_restore_many is called without netcdf'
# endif
if (allocated(tmpr)) deallocate (tmpr)
if (allocated(tmpi)) deallocate (tmpi)
if (allocated(ptmpr)) deallocate (ptmpr)
if (allocated(ptmpi)) deallocate (ptmpi)
if (allocated(ktmpr)) deallocate (ktmpr)
if (allocated(ktmpi)) deallocate (ktmpi)
end subroutine stella_restore_many
subroutine init_save (file)
character(300), intent (in) :: file
restart_file = file
end subroutine init_save
subroutine init_dt (delt0, istatus)
# ifdef NETCDF
use mp, only: proc0, broadcast
use file_utils, only: error_unit