introduced constituent mapping
this mapping will be used to find for a given location in the mesh the constituent (phase/crystallite) results
This commit is contained in:
Martin Diehl
parent
63e6d60949
commit
049cd96bbf
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@ -274,7 +274,9 @@ contains
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!> material.config
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!> material.config
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!--------------------------------------------------------------------------------------------------
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!--------------------------------------------------------------------------------------------------
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subroutine material_init
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subroutine material_init
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#ifdef DAMASK_HDF5
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use results
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use results
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#endif
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use IO, only: &
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use IO, only: &
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IO_error
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IO_error
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use debug, only: &
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use debug, only: &
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@ -411,8 +413,11 @@ subroutine material_init
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enddo
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enddo
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enddo
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enddo
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#ifdef DAMASK_HDF5
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call results_openJobFile
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call results_openJobFile
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call results_mapping_constituent(material_phaseAt,material_phaseMemberAt,phase_name)
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call results_closeJobFile
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call results_closeJobFile
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#endif
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!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
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!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
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576
src/results.f90
576
src/results.f90
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@ -33,7 +33,8 @@ module results
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results_writeDataset, &
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results_writeDataset, &
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results_setLink, &
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results_setLink, &
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results_addAttribute, &
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results_addAttribute, &
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results_removeLink
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results_removeLink, &
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results_mapping_constituent
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contains
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contains
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subroutine results_init
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subroutine results_init
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@ -308,229 +309,140 @@ end subroutine results_writeTensorDataset_int
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!--------------------------------------------------------------------------------------------------
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!--------------------------------------------------------------------------------------------------
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!> @brief adds the unique mapping from spatial position and constituent ID to results
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!> @brief adds the unique mapping from spatial position and constituent ID to results
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!--------------------------------------------------------------------------------------------------
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!--------------------------------------------------------------------------------------------------
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subroutine HDF5_mapping_phase(phaseAt,memberAt,label)
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subroutine results_mapping_constituent(phaseAt,memberAt,label)
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use numerics, only: &
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use numerics, only: &
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worldrank, &
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worldrank, &
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worldsize
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worldsize
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integer, dimension(:,:), intent(in) :: phaseAt
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integer, dimension(:,:), intent(in) :: phaseAt !< phase section at (constituent,element)
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integer, dimension(:,:,:), intent(in) :: memberAt
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integer, dimension(:,:,:), intent(in) :: memberAt !< phase member at (constituent,IP, element)
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character(len=64), dimension(:), intent(in) :: label
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character(len=64), dimension(:), intent(in) :: label !< label of each phase section
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integer, dimension(:,:), allocatable :: memberAt_global
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integer, dimension(size(memberAt,1),size(memberAt,2),size(memberAt,3)) :: &
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phaseAt_perIP, &
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memberAt_total
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integer, dimension(size(label),0:worldsize-1) :: memberOffset !< offset in member counting per process
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integer, dimension(0:worldsize-1) :: writeSize !< amount of data written per process
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integer(HSIZE_T), dimension(2) :: &
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myShape, & !< shape of the dataset (this process)
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myOffset, &
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totalShape !< shape of the dataset (all processes)
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integer, dimension(size(label),0:worldsize-1) :: members
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integer(HID_T) :: &
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integer, dimension(0:worldsize-1) :: writeSize
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loc_id, & !< identifier of group in file
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dtype_id, & !< identifier of compound data type
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name_id, & !< identifier of name (string) in compound data type
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position_id, & !< identifier of position/index (integer) in compound data type
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dset_id, &
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memspace_id, &
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filespace_id, &
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plist_id, &
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dt_id
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integer(HID_T) :: loc_id, dtype_id, dset_id, space_id, name_id, plist_id, dt5_id
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integer(SIZE_T) :: type_size_string, type_size_int
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integer(HID_T), dimension(size(memberAt,1)) :: position_id
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integer(SIZE_T) :: typesize, type_size_string, type_size_int, type_size_compound
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integer :: ierr, i
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integer :: ierr, i
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character(len=1) :: constituent_number
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memberAt_global = reshape(memberAt,[size(memberAt,1),size(memberAt)/size(memberAt,1)])
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!---------------------------------------------------------------------------------------------------
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!---------------------------------------------------------------------------------------------------
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! property list for transfer properties (needed for MPI)
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! compound type: name of phase section + position/index within results array
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call h5tcopy_f(H5T_NATIVE_CHARACTER, dt_id, ierr)
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call h5tset_size_f(dt_id, int(len(label(1)),SIZE_T), ierr)
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call h5tget_size_f(dt_id, type_size_string, ierr)
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call h5tget_size_f(H5T_NATIVE_INTEGER, type_size_int, ierr)
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call h5tcreate_f(H5T_COMPOUND_F, type_size_string + type_size_int, dtype_id, ierr)
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call h5tinsert_f(dtype_id, "Name", 0_SIZE_T, dt_id,ierr)
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call h5tinsert_f(dtype_id, "Position", type_size_string, H5T_NATIVE_INTEGER, ierr)
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!--------------------------------------------------------------------------------------------------
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! create memory types for each component of the compound type
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call h5tcreate_f(H5T_COMPOUND_F, type_size_string, name_id, ierr)
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call h5tinsert_f(name_id, "Name", 0_SIZE_T, dt_id, ierr)
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call h5tcreate_f(H5T_COMPOUND_F, type_size_int, position_id, ierr)
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call h5tinsert_f(position_id, "Position", 0_SIZE_T, H5T_NATIVE_INTEGER, ierr)
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call h5tclose_f(dt_id, ierr)
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!--------------------------------------------------------------------------------------------------
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! prepare MPI communication (transparent for non-MPI runs)
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call h5pcreate_f(H5P_DATASET_XFER_F, plist_id, ierr)
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call h5pcreate_f(H5P_DATASET_XFER_F, plist_id, ierr)
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memberOffset = 0
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!---------------------------------------------------------------------------------------------------
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! compound type: name of phase section + position(s) within results array
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call h5tcopy_f(H5T_NATIVE_CHARACTER, dt5_id, ierr)
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call h5tset_size_f(dt5_id, int(len(label(1)),SIZE_T), ierr)
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call h5tget_size_f(dt5_id, type_size_string, ierr)
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call h5tget_size_f(H5T_STD_I32LE, type_size_int, ierr)
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type_size_compound = type_size_string + type_size_int*size(memberAt,1) ! total size of derived type
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call h5tcreate_f(H5T_COMPOUND_F, type_size_compound, dtype_id, ierr)
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call h5tinsert_f(dtype_id, "Name", 0_SIZE_T, dt5_id, ierr)
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do i=1, size(memberAt,1)
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write(constituent_number, '(i0)') i
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call h5tinsert_f(dtype_id, "Index "//trim(constituent_number),type_size_string+(i-1)*type_size_int,&
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H5T_STD_I32LE, ierr)
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enddo
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!--------------------------------------------------------------------------------------------------
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! Create memory types for each component of the compound type
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call h5tcreate_f(H5T_COMPOUND_F, int(type_size_string,SIZE_T), name_id, ierr)
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call h5tinsert_f(name_id, "Name",0_SIZE_T, dt5_id, ierr)
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do i=1, size(memberAt,1)
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write(constituent_number, '(i0)') i
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call h5tcreate_f(H5T_COMPOUND_F, int(pInt,SIZE_T), position_id(i), ierr)
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call h5tinsert_f(position_id(i), "Index "//trim(constituent_number), 0_SIZE_T, H5T_STD_I32LE, ierr)
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enddo
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!--------------------------------------------------------------------------------------------------
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! Prepare MPI communication (transparent for non-MPI runs)
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members = 0
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do i=1, size(label)
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do i=1, size(label)
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members(i,worldrank) = count(memberAt == i) ! number of points/instance of this process
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memberOffset(i,worldrank) = count(phaseAt == i)*size(memberAt,2) ! number of points/instance of this process
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enddo
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enddo
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writeSize = 0
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writeSize = 0
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writeSize(worldrank) = sum(members(:,worldrank)) ! total number of points by this process
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writeSize(worldrank) = size(memberAt(1,:,:)) ! total number of points by this process
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!--------------------------------------------------------------------------------------------------
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! MPI settings and communication
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#ifdef PETSc
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#ifdef PETSc
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call h5pset_dxpl_mpio_f(plist_id, H5FD_MPIO_COLLECTIVE_F, ierr)
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call h5pset_dxpl_mpio_f(plist_id, H5FD_MPIO_COLLECTIVE_F, ierr)
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if (ierr < 0) call IO_error(1,ext_msg='IO_mappingConstituent: h5pset_dxpl_mpio_f')
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if (ierr < 0) call IO_error(1,ext_msg='HDF5_mapping_phase: h5pset_dxpl_mpio_f')
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call MPI_allreduce(MPI_IN_PLACE,writeSize,worldsize,MPI_INT,MPI_SUM,PETSC_COMM_WORLD,ierr) ! get total output size over each process
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call MPI_allreduce(MPI_IN_PLACE,writeSize,worldsize,MPI_INT,MPI_SUM,PETSC_COMM_WORLD,ierr) ! get output at each process
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if (ierr /= 0) call IO_error(894_pInt,ext_msg='IO_mappingConstituent: MPI_allreduce')
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if (ierr /= 0) call IO_error(894_pInt,ext_msg='HDF5_mapping_phase: MPI_allreduce/writeSize')
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call MPI_allreduce(MPI_IN_PLACE,members,size(members),MPI_INT,MPI_SUM,PETSC_COMM_WORLD,ierr) ! get total output size over each process
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call MPI_allreduce(MPI_IN_PLACE,memberOffset,size(memberOffset),MPI_INT,MPI_SUM,PETSC_COMM_WORLD,ierr) ! get offset at each process
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if (ierr /= 0) call IO_error(894_pInt,ext_msg='IO_mappingConstituent: MPI_allreduce')
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if (ierr /= 0) call IO_error(894_pInt,ext_msg='HDF5_mapping_phase: MPI_allreduce/memberOffset')
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#endif
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#endif
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myShape = int([size(phaseAt,1),writeSize(worldrank)], HSIZE_T)
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members(:,worldrank) = sum(members(:,0:worldrank-1),2) ! starting id for each instance of this process
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myOffset = int([0,sum(writeSize(0:worldrank-1))], HSIZE_T)
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totalShape = int([size(phaseAt,1),sum(writeSize)], HSIZE_T)
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!--------------------------------------------------------------------------------------------------
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! create dataspace in memory (local shape = hyperslab) and in file (global shape)
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call h5screate_simple_f(2,myShape,memspace_id,ierr,myShape)
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if (ierr < 0) call IO_error(1_pInt,ext_msg='HDF5_mapping_phase: h5screate_simple_f/memspace_id')
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call h5screate_simple_f(2,totalShape,filespace_id,ierr,totalShape)
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if (ierr < 0) call IO_error(1_pInt,ext_msg='HDF5_mapping_phase: h5screate_simple_f/filespace_id')
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call h5sselect_hyperslab_f(filespace_id, H5S_SELECT_SET_F, myOffset, myShape, ierr)
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if (ierr < 0) call IO_error(1_pInt,ext_msg='HDF5_mapping_phase: h5sselect_hyperslab_f')
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!---------------------------------------------------------------------------------------------------
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loc_id = results_openGroup('/mapping/cellResults')
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! expand phaseAt to consider IPs (is not stored per IP)
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do i = 1, size(phaseAt_perIP,2)
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phaseAt_perIP(:,i,:) = phaseAt
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enddo
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!---------------------------------------------------------------------------------------------------
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call HDF5_closeGroup(loc_id)
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! renumber member from my process to all processes
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do i = 1, size(label)
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where(phaseAt_perIP == i) memberAt_total = memberAt + sum(memberOffset(i,0:worldrank-1))
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enddo
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end subroutine
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!--------------------------------------------------------------------------------------------------
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! write the components of the compound type individually
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call h5pset_preserve_f(plist_id, .TRUE., ierr)
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loc_id = results_openGroup('/mapping/cellResults')
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call h5dcreate_f(loc_id, 'constituent', dtype_id, filespace_id, dset_id, ierr)
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if (ierr < 0) call IO_error(1_pInt,ext_msg='HDF5_mapping_phase: h5dcreate_f')
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call h5dwrite_f(dset_id, name_id, reshape(label(pack(phaseAt_perIP,.true.)),myShape), &
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myShape, ierr, file_space_id = filespace_id, mem_space_id = memspace_id, xfer_prp = plist_id)
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if (ierr < 0) call IO_error(1_pInt,ext_msg='HDF5_mapping_phase: h5dwrite_f/name_id')
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call h5dwrite_f(dset_id, position_id, reshape(pack(memberAt_total,.true.),myShape), &
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myShape, ierr, file_space_id = filespace_id, mem_space_id = memspace_id, xfer_prp = plist_id)
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if (ierr < 0) call IO_error(1_pInt,ext_msg='HDF5_mapping_phase: h5dwrite_f/position_id')
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!!--------------------------------------------------------------------------------------------------
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!--------------------------------------------------------------------------------------------------
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!!> @brief adds the unique mapping from spatial position and constituent ID to results
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! close all
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!!--------------------------------------------------------------------------------------------------
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call HDF5_closeGroup(loc_id)
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!subroutine HDF5_mappingPhase(mapping,mapping2,Nconstituents,material_phase,phase_name,dataspace_size,mpiOffset,mpiOffset_phase)
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call h5pclose_f(plist_id, ierr)
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call h5sclose_f(filespace_id, ierr)
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call h5sclose_f(memspace_id, ierr)
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call h5dclose_f(dset_id, ierr)
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call h5tclose_f(dtype_id, ierr)
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call h5tclose_f(name_id, ierr)
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call h5tclose_f(position_id, ierr)
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! implicit none
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end subroutine results_mapping_constituent
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! integer(pInt), intent(in) :: Nconstituents, dataspace_size, mpiOffset
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! integer(pInt), intent(in), dimension(:) :: mapping, mapping2
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! character(len=*), intent(in), dimension(:) :: phase_name
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! integer(pInt), intent(in), dimension(:) :: mpiOffset_phase
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! integer(pInt), intent(in), dimension(:,:,:) :: material_phase
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! character(len=len(phase_name(1))), dimension(:), allocatable :: namesNA
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! character(len=len(phase_name(1))) :: a
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! character(len=*), parameter :: n = "NULL"
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! integer(pInt) :: hdferr, NmatPoints, i, j, k
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! integer(HID_T) :: mapping_id, dtype_id, dset_id, space_id, name_id, position_id, plist_id, memspace
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! integer(HID_T) :: dt5_id ! Memory datatype identifier
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! integer(SIZE_T) :: typesize, type_sizec, type_sizei, type_size
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! integer(HSIZE_T), dimension(2) :: counter
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! integer(HSSIZE_T), dimension(2) :: fileOffset
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! integer(pInt), dimension(:,:), allocatable :: arrOffset
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! a = n
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! allocate(namesNA(0:size(phase_name)),source=[a,phase_name])
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! NmatPoints = size(mapping,1)/Nconstituents
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! mapping_ID = results_openGroup("current/mapGeometry")
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! allocate(arrOffset(Nconstituents,NmatPoints))
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! do i=1_pInt, NmatPoints
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! do k=1_pInt, Nconstituents
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! do j=1_pInt, size(phase_name)
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! if(material_phase(k,1,i) == j) &
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! arrOffset(k,i) = mpiOffset_phase(j)
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! enddo
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! enddo
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! enddo
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!!--------------------------------------------------------------------------------------------------
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!! create dataspace
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! call h5screate_simple_f(2, int([Nconstituents,dataspace_size],HSIZE_T), space_id, hdferr, &
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! int([Nconstituents,dataspace_size],HSIZE_T))
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! if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeMapping')
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!!--------------------------------------------------------------------------------------------------
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!! compound type
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! ! First calculate total size by calculating sizes of each member
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! !
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! CALL h5tcopy_f(H5T_NATIVE_CHARACTER, dt5_id, hdferr)
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! typesize = len(phase_name(1))
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! CALL h5tset_size_f(dt5_id, typesize, hdferr)
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! CALL h5tget_size_f(dt5_id, type_sizec, hdferr)
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! CALL h5tget_size_f(H5T_STD_I32LE,type_sizei, hdferr)
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! type_size = type_sizec + type_sizei
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! call h5tcreate_f(H5T_COMPOUND_F, type_size, dtype_id, hdferr)
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! if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeMapping: h5tcreate_f dtype_id')
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! call h5tinsert_f(dtype_id, "Name", 0_SIZE_T, dt5_id, hdferr)
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! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5tinsert_f 0')
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! call h5tinsert_f(dtype_id, "Position", type_sizec, H5T_STD_I32LE, hdferr)
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! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5tinsert_f 2')
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!!--------------------------------------------------------------------------------------------------
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!! create Dataset
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! call h5dcreate_f(mapping_id, 'constitutive', dtype_id, space_id, dset_id, hdferr)
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! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase')
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!!--------------------------------------------------------------------------------------------------
|
|
||||||
!! Create memory types (one compound datatype for each member)
|
|
||||||
! call h5tcreate_f(H5T_COMPOUND_F, int(type_sizec,SIZE_T), name_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5tcreate_f instance_id')
|
|
||||||
! call h5tinsert_f(name_id, "Name", 0_SIZE_T, dt5_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5tinsert_f instance_id')
|
|
||||||
|
|
||||||
! call h5tcreate_f(H5T_COMPOUND_F, int(pInt,SIZE_T), position_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5tcreate_f position_id')
|
|
||||||
! call h5tinsert_f(position_id, "Position", 0_SIZE_T, H5T_STD_I32LE, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5tinsert_f position_id')
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!! Define and select hyperslabs
|
|
||||||
! counter(1) = Nconstituents ! how big i am
|
|
||||||
! counter(2) = NmatPoints
|
|
||||||
! fileOffset(1) = 0 ! where i start to write my data
|
|
||||||
! fileOffset(2) = mpiOffset
|
|
||||||
|
|
||||||
! call h5screate_simple_f(2, counter, memspace, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5screate_simple_f')
|
|
||||||
! call h5dget_space_f(dset_id, space_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5dget_space_f')
|
|
||||||
! call h5sselect_hyperslab_f(space_id, H5S_SELECT_SET_F, fileOffset, counter, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5sselect_hyperslab_f')
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
! ! Create property list for collective dataset write
|
|
||||||
!#ifdef PETSc
|
|
||||||
! call h5pcreate_f(H5P_DATASET_XFER_F, plist_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5pcreate_f')
|
|
||||||
! call h5pset_dxpl_mpio_f(plist_id, H5FD_MPIO_COLLECTIVE_F, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5pset_dxpl_mpio_f')
|
|
||||||
!#endif
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!! write data by fields in the datatype. Fields order is not important.
|
|
||||||
! call h5dwrite_f(dset_id, name_id, reshape(namesNA(mapping),[Nconstituents,NmatPoints]), &
|
|
||||||
! int([Nconstituents, dataspace_size],HSIZE_T), hdferr, &
|
|
||||||
! file_space_id = space_id, mem_space_id = memspace, xfer_prp = plist_id)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5dwrite_f position_id')
|
|
||||||
|
|
||||||
! call h5dwrite_f(dset_id, position_id, reshape(mapping2-1_pInt,[Nconstituents,NmatPoints])+arrOffset, &
|
|
||||||
! int([Nconstituents, dataspace_size],HSIZE_T), hdferr, &
|
|
||||||
! file_space_id = space_id, mem_space_id = memspace, xfer_prp = plist_id)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5dwrite_f instance_id')
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!! close types, dataspaces
|
|
||||||
! call h5tclose_f(dtype_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5tclose_f dtype_id')
|
|
||||||
! call h5tclose_f(position_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5tclose_f position_id')
|
|
||||||
! call h5tclose_f(name_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5tclose_f name_id ')
|
|
||||||
! call h5tclose_f(dt5_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5tclose_f dt5_id')
|
|
||||||
! call h5dclose_f(dset_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5dclose_f')
|
|
||||||
! call h5sclose_f(space_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5sclose_f space_id')
|
|
||||||
! call h5sclose_f(memspace, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5sclose_f memspace')
|
|
||||||
! call h5pclose_f(plist_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingPhase: h5pclose_f')
|
|
||||||
! call HDF5_closeGroup(mapping_ID)
|
|
||||||
|
|
||||||
!end subroutine HDF5_mappingPhase
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
!!--------------------------------------------------------------------------------------------------
|
||||||
!!> @brief adds the backward mapping from spatial position and constituent ID to results
|
!!> @brief adds the backward mapping from spatial position and constituent ID to results
|
||||||
|
|
@ -882,276 +794,6 @@ end subroutine
|
||||||
|
|
||||||
!end subroutine HDF5_backwardMappingHomog
|
!end subroutine HDF5_backwardMappingHomog
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!!> @brief adds the unique mapping from spatial position and constituent ID to results
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!subroutine HDF5_mappingCrystallite(crystalliteAt,crystmemberAt,crystallite_name,dataspace_size,mpiOffset,mpiOffset_cryst)
|
|
||||||
! use hdf5
|
|
||||||
|
|
||||||
! implicit none
|
|
||||||
! integer(pInt), intent(in), dimension(:,:) :: crystalliteAt
|
|
||||||
! integer(pInt), intent(in), dimension(:,:,:) :: crystmemberAt
|
|
||||||
! character(len=*), intent(in), dimension(:) :: crystallite_name
|
|
||||||
! integer(pInt), intent(in), dimension(:) :: mpiOffset_cryst
|
|
||||||
! integer(pInt), intent(in) :: dataspace_size, mpiOffset
|
|
||||||
|
|
||||||
! integer :: hdferr
|
|
||||||
! integer(pInt) :: NmatPoints, Nconstituents, i, j
|
|
||||||
! integer(HID_T) :: mapping_id, dtype_id, dset_id, space_id, name_id, plist_id, memspace
|
|
||||||
|
|
||||||
! integer(HID_T), dimension(:), allocatable :: position_id
|
|
||||||
|
|
||||||
! integer(HID_T) :: dt5_id ! Memory datatype identifier
|
|
||||||
! integer(SIZE_T) :: typesize, type_sizec, type_sizei, type_size
|
|
||||||
|
|
||||||
! integer(HSIZE_T), dimension(1) :: counter
|
|
||||||
! integer(HSSIZE_T), dimension(1) :: fileOffset
|
|
||||||
! integer(pInt), dimension(:), allocatable :: arrOffset
|
|
||||||
|
|
||||||
! character(len=64) :: m
|
|
||||||
|
|
||||||
! Nconstituents = size(crystmemberAt,1)
|
|
||||||
! NmatPoints = count(crystalliteAt /=0_pInt)
|
|
||||||
! mapping_ID = results_openGroup("current/mapGeometry")
|
|
||||||
|
|
||||||
! allocate(position_id(Nconstituents))
|
|
||||||
|
|
||||||
! allocate(arrOffset(NmatPoints))
|
|
||||||
! do i=1_pInt, NmatPoints
|
|
||||||
! do j=1_pInt, size(crystallite_name)
|
|
||||||
! if(crystalliteAt(1,i) == j) &
|
|
||||||
! arrOffset(i) = Nconstituents*mpiOffset_cryst(j)
|
|
||||||
! enddo
|
|
||||||
! enddo
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!! create dataspace
|
|
||||||
! call h5screate_simple_f(1, int([dataspace_size],HSIZE_T), space_id, hdferr, &
|
|
||||||
! int([dataspace_size],HSIZE_T))
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeMapping')
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!! compound type
|
|
||||||
! ! First calculate total size by calculating sizes of each member
|
|
||||||
! !
|
|
||||||
! CALL h5tcopy_f(H5T_NATIVE_CHARACTER, dt5_id, hdferr)
|
|
||||||
! typesize = len(crystallite_name(1))
|
|
||||||
! CALL h5tset_size_f(dt5_id, typesize, hdferr)
|
|
||||||
! CALL h5tget_size_f(dt5_id, type_sizec, hdferr)
|
|
||||||
! CALL h5tget_size_f(H5T_STD_I32LE, type_sizei, hdferr)
|
|
||||||
! type_size = type_sizec + type_sizei*Nconstituents
|
|
||||||
! call h5tcreate_f(H5T_COMPOUND_F, type_size, dtype_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeMapping: h5tcreate_f dtype_id')
|
|
||||||
|
|
||||||
! call h5tinsert_f(dtype_id, "Name", 0_SIZE_T, dt5_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5tinsert_f 0')
|
|
||||||
! do i=1_pInt, Nconstituents
|
|
||||||
! write(m, '(i0)') i
|
|
||||||
! call h5tinsert_f(dtype_id, "Position "//trim(m), type_sizec+(i-1)*type_sizei, H5T_STD_I32LE, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5tinsert_f 2 '//trim(m))
|
|
||||||
! enddo
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!! create Dataset
|
|
||||||
! call h5dcreate_f(mapping_id, 'crystallite', dtype_id, space_id, dset_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite')
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!! Create memory types (one compound datatype for each member)
|
|
||||||
! call h5tcreate_f(H5T_COMPOUND_F, int(type_sizec,SIZE_T), name_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5tcreate_f instance_id')
|
|
||||||
! call h5tinsert_f(name_id, "Name", 0_SIZE_T, dt5_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5tinsert_f instance_id')
|
|
||||||
|
|
||||||
! do i=1_pInt, Nconstituents
|
|
||||||
! write(m, '(i0)') i
|
|
||||||
! call h5tcreate_f(H5T_COMPOUND_F, int(pInt,SIZE_T), position_id(i), hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5tcreate_f position_id')
|
|
||||||
! call h5tinsert_f(position_id(i), "Position "//trim(m), 0_SIZE_T, H5T_STD_I32LE, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5tinsert_f position_id')
|
|
||||||
! enddo
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!! Define and select hyperslabs
|
|
||||||
! counter = NmatPoints ! how big i am
|
|
||||||
! fileOffset = mpiOffset ! where i start to write my data
|
|
||||||
|
|
||||||
! call h5screate_simple_f(1, counter, memspace, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5screate_simple_f')
|
|
||||||
! call h5dget_space_f(dset_id, space_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5dget_space_f')
|
|
||||||
! call h5sselect_hyperslab_f(space_id, H5S_SELECT_SET_F, fileOffset, counter, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5sselect_hyperslab_f')
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
! ! Create property list for collective dataset write
|
|
||||||
!#ifdef PETSc
|
|
||||||
! call h5pcreate_f(H5P_DATASET_XFER_F, plist_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5pcreate_f')
|
|
||||||
! call h5pset_dxpl_mpio_f(plist_id, H5FD_MPIO_COLLECTIVE_F, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5pset_dxpl_mpio_f')
|
|
||||||
!#endif
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!! write data by fields in the datatype. Fields order is not important.
|
|
||||||
! call h5dwrite_f(dset_id, name_id, crystallite_name(pack(crystalliteAt,crystalliteAt/=0_pInt)), &
|
|
||||||
! int([dataspace_size],HSIZE_T), hdferr, file_space_id = space_id, &
|
|
||||||
! mem_space_id = memspace, xfer_prp = plist_id)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5dwrite_f position_id')
|
|
||||||
|
|
||||||
! do i=1_pInt, Nconstituents
|
|
||||||
! call h5dwrite_f(dset_id, position_id(i), pack(crystmemberAt(i,:,:)-1_pInt,crystmemberAt(i,:,:)/=0_pInt)+arrOffset,&
|
|
||||||
! int([dataspace_size],HSIZE_T), hdferr, file_space_id = space_id, &
|
|
||||||
! mem_space_id = memspace, xfer_prp = plist_id)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5dwrite_f instance_id')
|
|
||||||
! enddo
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!!close types, dataspaces
|
|
||||||
! call h5tclose_f(dtype_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5tclose_f dtype_id')
|
|
||||||
! do i=1_pInt, Nconstituents
|
|
||||||
! call h5tclose_f(position_id(i), hdferr)
|
|
||||||
! enddo
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5tclose_f position_id')
|
|
||||||
! call h5tclose_f(name_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5tclose_f name_id')
|
|
||||||
! call h5tclose_f(dt5_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5tclose_f dt5_id')
|
|
||||||
! call h5dclose_f(dset_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5dclose_f')
|
|
||||||
! call h5sclose_f(space_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5sclose_f space_id')
|
|
||||||
! call h5sclose_f(memspace, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5sclose_f memspace')
|
|
||||||
! call h5pclose_f(plist_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_mappingCrystallite: h5pclose_f')
|
|
||||||
! call HDF5_closeGroup(mapping_ID)
|
|
||||||
|
|
||||||
!end subroutine HDF5_mappingCrystallite
|
|
||||||
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!!> @brief adds the backward mapping from spatial position and constituent ID to results
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
!subroutine HDF5_backwardMappingCrystallite(crystalliteAt,crystmemberAt,crystallite_name,dataspace_size,mpiOffset,mpiOffset_cryst)
|
|
||||||
! use hdf5
|
|
||||||
|
|
||||||
! implicit none
|
|
||||||
! integer(pInt), intent(in), dimension(:,:) :: crystalliteAt
|
|
||||||
! integer(pInt), intent(in), dimension(:,:,:) :: crystmemberAt
|
|
||||||
! character(len=*), intent(in), dimension(:) :: crystallite_name
|
|
||||||
! integer(pInt), intent(in), dimension(:) :: dataspace_size, mpiOffset_cryst
|
|
||||||
! integer(pInt), intent(in) :: mpiOffset
|
|
||||||
|
|
||||||
! integer :: hdferr
|
|
||||||
! integer(pInt) :: NmatPoints, Nconstituents, i, j
|
|
||||||
! integer(HID_T) :: mapping_id, dtype_id, dset_id, space_id, position_id, plist_id, memspace
|
|
||||||
! integer(SIZE_T) :: type_size
|
|
||||||
|
|
||||||
! integer(pInt), dimension(:,:), allocatable :: h_arr, arr
|
|
||||||
|
|
||||||
! integer(HSIZE_T), dimension(1) :: counter
|
|
||||||
! integer(HSSIZE_T), dimension(1) :: fileOffset
|
|
||||||
|
|
||||||
! character(len=64) :: crystallID
|
|
||||||
|
|
||||||
! Nconstituents = size(crystmemberAt,1)
|
|
||||||
! NmatPoints = count(crystalliteAt /=0_pInt)
|
|
||||||
|
|
||||||
! allocate(h_arr(2,NmatPoints))
|
|
||||||
! allocate(arr(2,Nconstituents*NmatPoints))
|
|
||||||
|
|
||||||
! h_arr(1,:) = (/(i, i=0_pInt,NmatPoints-1_pInt)/)
|
|
||||||
! h_arr(2,:) = pack(crystalliteAt,crystalliteAt/=0_pInt)
|
|
||||||
|
|
||||||
! do i=1_pInt, NmatPoints
|
|
||||||
! do j=Nconstituents-1_pInt, 0_pInt, -1_pInt
|
|
||||||
! arr(1,Nconstituents*i-j) = h_arr(1,i)
|
|
||||||
! arr(2,Nconstituents*i-j) = h_arr(2,i)
|
|
||||||
! enddo
|
|
||||||
! enddo
|
|
||||||
|
|
||||||
! do i=1_pInt, size(crystallite_name)
|
|
||||||
! if (crystallite_name(i) == 'none') cycle
|
|
||||||
! write(crystallID, '(i0)') i
|
|
||||||
! mapping_ID = results_openGroup('/current/crystallite/'//trim(crystallID)//'_'//crystallite_name(i))
|
|
||||||
! NmatPoints = count(crystalliteAt == i)
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||||||
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||||||
!!--------------------------------------------------------------------------------------------------
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||||||
! ! create dataspace
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! call h5screate_simple_f(1, int([Nconstituents*dataspace_size(i)],HSIZE_T), space_id, hdferr, &
|
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! int([Nconstituents*dataspace_size(i)],HSIZE_T))
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||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeBackwardMapping')
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||||||
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|
||||||
!!--------------------------------------------------------------------------------------------------
|
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||||||
! ! compound type
|
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||||||
! call h5tget_size_f(H5T_STD_I32LE, type_size, hdferr)
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||||||
! call h5tcreate_f(H5T_COMPOUND_F, type_size, dtype_id, hdferr)
|
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||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeBackwardMapping: h5tcreate_f dtype_id')
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||||||
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|
||||||
! call h5tinsert_f(dtype_id, "Position", 0_SIZE_T, H5T_STD_I32LE, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5tinsert_f 0')
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
! ! create Dataset
|
|
||||||
! call h5dcreate_f(mapping_id, 'mapGeometry', dtype_id, space_id, dset_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite')
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
! ! Create memory types
|
|
||||||
! call h5tcreate_f(H5T_COMPOUND_F, int(pInt,SIZE_T), position_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5tcreate_f position_id')
|
|
||||||
! call h5tinsert_f(position_id, "Position", 0_SIZE_T, H5T_STD_I32LE, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5tinsert_f position_id')
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
! ! Define and select hyperslabs
|
|
||||||
! counter = Nconstituents*NmatPoints ! how big i am
|
|
||||||
! fileOffset = Nconstituents*mpiOffset_cryst(i) ! where i start to write my data
|
|
||||||
|
|
||||||
! call h5screate_simple_f(1, counter, memspace, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5screate_simple_f')
|
|
||||||
! call h5dget_space_f(dset_id, space_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5dget_space_f')
|
|
||||||
! call h5sselect_hyperslab_f(space_id, H5S_SELECT_SET_F, fileOffset, counter, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5sselect_hyperslab_f')
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
! ! Create property list for collective dataset write
|
|
||||||
!#ifdef PETSc
|
|
||||||
! call h5pcreate_f(H5P_DATASET_XFER_F, plist_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5pcreate_f')
|
|
||||||
! call h5pset_dxpl_mpio_f(plist_id, H5FD_MPIO_COLLECTIVE_F, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5pset_dxpl_mpio_f')
|
|
||||||
!#endif
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
! ! write data by fields in the datatype. Fields order is not important.
|
|
||||||
! call h5dwrite_f(dset_id, position_id, pack(arr(1,:),arr(2,:)==i) + mpiOffset,&
|
|
||||||
! int([Nconstituents*dataspace_size(i)],HSIZE_T), hdferr, file_space_id = space_id, &
|
|
||||||
! mem_space_id = memspace, xfer_prp = plist_id)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5dwrite_f instance_id')
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
|
||||||
! !close types, dataspaces
|
|
||||||
! call h5tclose_f(dtype_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5tclose_f dtype_id')
|
|
||||||
! call h5tclose_f(position_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5tclose_f position_id')
|
|
||||||
! call h5dclose_f(dset_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5dclose_f')
|
|
||||||
! call h5sclose_f(space_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5sclose_f space_id')
|
|
||||||
! call h5sclose_f(memspace, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5sclose_f memspace')
|
|
||||||
! call h5pclose_f(plist_id, hdferr)
|
|
||||||
! if (hdferr < 0) call IO_error(1_pInt,ext_msg='IO_backwardMappingCrystallite: h5pclose_f')
|
|
||||||
! call HDF5_closeGroup(mapping_ID)
|
|
||||||
|
|
||||||
! enddo
|
|
||||||
|
|
||||||
!end subroutine HDF5_backwardMappingCrystallite
|
|
||||||
|
|
||||||
!!--------------------------------------------------------------------------------------------------
|
!!--------------------------------------------------------------------------------------------------
|
||||||
!!> @brief adds the unique cell to node mapping
|
!!> @brief adds the unique cell to node mapping
|
||||||
|
|
|
||||||
Loading…
Reference in New Issue