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! * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
! Copyright by the Board of Trustees of the University of Illinois. *
! All rights reserved. *
! *
! This file is part of HDF5. The full HDF5 copyright notice, including *
! terms governing use, modification, and redistribution, is contained in *
! the files COPYING and Copyright.html. COPYING can be found at the root *
! of the source code distribution tree; Copyright.html can be found at the *
! root level of an installed copy of the electronic HDF5 document set and *
! is linked from the top-level documents page. It can also be found at *
! http://hdf.ncsa.uiuc.edu/HDF5/doc/Copyright.html. If you do not have *
! access to either file, you may request a copy from hdfhelp@ncsa.uiuc.edu. *
! * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
!//////////////////////////////////////////////////////////
! writes/reads dataset by hyperslabs
!//////////////////////////////////////////////////////////
subroutine hyper(lenght,do_collective,do_chunk,nerrors)
use hdf5
implicit none
include 'mpif.h'
integer, intent(in) :: lenght ! array lenght
logical, intent(in) :: do_collective ! use collective I/O
logical, intent(in) :: do_chunk ! use chunking
integer, intent(inout) :: nerrors ! number of errors
integer :: mpierror ! MPI hdferror flag
integer :: hdferror ! HDF hdferror flag
integer :: mpi_size ! number of processes in the group of communicator
integer :: mpi_rank ! rank of the calling process in the communicator
integer(hsize_t), dimension(1) :: dims ! dataset dimensions
integer(hsize_t), dimension(1) :: cdims ! chunk dimensions
integer, allocatable :: wbuf(:) ! write buffer
integer, allocatable :: rbuf(:) ! read buffer
integer(hsize_t), dimension(1) :: counti ! hyperslab selection
integer(hsize_t), dimension(1) :: start ! hyperslab selection
integer(hid_t) :: fapl_id ! file access identifier
integer(hid_t) :: dxpl_id ! dataset transfer property list
integer(hid_t) :: dcpl_id ! dataset creation property list
integer(hid_t) :: file_id ! file identifier
integer(hid_t) :: dset_id ! dataset identifier
integer(hid_t) :: fspace_id ! file space identifier
integer(hid_t) :: mspace_id ! memory space identifier
integer(hid_t) :: driver_id ! low-level file driver identifier
integer :: istart ! start position in array
integer :: iend ! end position in array
integer :: icount ! number of elements in array
integer :: i
call mpi_comm_rank( MPI_COMM_WORLD, mpi_rank, mpierror )
call mpi_comm_size( MPI_COMM_WORLD, mpi_size, mpierror )
!//////////////////////////////////////////////////////////
! initialize the array data between the processes (3)
! for the 12 size array we get
! p0 = 1,2,3,4
! p1 = 5,6,7,8
! p2 = 9,10,11,12
!//////////////////////////////////////////////////////////
allocate(wbuf(0:lenght-1),stat=hdferror)
if (hdferror /= 0) then
write(*,*) 'allocate error'
return
endif
allocate(rbuf(0:lenght-1),stat=hdferror)
if (hdferror /= 0) then
write(*,*) 'allocate error'
return
endif
icount = lenght/mpi_size ! divide the array by the number of processes
istart = mpi_rank*icount ! start position
iend = istart + icount ! end position
do i = istart, iend-1
wbuf(i) = i
enddo
!//////////////////////////////////////////////////////////
! HDF5 I/O
!//////////////////////////////////////////////////////////
dims(1) = lenght
cdims(1) = lenght/mpi_size ! define chunks as the number of processes
!//////////////////////////////////////////////////////////
! setup file access property list with parallel I/O access
!//////////////////////////////////////////////////////////
call h5pcreate_f(H5P_FILE_ACCESS_F, fapl_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
call h5pset_fapl_mpio_f(fapl_id, MPI_COMM_WORLD, MPI_INFO_NULL, hdferror)
call check("h5pset_fapl_mpio_f", hdferror, nerrors)
call h5pget_driver_f(fapl_id, driver_id, hdferror)
call check("h5pget_driver_f", hdferror, nerrors)
if( driver_id /= H5FD_MPIO_F) then
write(*,*) "Wrong driver information returned"
nerrors = nerrors + 1
endif
!//////////////////////////////////////////////////////////
! create the file collectively
!//////////////////////////////////////////////////////////
call h5fcreate_f("parf.h5", H5F_ACC_TRUNC_F, file_id, hdferror, access_prp = fapl_id)
call check("h5fcreate_f", hdferror, nerrors)
call h5screate_simple_f(1, dims, fspace_id, hdferror)
call check("h5screate_simple_f", hdferror, nerrors)
call h5screate_simple_f(1, dims, mspace_id, hdferror)
call check("h5screate_simple_f", hdferror, nerrors)
!//////////////////////////////////////////////////////////
! modify dataset creation properties to enable chunking
!//////////////////////////////////////////////////////////
call h5pcreate_f(H5P_DATASET_CREATE_F, dcpl_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
if (do_chunk) then
call h5pset_chunk_f(dcpl_id, 1, cdims, hdferror)
call check("h5pset_chunk_f", hdferror, nerrors)
endif
!//////////////////////////////////////////////////////////
! create the dataset
!//////////////////////////////////////////////////////////
call h5dcreate_f(file_id, "dset", H5T_NATIVE_INTEGER, fspace_id, dset_id, hdferror, dcpl_id)
call check("h5dcreate_f", hdferror, nerrors)
!//////////////////////////////////////////////////////////
! define hyperslab
!//////////////////////////////////////////////////////////
counti(1) = icount
start(1) = istart
!//////////////////////////////////////////////////////////
! select hyperslab in memory
!//////////////////////////////////////////////////////////
call h5sselect_hyperslab_f(mspace_id, H5S_SELECT_SET_F, start, counti, hdferror)
call check("h5sselect_hyperslab_f", hdferror, nerrors)
!//////////////////////////////////////////////////////////
! select hyperslab in the file
!//////////////////////////////////////////////////////////
call h5sselect_hyperslab_f(fspace_id, H5S_SELECT_SET_F, start, counti, hdferror)
call check("h5sselect_hyperslab_f", hdferror, nerrors)
!//////////////////////////////////////////////////////////
! create a property list for collective dataset write
!//////////////////////////////////////////////////////////
call h5pcreate_f(H5P_DATASET_XFER_F, dxpl_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
if (do_collective) then
call h5pset_dxpl_mpio_f(dxpl_id, H5FD_MPIO_COLLECTIVE_F, hdferror)
call check("h5pset_dxpl_mpio_f", hdferror, nerrors)
endif
!//////////////////////////////////////////////////////////
! write dataset
!//////////////////////////////////////////////////////////
call h5dwrite_f(dset_id, H5T_NATIVE_INTEGER, wbuf, dims, hdferror, file_space_id = fspace_id, mem_space_id = mspace_id, xfer_prp = dxpl_id)
call check("h5dwrite_f", hdferror, nerrors)
!//////////////////////////////////////////////////////////
! close HDF5 I/O
!//////////////////////////////////////////////////////////
call h5pclose_f(fapl_id, hdferror)
call check("h5pclose_f", hdferror, nerrors)
call h5pclose_f(dcpl_id, hdferror)
call check("h5pclose_f", hdferror, nerrors)
call h5pclose_f(dxpl_id, hdferror)
call check("h5pclose_f", hdferror, nerrors)
call h5sclose_f(mspace_id, hdferror)
call check("h5sclose_f", hdferror, nerrors)
call h5sclose_f(fspace_id, hdferror)
call check("h5sclose_f", hdferror, nerrors)
call h5dclose_f(dset_id, hdferror)
call check("h5dclose_f", hdferror, nerrors)
call h5fclose_f(file_id, hdferror)
call check("h5fclose_f", hdferror, nerrors)
!//////////////////////////////////////////////////////////
! reopen file with read access
!//////////////////////////////////////////////////////////
call h5pcreate_f(H5P_FILE_ACCESS_F, fapl_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
call h5pset_fapl_mpio_f(fapl_id, MPI_COMM_WORLD, MPI_INFO_NULL, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
call h5fopen_f("parf.h5", H5F_ACC_RDWR_F, file_id, hdferror, access_prp = fapl_id)
call check("h5pcreate_f", hdferror, nerrors)
call h5screate_simple_f(1, dims, fspace_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
call h5screate_simple_f(1, dims, mspace_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
call h5dopen_f(file_id, "dset", dset_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
!//////////////////////////////////////////////////////////
! select hyperslab in memory
!//////////////////////////////////////////////////////////
call h5sselect_hyperslab_f(mspace_id, H5S_SELECT_SET_F, start, counti, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
!//////////////////////////////////////////////////////////
! select hyperslab in the file
!//////////////////////////////////////////////////////////
call h5sselect_hyperslab_f(fspace_id, H5S_SELECT_SET_F, start, counti, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
!//////////////////////////////////////////////////////////
! create a property list for collective dataset read
!//////////////////////////////////////////////////////////
call h5pcreate_f(H5P_DATASET_XFER_F, dxpl_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
if (do_collective) then
call h5pset_dxpl_mpio_f(dxpl_id, H5FD_MPIO_COLLECTIVE_F, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
endif
!//////////////////////////////////////////////////////////
! read dataset
!//////////////////////////////////////////////////////////
call h5dread_f(dset_id, H5T_NATIVE_INTEGER, rbuf, dims, hdferror, file_space_id = fspace_id, mem_space_id = mspace_id, xfer_prp = dxpl_id)
call check("h5pcreate_f", hdferror, nerrors)
!//////////////////////////////////////////////////////////
! close HDF5 I/O
!//////////////////////////////////////////////////////////
call h5pclose_f(fapl_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
call h5pclose_f(dxpl_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
call h5sclose_f(fspace_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
call h5sclose_f(mspace_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
call h5dclose_f(dset_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
call h5fclose_f(file_id, hdferror)
call check("h5pcreate_f", hdferror, nerrors)
!//////////////////////////////////////////////////////////
! compare read and write data. each process compares a subset of the array
!//////////////////////////////////////////////////////////
do i = istart, iend-1
if( wbuf(i) /= rbuf(i)) then
write(*,*) 'buffers differs at ', i, rbuf(i), wbuf(i)
nerrors = nerrors + 1
endif
enddo
deallocate(wbuf)
deallocate(rbuf)
end subroutine hyper
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