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|
! * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
! Copyright by The HDF Group. *
! 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 COPYING file, which can be found at the root of the source code *
! distribution tree, or in https://www.hdfgroup.org/licenses. *
! If you do not have access to either file, you may request a copy from *
! help@hdfgroup.org. *
! * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * *
!
! writes/reads dataset by hyperslabs
!
SUBROUTINE hyper(length,do_collective,do_chunk, mpi_size, mpi_rank, nerrors)
USE HDF5
USE MPI
USE TH5_MISC
IMPLICIT NONE
INTEGER, INTENT(in) :: length ! array length
LOGICAL, INTENT(in) :: do_collective ! use collective I/O
LOGICAL, INTENT(in) :: do_chunk ! use chunking
INTEGER, INTENT(in) :: mpi_size ! number of processes in the group of communicator
INTEGER, INTENT(in) :: mpi_rank ! rank of the calling process in the communicator
INTEGER, INTENT(inout) :: nerrors ! number of errors
INTEGER :: hdferror ! HDF hdferror flag
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
CHARACTER(len=80) :: filename ! filename
INTEGER :: i
INTEGER :: actual_io_mode ! The type of I/O performed by this process
LOGICAL :: is_coll
LOGICAL :: is_coll_true = .TRUE.
!
! 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:length-1),stat=hdferror)
IF (hdferror /= 0) THEN
WRITE(*,*) 'allocate error'
RETURN
ENDIF
ALLOCATE(rbuf(0:length-1),stat=hdferror)
IF (hdferror /= 0) THEN
WRITE(*,*) 'allocate error'
RETURN
ENDIF
icount = length/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) = length
cdims(1) = length/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 h5_fixname_f("parf1", filename, fapl_id, hdferror)
IF(do_collective)THEN
! verify settings for file access properties
! Collective metadata writes
CALL h5pget_coll_metadata_write_f(fapl_id, is_coll, hdferror)
CALL check("h5pget_coll_metadata_write_f", hdferror, nerrors)
IF(is_coll .NEQV. .FALSE.)THEN
PRINT*, "Incorrect property setting for coll metadata writes"
nerrors = nerrors + 1
ENDIF
! Collective metadata read API calling requirement
CALL h5pget_all_coll_metadata_ops_f(fapl_id, is_coll, hdferror)
CALL check("h5pget_all_coll_metadata_ops_f", hdferror, nerrors)
IF(is_coll .NEQV. .FALSE.)THEN
PRINT*, "Incorrect property setting for coll metadata API calls requirement"
nerrors = nerrors + 1
ENDIF
! Collective metadata writes
CALL h5pset_coll_metadata_write_f(fapl_id, .TRUE., hdferror)
CALL check("h5pset_coll_metadata_write_f", hdferror, nerrors)
! Collective metadata READ API calling requirement
CALL h5pset_all_coll_metadata_ops_f(fapl_id, is_coll_true, hdferror)
CALL check("h5pset_all_coll_metadata_ops_f", hdferror, nerrors)
CALL h5fcreate_f(filename, H5F_ACC_TRUNC_F, file_id, hdferror, access_prp = fapl_id)
CALL check("h5fcreate_f", hdferror, nerrors)
! close fapl and retrieve it from file
CALL h5pclose_f(fapl_id, hdferror)
CALL check("h5pclose_f", hdferror, nerrors)
CALL h5fget_access_plist_f(file_id, fapl_id, hdferror)
CALL check("h5fget_access_plist_f", hdferror, nerrors)
! verify settings for file access properties
! Collective metadata writes
CALL h5pget_coll_metadata_write_f(fapl_id, is_coll, hdferror)
CALL check("h5pget_coll_metadata_write_f", hdferror, nerrors)
IF(is_coll .NEQV. .TRUE.)THEN
PRINT*, "Incorrect property setting for coll metadata writes"
nerrors = nerrors + 1
ENDIF
! Collective metadata read API calling requirement
CALL h5pget_all_coll_metadata_ops_f(fapl_id, is_coll, hdferror)
CALL check("h5pget_all_coll_metadata_ops_f", hdferror, nerrors)
IF(is_coll .NEQV. .TRUE.)THEN
PRINT*, "Incorrect property setting for coll metadata API calls requirement"
nerrors = nerrors + 1
ENDIF
ELSE
CALL h5fcreate_f(filename, H5F_ACC_TRUNC_F, file_id, hdferror, access_prp = fapl_id)
CALL check("h5fcreate_f", hdferror, nerrors)
ENDIF
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)
! Check h5pget_mpio_actual_io_mode_f function
CALL h5pget_mpio_actual_io_mode_f(dxpl_id, actual_io_mode, hdferror)
CALL check("h5pget_mpio_actual_io_mode_f", hdferror, nerrors)
! MSB -- TODO FIX: skipping for now since multi-dataset
! has no specific path for contiguous collective
!
! IF(do_collective.AND.do_chunk)THEN
! IF(actual_io_mode.NE.H5D_MPIO_CHUNK_COLLECTIVE_F)THEN
! CALL check("h5pget_mpio_actual_io_mode_f", -1, nerrors)
! ENDIF
! ELSEIF(.NOT.do_collective)THEN
! IF(actual_io_mode.NE.H5D_MPIO_NO_COLLECTIVE_F)THEN
! CALL check("h5pget_mpio_actual_io_mode_f", -1, nerrors)
! ENDIF
! ELSEIF( do_collective.AND.(.NOT.do_chunk))THEN
! IF(actual_io_mode.NE.H5D_MPIO_CONTIG_COLLECTIVE_F)THEN
! CALL check("h5pget_mpio_actual_io_mode_f", -1, nerrors)
! ENDIF
! ENDIF
! MSB
!
! 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("h5pset_fapl_mpio_f", hdferror, nerrors)
CALL h5fopen_f(filename, H5F_ACC_RDWR_F, file_id, hdferror, access_prp = fapl_id)
CALL check("h5fopen_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)
CALL h5dopen_f(file_id, "dset", dset_id, hdferror)
CALL check("h5dopen_f", hdferror, nerrors)
!
! 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 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("h5pset_dxpl_mpio_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("h5dread_f", hdferror, nerrors)
!
! close HDF5 I/O
!
CALL h5pclose_f(fapl_id, hdferror)
CALL check("h5pclose_f", hdferror, nerrors)
CALL h5pclose_f(dxpl_id, hdferror)
CALL check("h5pclose_f", hdferror, nerrors)
CALL h5sclose_f(fspace_id, hdferror)
CALL check("h5sclose_f", hdferror, nerrors)
CALL h5sclose_f(mspace_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)
!
! 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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