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io.f90
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!=======================================================================
! This is part of the 2DECOMP&FFT library
!
! 2DECOMP&FFT is a software framework for general-purpose 2D (pencil)
! decomposition. It also implements a highly scalable distributed
! three-dimensional Fast Fourier Transform (FFT).
!
! Copyright (C) 2009-2013 Ning Li, the Numerical Algorithms Group (NAG)
!
!=======================================================================
! This module provides parallel IO facilities for applications based on
! 2D decomposition.
module decomp_2d_io
use decomp_2d
use MPI
#ifdef T3PIO
use t3pio
#endif
implicit none
private ! Make everything private unless declared public
public :: decomp_2d_write_one, decomp_2d_read_one, &
decomp_2d_write_var, decomp_2d_read_var, &
decomp_2d_write_scalar, decomp_2d_read_scalar, &
decomp_2d_write_plane, decomp_2d_write_every, &
decomp_2d_write_subdomain
! Generic interface to handle multiple data types
interface decomp_2d_write_one
module procedure write_one_real
module procedure write_one_complex
module procedure mpiio_write_real_coarse
module procedure mpiio_write_real_probe
end interface decomp_2d_write_one
interface decomp_2d_read_one
module procedure read_one_real
module procedure read_one_complex
end interface decomp_2d_read_one
interface decomp_2d_write_var
module procedure write_var_real
module procedure write_var_complex
end interface decomp_2d_write_var
interface decomp_2d_read_var
module procedure read_var_real
module procedure read_var_complex
end interface decomp_2d_read_var
interface decomp_2d_write_scalar
module procedure write_scalar_real
module procedure write_scalar_complex
module procedure write_scalar_integer
module procedure write_scalar_logical
end interface decomp_2d_write_scalar
interface decomp_2d_read_scalar
module procedure read_scalar_real
module procedure read_scalar_complex
module procedure read_scalar_integer
module procedure read_scalar_logical
end interface decomp_2d_read_scalar
interface decomp_2d_write_plane
module procedure write_plane_3d_real
module procedure write_plane_3d_complex
! module procedure write_plane_2d
end interface decomp_2d_write_plane
interface decomp_2d_write_every
module procedure write_every_real
module procedure write_every_complex
end interface decomp_2d_write_every
interface decomp_2d_write_subdomain
module procedure write_subdomain
end interface decomp_2d_write_subdomain
contains
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Using MPI-IO library to write a single 3D array to a file
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
subroutine write_one_real(ipencil,var,filename,opt_decomp)
implicit none
integer, intent(IN) :: ipencil
real(mytype), dimension(:,:,:), intent(IN) :: var
character(len=*), intent(IN) :: filename
TYPE(DECOMP_INFO), intent(IN), optional :: opt_decomp
TYPE(DECOMP_INFO) :: decomp
integer(kind=MPI_OFFSET_KIND) :: filesize, disp
integer, dimension(3) :: sizes, subsizes, starts
integer :: ierror, newtype, fh, data_type, info, gs
data_type = real_type
#include "io_write_one.f90"
return
end subroutine write_one_real
subroutine write_one_complex(ipencil,var,filename,opt_decomp)
implicit none
integer, intent(IN) :: ipencil
complex(mytype), dimension(:,:,:), intent(IN) :: var
character(len=*), intent(IN) :: filename
TYPE(DECOMP_INFO), intent(IN), optional :: opt_decomp
TYPE(DECOMP_INFO) :: decomp
integer(kind=MPI_OFFSET_KIND) :: filesize, disp
integer, dimension(3) :: sizes, subsizes, starts
integer :: ierror, newtype, fh, data_type, info, gs
data_type = complex_type
#include "io_write_one.f90"
return
end subroutine write_one_complex
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Using MPI-IO library to read from a file a single 3D array
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
subroutine read_one_real(ipencil,var,filename,opt_decomp)
implicit none
integer, intent(IN) :: ipencil
real(mytype), dimension(:,:,:), intent(INOUT) :: var
character(len=*), intent(IN) :: filename
TYPE(DECOMP_INFO), intent(IN), optional :: opt_decomp
TYPE(DECOMP_INFO) :: decomp
integer(kind=MPI_OFFSET_KIND) :: disp
integer, dimension(3) :: sizes, subsizes, starts
integer :: ierror, newtype, fh, data_type
real(mytype_single), allocatable, dimension(:,:,:) :: varsingle
data_type = real_type_single
allocate (varsingle(xstV(1):xenV(1),xstV(2):xenV(2),xstV(3):xenV(3)))
if (present(opt_decomp)) then
decomp = opt_decomp
else
call get_decomp_info(decomp)
end if
! determine subarray parameters
sizes(1) = decomp%xsz(1)
sizes(2) = decomp%ysz(2)
sizes(3) = decomp%zsz(3)
if (ipencil == 1) then
subsizes(1) = decomp%xsz(1)
subsizes(2) = decomp%xsz(2)
subsizes(3) = decomp%xsz(3)
starts(1) = decomp%xst(1)-1 ! 0-based index
starts(2) = decomp%xst(2)-1
starts(3) = decomp%xst(3)-1
else if (ipencil == 2) then
subsizes(1) = decomp%ysz(1)
subsizes(2) = decomp%ysz(2)
subsizes(3) = decomp%ysz(3)
starts(1) = decomp%yst(1)-1
starts(2) = decomp%yst(2)-1
starts(3) = decomp%yst(3)-1
else if (ipencil == 3) then
subsizes(1) = decomp%zsz(1)
subsizes(2) = decomp%zsz(2)
subsizes(3) = decomp%zsz(3)
starts(1) = decomp%zst(1)-1
starts(2) = decomp%zst(2)-1
starts(3) = decomp%zst(3)-1
endif
call MPI_TYPE_CREATE_SUBARRAY(3, sizes, subsizes, starts, &
MPI_ORDER_FORTRAN, data_type, newtype, ierror)
call MPI_TYPE_COMMIT(newtype,ierror)
call MPI_FILE_OPEN(MPI_COMM_WORLD, filename, &
MPI_MODE_RDONLY, MPI_INFO_NULL, &
fh, ierror)
disp = 0_MPI_OFFSET_KIND
call MPI_FILE_SET_VIEW(fh,disp,data_type, &
newtype,'native',MPI_INFO_NULL,ierror)
call MPI_FILE_READ_ALL(fh, varsingle, &
subsizes(1)*subsizes(2)*subsizes(3), &
data_type, MPI_STATUS_IGNORE, ierror)
call MPI_FILE_CLOSE(fh,ierror)
call MPI_TYPE_FREE(newtype,ierror)
var = real(varsingle,mytype)
deallocate(varsingle)
return
end subroutine read_one_real
subroutine read_one_complex(ipencil,var,filename,opt_decomp)
implicit none
integer, intent(IN) :: ipencil
complex(mytype), dimension(:,:,:), intent(INOUT) :: var
character(len=*), intent(IN) :: filename
TYPE(DECOMP_INFO), intent(IN), optional :: opt_decomp
TYPE(DECOMP_INFO) :: decomp
integer(kind=MPI_OFFSET_KIND) :: disp
integer, dimension(3) :: sizes, subsizes, starts
integer :: ierror, newtype, fh, data_type
data_type = complex_type
#include "io_read_one.f90"
return
end subroutine read_one_complex
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Write a 3D array as part of a big MPI-IO file, starting from
! displacement 'disp'; 'disp' will be updated after the writing
! operation to prepare the writing of next chunk of data.
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
subroutine write_var_real(fh,disp,ipencil,var,opt_decomp)
implicit none
integer, intent(IN) :: fh
integer(KIND=MPI_OFFSET_KIND), intent(INOUT) :: disp
integer, intent(IN) :: ipencil
real(mytype), dimension(:,:,:), intent(IN) :: var
TYPE(DECOMP_INFO), intent(IN), optional :: opt_decomp
TYPE(DECOMP_INFO) :: decomp
integer, dimension(3) :: sizes, subsizes, starts
integer :: ierror, newtype, data_type
data_type = real_type
#include "io_write_var.f90"
return
end subroutine write_var_real
subroutine write_var_complex(fh,disp,ipencil,var,opt_decomp)
implicit none
integer, intent(IN) :: fh
integer(KIND=MPI_OFFSET_KIND), intent(INOUT) :: disp
integer, intent(IN) :: ipencil
complex(mytype), dimension(:,:,:), intent(IN) :: var
TYPE(DECOMP_INFO), intent(IN), optional :: opt_decomp
TYPE(DECOMP_INFO) :: decomp
integer, dimension(3) :: sizes, subsizes, starts
integer :: ierror, newtype, data_type
data_type = complex_type
#include "io_write_var.f90"
return
end subroutine write_var_complex
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Read a 3D array as part of a big MPI-IO file, starting from
! displacement 'disp'; 'disp' will be updated after the reading
! operation to prepare the reading of next chunk of data.
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
subroutine read_var_real(fh,disp,ipencil,var,opt_decomp)
implicit none
integer, intent(IN) :: fh
integer(KIND=MPI_OFFSET_KIND), intent(INOUT) :: disp
integer, intent(IN) :: ipencil
real(mytype), dimension(:,:,:), intent(INOUT) :: var
TYPE(DECOMP_INFO), intent(IN), optional :: opt_decomp
TYPE(DECOMP_INFO) :: decomp
integer, dimension(3) :: sizes, subsizes, starts
integer :: ierror, newtype, data_type
data_type = real_type
#include "io_read_var.f90"
return
end subroutine read_var_real
subroutine read_var_complex(fh,disp,ipencil,var,opt_decomp)
implicit none
integer, intent(IN) :: fh
integer(KIND=MPI_OFFSET_KIND), intent(INOUT) :: disp
integer, intent(IN) :: ipencil
complex(mytype), dimension(:,:,:), intent(INOUT) :: var
TYPE(DECOMP_INFO), intent(IN), optional :: opt_decomp
TYPE(DECOMP_INFO) :: decomp
integer, dimension(3) :: sizes, subsizes, starts
integer :: ierror, newtype, data_type
data_type = complex_type
#include "io_read_var.f90"
return
end subroutine read_var_complex
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Write scalar variables as part of a big MPI-IO file, starting from
! displacement 'disp'; 'disp' will be updated after the reading
! operation to prepare the reading of next chunk of data.
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
subroutine write_scalar_real(fh,disp,n,var)
implicit none
integer, intent(IN) :: fh ! file handle
integer(KIND=MPI_OFFSET_KIND), &
intent(INOUT) :: disp ! displacement
integer, intent(IN) :: n ! number of scalars
real(mytype), dimension(n), &
intent(IN) :: var ! array of scalars
integer :: m, ierror
call MPI_FILE_SET_VIEW(fh,disp,real_type, &
real_type,'native',MPI_INFO_NULL,ierror)
if (nrank==0) then
m = n ! only one rank needs to write
else
m = 0
end if
call MPI_FILE_WRITE_ALL(fh, var, m, real_type, &
MPI_STATUS_IGNORE, ierror)
disp = disp + n*mytype_bytes
return
end subroutine write_scalar_real
subroutine write_scalar_complex(fh,disp,n,var)
implicit none
integer, intent(IN) :: fh
integer(KIND=MPI_OFFSET_KIND), intent(INOUT) :: disp
integer, intent(IN) :: n
complex(mytype), dimension(n), intent(IN) :: var
integer :: m, ierror
call MPI_FILE_SET_VIEW(fh,disp,complex_type, &
complex_type,'native',MPI_INFO_NULL,ierror)
if (nrank==0) then
m = n
else
m = 0
end if
call MPI_FILE_WRITE_ALL(fh, var, m, complex_type, &
MPI_STATUS_IGNORE, ierror)
disp = disp + n*mytype_bytes*2
return
end subroutine write_scalar_complex
subroutine write_scalar_integer(fh,disp,n,var)
implicit none
integer, intent(IN) :: fh
integer(KIND=MPI_OFFSET_KIND), intent(INOUT) :: disp
integer, intent(IN) :: n
integer, dimension(n), intent(IN) :: var
integer :: m, ierror
call MPI_FILE_SET_VIEW(fh,disp,MPI_INTEGER, &
MPI_INTEGER,'native',MPI_INFO_NULL,ierror)
if (nrank==0) then
m = n
else
m = 0
end if
call MPI_FILE_WRITE_ALL(fh, var, m, MPI_INTEGER, &
MPI_STATUS_IGNORE, ierror)
call MPI_TYPE_SIZE(MPI_INTEGER,m,ierror)
disp = disp + n*m
return
end subroutine write_scalar_integer
subroutine write_scalar_logical(fh,disp,n,var)
implicit none
integer, intent(IN) :: fh
integer(KIND=MPI_OFFSET_KIND), intent(INOUT) :: disp
integer, intent(IN) :: n
logical, dimension(n), intent(IN) :: var
integer :: m, ierror
call MPI_FILE_SET_VIEW(fh,disp,MPI_LOGICAL, &
MPI_LOGICAL,'native',MPI_INFO_NULL,ierror)
if (nrank==0) then
m = n
else
m = 0
end if
call MPI_FILE_WRITE_ALL(fh, var, m, MPI_LOGICAL, &
MPI_STATUS_IGNORE, ierror)
call MPI_TYPE_SIZE(MPI_LOGICAL,m,ierror)
disp = disp + n*m
return
end subroutine write_scalar_logical
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Read scalar variables as part of a big MPI-IO file, starting from
! displacement 'disp'; 'disp' will be updated after the reading
! operation to prepare the reading of next chunk of data.
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
subroutine read_scalar_real(fh,disp,n,var)
implicit none
integer, intent(IN) :: fh ! file handle
integer(KIND=MPI_OFFSET_KIND), &
intent(INOUT) :: disp ! displacement
integer, intent(IN) :: n ! number of scalars
real(mytype), dimension(n), &
intent(INOUT) :: var ! array of scalars
integer :: ierror
call MPI_FILE_SET_VIEW(fh,disp,real_type, &
real_type,'native',MPI_INFO_NULL,ierror)
call MPI_FILE_READ_ALL(fh, var, n, real_type, &
MPI_STATUS_IGNORE, ierror)
disp = disp + n*mytype_bytes
return
end subroutine read_scalar_real
subroutine read_scalar_complex(fh,disp,n,var)
implicit none
integer, intent(IN) :: fh
integer(KIND=MPI_OFFSET_KIND), intent(INOUT) :: disp
integer, intent(IN) :: n
complex(mytype), dimension(n), intent(INOUT) :: var
integer :: ierror
call MPI_FILE_SET_VIEW(fh,disp,complex_type, &
complex_type,'native',MPI_INFO_NULL,ierror)
call MPI_FILE_READ_ALL(fh, var, n, complex_type, &
MPI_STATUS_IGNORE, ierror)
disp = disp + n*mytype_bytes*2
return
end subroutine read_scalar_complex
subroutine read_scalar_integer(fh,disp,n,var)
implicit none
integer, intent(IN) :: fh
integer(KIND=MPI_OFFSET_KIND), intent(INOUT) :: disp
integer, intent(IN) :: n
integer, dimension(n), intent(INOUT) :: var
integer :: m, ierror
call MPI_FILE_SET_VIEW(fh,disp,MPI_INTEGER, &
MPI_INTEGER,'native',MPI_INFO_NULL,ierror)
call MPI_FILE_READ_ALL(fh, var, n, MPI_INTEGER, &
MPI_STATUS_IGNORE, ierror)
call MPI_TYPE_SIZE(MPI_INTEGER,m,ierror)
disp = disp + n*m
return
end subroutine read_scalar_integer
subroutine read_scalar_logical(fh,disp,n,var)
implicit none
integer, intent(IN) :: fh
integer(KIND=MPI_OFFSET_KIND), intent(INOUT) :: disp
integer, intent(IN) :: n
logical, dimension(n), intent(INOUT) :: var
integer :: m, ierror
call MPI_FILE_SET_VIEW(fh,disp,MPI_LOGICAL, &
MPI_LOGICAL,'native',MPI_INFO_NULL,ierror)
call MPI_FILE_READ_ALL(fh, var, n, MPI_LOGICAL, &
MPI_STATUS_IGNORE, ierror)
call MPI_TYPE_SIZE(MPI_LOGICAL,m,ierror)
disp = disp + n*m
return
end subroutine read_scalar_logical
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Write a 2D slice of the 3D data to a file
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
subroutine write_plane_3d_real(ipencil,var,iplane,n,filename, &
opt_decomp)
implicit none
integer, intent(IN) :: ipencil !(x-pencil=1; y-pencil=2; z-pencil=3)
real(mytype), dimension(:,:,:), intent(IN) :: var
integer, intent(IN) :: iplane !(x-plane=1; y-plane=2; z-plane=3)
integer, intent(IN) :: n ! which plane to write (global coordinate)
character(len=*), intent(IN) :: filename
TYPE(DECOMP_INFO), intent(IN), optional :: opt_decomp
real(mytype), allocatable, dimension(:,:,:) :: wk, wk2
real(mytype), allocatable, dimension(:,:,:) :: wk2d
TYPE(DECOMP_INFO) :: decomp
integer(kind=MPI_OFFSET_KIND) :: filesize, disp
integer, dimension(3) :: sizes, subsizes, starts
integer :: i,j,k, ierror, newtype, fh, data_type
data_type = real_type
#include "io_write_plane.f90"
return
end subroutine write_plane_3d_real
subroutine write_plane_3d_complex(ipencil,var,iplane,n, &
filename,opt_decomp)
implicit none
integer, intent(IN) :: ipencil !(x-pencil=1; y-pencil=2; z-pencil=3)
complex(mytype), dimension(:,:,:), intent(IN) :: var
integer, intent(IN) :: iplane !(x-plane=1; y-plane=2; z-plane=3)
integer, intent(IN) :: n ! which plane to write (global coordinate)
character(len=*), intent(IN) :: filename
TYPE(DECOMP_INFO), intent(IN), optional :: opt_decomp
complex(mytype), allocatable, dimension(:,:,:) :: wk, wk2
complex(mytype), allocatable, dimension(:,:,:) :: wk2d
TYPE(DECOMP_INFO) :: decomp
integer(kind=MPI_OFFSET_KIND) :: filesize, disp
integer, dimension(3) :: sizes, subsizes, starts
integer :: i,j,k, ierror, newtype, fh, data_type
data_type = complex_type
#include "io_write_plane.f90"
return
end subroutine write_plane_3d_complex
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Write a 2D array to a file
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
!************** TO DO ***************
!* Consider handling distributed 2D data set
! subroutine write_plane_2d(ipencil,var,filename)
! integer, intent(IN) :: ipencil !(x-pencil=1; y-pencil=2; z-pencil=3)
! real(mytype), dimension(:,:), intent(IN) :: var ! 2D array
! character(len=*), intent(IN) :: filename
!
! if (ipencil==1) then
! ! var should be defined as var(xsize(2)
!
! else if (ipencil==2) then
!
! else if (ipencil==3) then
!
! end if
!
! return
! end subroutine write_plane_2d
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Write 3D array data for every specified mesh point
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
subroutine write_every_real(ipencil,var,iskip,jskip,kskip, &
filename, from1)
implicit none
integer, intent(IN) :: ipencil !(x-pencil=1; y-pencil=2; z-pencil=3)
real(mytype), dimension(:,:,:), intent(IN) :: var
integer, intent(IN) :: iskip,jskip,kskip
character(len=*), intent(IN) :: filename
logical, intent(IN) :: from1 ! .true. - save 1,n+1,2n+1...
! .false. - save n,2n,3n...
real(mytype), allocatable, dimension(:,:,:) :: wk, wk2
integer(kind=MPI_OFFSET_KIND) :: filesize, disp
integer, dimension(3) :: sizes, subsizes, starts
integer :: i,j,k, ierror, newtype, fh, key,color,newcomm, data_type
integer, dimension(3) :: xsz,ysz,zsz,xst,yst,zst,xen,yen,zen,skip
data_type = real_type
#include "io_write_every.f90"
return
end subroutine write_every_real
subroutine write_every_complex(ipencil,var,iskip,jskip,kskip, &
filename, from1)
implicit none
integer, intent(IN) :: ipencil !(x-pencil=1; y-pencil=2; z-pencil=3)
complex(mytype), dimension(:,:,:), intent(IN) :: var
integer, intent(IN) :: iskip,jskip,kskip
character(len=*), intent(IN) :: filename
logical, intent(IN) :: from1 ! .true. - save 1,n+1,2n+1...
! .false. - save n,2n,3n...
complex(mytype), allocatable, dimension(:,:,:) :: wk, wk2
integer(kind=MPI_OFFSET_KIND) :: filesize, disp
integer, dimension(3) :: sizes, subsizes, starts
integer :: i,j,k, ierror, newtype, fh, key,color,newcomm, data_type
integer, dimension(3) :: xsz,ysz,zsz,xst,yst,zst,xen,yen,zen,skip
data_type = complex_type
#include "io_write_every.f90"
return
end subroutine write_every_complex
subroutine mpiio_write_real_coarse(ipencil,var,filename,icoarse)
USE param
USE variables
implicit none
integer, intent(IN) :: ipencil !(x-pencil=1; y-pencil=2; z-pencil=3)
integer, intent(IN) :: icoarse !(nstat=1; nvisu=2)
real(mytype), dimension(:,:,:), intent(IN) :: var
real(mytype_single), allocatable, dimension(:,:,:) :: varsingle
character(len=*) :: filename
integer (kind=MPI_OFFSET_KIND) :: filesize, disp
integer, dimension(3) :: sizes, subsizes, starts
integer :: i,j,k, ierror, newtype, fh
if (icoarse==1) then
sizes(1) = xszS(1)
sizes(2) = yszS(2)
sizes(3) = zszS(3)
if (ipencil == 1) then
subsizes(1) = xszS(1)
subsizes(2) = xszS(2)
subsizes(3) = xszS(3)
starts(1) = xstS(1)-1 ! 0-based index
starts(2) = xstS(2)-1
starts(3) = xstS(3)-1
else if (ipencil == 2) then
subsizes(1) = yszS(1)
subsizes(2) = yszS(2)
subsizes(3) = yszS(3)
starts(1) = ystS(1)-1
starts(2) = ystS(2)-1
starts(3) = ystS(3)-1
else if (ipencil == 3) then
subsizes(1) = zszS(1)
subsizes(2) = zszS(2)
subsizes(3) = zszS(3)
starts(1) = zstS(1)-1
starts(2) = zstS(2)-1
starts(3) = zstS(3)-1
endif
endif
if (icoarse==2) then
sizes(1) = xszV(1)
sizes(2) = yszV(2)
sizes(3) = zszV(3)
if (ipencil == 1) then
subsizes(1) = xszV(1)
subsizes(2) = xszV(2)
subsizes(3) = xszV(3)
starts(1) = xstV(1)-1 ! 0-based index
starts(2) = xstV(2)-1
starts(3) = xstV(3)-1
else if (ipencil == 2) then
subsizes(1) = yszV(1)
subsizes(2) = yszV(2)
subsizes(3) = yszV(3)
starts(1) = ystV(1)-1
starts(2) = ystV(2)-1
starts(3) = ystV(3)-1
else if (ipencil == 3) then
subsizes(1) = zszV(1)
subsizes(2) = zszV(2)
subsizes(3) = zszV(3)
starts(1) = zstV(1)-1
starts(2) = zstV(2)-1
starts(3) = zstV(3)-1
endif
endif
allocate (varsingle(xstV(1):xenV(1),xstV(2):xenV(2),xstV(3):xenV(3)))
varsingle=var
call MPI_TYPE_CREATE_SUBARRAY(3, sizes, subsizes, starts, &
MPI_ORDER_FORTRAN, real_type_single, newtype, ierror)
call MPI_TYPE_COMMIT(newtype,ierror)
call MPI_FILE_OPEN(MPI_COMM_WORLD, filename, &
MPI_MODE_CREATE+MPI_MODE_WRONLY, MPI_INFO_NULL, &
fh, ierror)
filesize = 0_MPI_OFFSET_KIND
call MPI_FILE_SET_SIZE(fh,filesize,ierror) ! guarantee overwriting
disp = 0_MPI_OFFSET_KIND
call MPI_FILE_SET_VIEW(fh,disp,real_type_single, &
newtype,'native',MPI_INFO_NULL,ierror)
call MPI_FILE_WRITE_ALL(fh, varsingle, &
subsizes(1)*subsizes(2)*subsizes(3), &
real_type_single, MPI_STATUS_IGNORE, ierror)
call MPI_FILE_CLOSE(fh,ierror)
call MPI_TYPE_FREE(newtype,ierror)
deallocate(varsingle)
return
end subroutine mpiio_write_real_coarse
subroutine mpiio_write_real_probe(ipencil,var,filename)
USE param
USE variables
implicit none
integer, intent(IN) :: ipencil !(x-pencil=1; y-pencil=2; z-pencil=3)
real(mytype), dimension(:,:,:,:), intent(IN) :: var
character(len=*) :: filename
integer (kind=MPI_OFFSET_KIND) :: filesize, disp
integer, dimension(4) :: sizes, subsizes, starts
integer :: i,j,k, ierror, newtype, fh
sizes(1) = xszP(1)
sizes(2) = yszP(2)
sizes(3) = zszP(3)
sizes(4) = nlength
if (ipencil == 1) then
subsizes(1) = xszP(1)
subsizes(2) = xszP(2)
subsizes(3) = xszP(3)
subsizes(4) = nlength
starts(1) = xstP(1)-1 ! 0-based index
starts(2) = xstP(2)-1
starts(3) = xstP(3)-1
starts(4) = 0
else if (ipencil == 2) then
subsizes(1) = yszP(1)
subsizes(2) = yszP(2)
subsizes(3) = yszP(3)
starts(1) = ystP(1)-1
starts(2) = ystP(2)-1
starts(3) = ystP(3)-1
else if (ipencil == 3) then
subsizes(1) = zszP(1)
subsizes(2) = zszP(2)
subsizes(3) = zszP(3)
starts(1) = zstP(1)-1
starts(2) = zstP(2)-1
starts(3) = zstP(3)-1
endif
! print *,nrank,starts(1),starts(2),starts(3),starts(4)
call MPI_TYPE_CREATE_SUBARRAY(4, sizes, subsizes, starts, &
MPI_ORDER_FORTRAN, real_type, newtype, ierror)
call MPI_TYPE_COMMIT(newtype,ierror)
call MPI_FILE_OPEN(MPI_COMM_WORLD, filename, &
MPI_MODE_CREATE+MPI_MODE_WRONLY, MPI_INFO_NULL, &
fh, ierror)
filesize = 0_MPI_OFFSET_KIND
call MPI_FILE_SET_SIZE(fh,filesize,ierror) ! guarantee overwriting
disp = 0_MPI_OFFSET_KIND
call MPI_FILE_SET_VIEW(fh,disp,real_type, &
newtype,'native',MPI_INFO_NULL,ierror)
call MPI_FILE_WRITE_ALL(fh, var, &
subsizes(1)*subsizes(2)*subsizes(3)*subsizes(4), &
real_type, MPI_STATUS_IGNORE, ierror)
call MPI_FILE_CLOSE(fh,ierror)
call MPI_TYPE_FREE(newtype,ierror)
return
end subroutine mpiio_write_real_probe
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
! Write a 3D data set covering a smaller sub-domain only
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
subroutine write_subdomain(ipencil,var,is,ie,js,je,ks,ke,filename)
implicit none
integer, intent(IN) :: ipencil !(x-pencil=1; y-pencil=2; z-pencil=3)
real(mytype), dimension(:,:,:), intent(IN) :: var
integer, intent(IN) :: is, ie, js, je, ks, ke
character(len=*), intent(IN) :: filename
real(mytype), allocatable, dimension(:,:,:) :: wk, wk2
integer(kind=MPI_OFFSET_KIND) :: filesize, disp
integer, dimension(3) :: sizes, subsizes, starts
integer :: color, key, errorcode, newcomm, ierror
integer :: newtype, fh, data_type, i, j, k
integer :: i1, i2, j1, j2, k1, k2
data_type = real_type
! validate the input paramters
if (is<1 .OR. ie>nx_global .OR. js<1 .OR. je>ny_global .OR. &
ks<1 .OR. ke>nz_global) then
errorcode = 10
call decomp_2d_abort(errorcode, &
'Invalid subdomain specified in I/O')
end if
! create a communicator for all those MPI ranks containing the subdomain
color = 1
key = 1
if (ipencil==1) then
if (xstart(1)>ie .OR. xend(1)<is .OR. xstart(2)>je .OR. xend(2)<js &
.OR. xstart(3)>ke .OR. xend(3)<ks) then
color = 2
end if
else if (ipencil==2) then
if (ystart(1)>ie .OR. yend(1)<is .OR. ystart(2)>je .OR. yend(2)<js &
.OR. ystart(3)>ke .OR. yend(3)<ks) then
color = 2
end if
else if (ipencil==3) then
if (zstart(1)>ie .OR. zend(1)<is .OR. zstart(2)>je .OR. zend(2)<js &
.OR. zstart(3)>ke .OR. zend(3)<ks) then
color = 2
end if
end if
call MPI_COMM_SPLIT(MPI_COMM_WORLD,color,key,newcomm,ierror)
if (color==1) then ! only ranks in this group do IO collectively
! generate MPI-IO subarray information
! global size of the sub-domain to write
sizes(1) = ie - is + 1
sizes(2) = je - js + 1
sizes(3) = ke - ks + 1
! 'subsizes' & 'starts' as required by MPI_TYPE_CREATE_SUBARRAY
! note the special code whe subdomain only occupy part of the pencil
if (ipencil==1) then
subsizes(1) = xsize(1)
starts(1) = xstart(1) - is
if (xend(1)>ie .AND. xstart(1)<is) then
subsizes(1) = ie - is + 1
starts(1) = 0
else if (xstart(1)<is) then
subsizes(1) = xend(1) - is + 1
starts(1) = 0
else if (xend(1)>ie) then
subsizes(1) = ie - xstart(1) + 1
end if
subsizes(2) = xsize(2)
starts(2) = xstart(2) - js
if (xend(2)>je .AND. xstart(2)<js) then
subsizes(2) = je - js + 1
starts(2) = 0
else if (xstart(2)<js) then
subsizes(2) = xend(2) - js + 1
starts(2) = 0
else if (xend(2)>je) then
subsizes(2) = je - xstart(2) + 1
end if
subsizes(3) = xsize(3)
starts(3) = xstart(3) - ks
if (xend(3)>ke .AND. xstart(3)<ks) then
subsizes(3) = ke - ks + 1
starts(3) = 0
else if (xstart(3)<ks) then
subsizes(3) = xend(3) - ks + 1
starts(3) = 0
else if (xend(3)>ke) then
subsizes(3) = ke - xstart(3) + 1
end if
else if (ipencil==2) then
! TODO
else if (ipencil==3) then
! TODO
end if
! copy data from orginal to a temp array
! pay attention to blocks only partially cover the sub-domain
if (ipencil==1) then
if (xend(1)>ie .AND. xstart(1)<is) then
i1 = is
i2 = ie
else if (xend(1)>ie) then
i1 = xstart(1)
i2 = ie
else if (xstart(1)<is) then
i1 = is
i2 = xend(1)
else
i1 = xstart(1)
i2 = xend(1)
end if
if (xend(2)>je .AND. xstart(2)<js) then
j1 = js
j2 = je
else if (xend(2)>je) then
j1 = xstart(2)
j2 = je
else if (xstart(2)<js) then
j1 = js
j2 = xend(2)
else
j1 = xstart(2)
j2 = xend(2)
end if
if (xend(3)>ke .AND. xstart(3)<ks) then
k1 = ks
k2 = ke
else if (xend(3)>ke) then
k1 = xstart(3)
k2 = ke
else if (xstart(3)<ks) then
k1 = ks
k2 = xend(3)
else
k1 = xstart(3)
k2 = xend(3)
end if
allocate(wk(i1:i2, j1:j2, k1:k2))
allocate(wk2(xstart(1):xend(1),xstart(2):xend(2),xstart(3):xend(3)))
wk2 = var
do k=k1,k2
do j=j1,j2
do i=i1,i2
wk(i,j,k) = wk2(i,j,k)
end do
end do
end do