cleaned + suggested structure to write data
This commit is contained in:
Martin Diehl
parent
cb28d10d79
commit
fd2d4d856b
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@ -331,7 +331,8 @@ subroutine CPFEM_results(inc)
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call results_openJobFile
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write(incChar,*) inc
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call HDF5_closeGroup(results_addGroup(trim('inc'//trim(adjustl(incChar)))))
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call HDF5_closeGroup(results_addGroup(trim('inc'//trim(adjustl(incChar)))))
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call results_setLink(trim('inc'//trim(adjustl(incChar))),'current')
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call constitutive_results()
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call results_closeJobFile
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@ -13,7 +13,7 @@ module HDF5_utilities
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#endif
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implicit none
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private
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public
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integer(pInt), parameter, private :: &
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HDF5_ERR_TYPE = 4_pInt !< kind of the integer return in the HDF5 library
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@ -71,7 +71,8 @@ module HDF5_utilities
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HDF5_openGroup, &
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HDF5_addGroup, &
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HDF5_read, &
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HDF5_write
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HDF5_write, &
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HDF5_setLink
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contains
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subroutine HDF5_utilities_init
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@ -304,7 +305,28 @@ subroutine HDF5_addIntegerAttribute(entity,attrLabel,attrValue)
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end subroutine HDF5_addIntegerAttribute
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!--------------------------------------------------------------------------------------------------
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!> @brief set link to object in results file
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!--------------------------------------------------------------------------------------------------
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subroutine HDF5_setLink(fileHandle,path,link)
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use hdf5
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implicit none
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character(len=*), intent(in) :: path, link
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integer(HID_T), intent(in) :: fileHandle
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integer(HDF5_ERR_TYPE) :: hdferr
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logical :: linkExists
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call h5lexists_f(fileHandle, link,linkExists, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg = 'HDF5_setLink: h5lexists_soft_f ('//trim(link)//')')
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if (linkExists) then
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call h5ldelete_f(fileHandle,link, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg = 'HDF5_setLink: h5ldelete_soft_f ('//trim(link)//')')
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endif
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call h5lcreate_soft_f(path, fileHandle, link, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg = 'HDF5_setLink: h5lcreate_soft_f ('//trim(path)//' '//trim(link)//')')
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end subroutine HDF5_setLink
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!--------------------------------------------------------------------------------------------------
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!> @brief subroutine for reading dataset of type pReal with 1 dimensions
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@ -1193,10 +1193,25 @@ subroutine constitutive_results()
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PLASTICITY_DISLOUCLA_ID, &
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PLASTICITY_NONLOCAL_ID
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#if defined(PETSc) || defined(DAMASKHDF5)
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use results
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use HDF5_utilities
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use config, only: &
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config_name_phase => phase_name ! anticipate logical name
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use material, only: &
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material_phase_plasticity_type => phase_plasticity
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use plastic_phenopowerlaw, only: &
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plastic_phenopowerlaw_results
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call plastic_phenopowerlaw_results
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implicit none
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integer(pInt) :: p
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call HDF5_closeGroup(results_addGroup('current/phase'))
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do p=1,size(config_name_phase)
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call HDF5_closeGroup(results_addGroup('current/phase/'//trim(config_name_phase(p))))
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if (material_phase_plasticity_type(p) == PLASTICITY_PHENOPOWERLAW_ID) then
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call plastic_phenopowerlaw_results(p,'current/phase/'//trim(config_name_phase(p)))
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endif
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enddo
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#endif
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@ -749,8 +749,29 @@ end function plastic_phenopowerlaw_postResults
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!--------------------------------------------------------------------------------------------------
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!> @brief writes results to HDF5 output file
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!--------------------------------------------------------------------------------------------------
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subroutine plastic_phenopowerlaw_results()
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subroutine plastic_phenopowerlaw_results(instance,group)
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#if defined(PETSc) || defined(DAMASKHDF5)
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use results
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implicit none
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integer(pInt), intent(in) :: instance
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character(len=*) :: group
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integer(pInt) :: o
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associate(prm => param(instance), stt => state(instance))
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outputsLoop: do o = 1_pInt,size(prm%outputID)
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select case(prm%outputID(o))
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case (resistance_slip_ID)
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call results_writeVectorDataset(group,stt%xi_slip,'xi_slip','Pa')
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case (accumulatedshear_slip_ID)
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call results_writeVectorDataset(group,stt%gamma_slip,'gamma_slip','1/s')
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end select
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enddo outputsLoop
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end associate
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!results_writeVectorDataset
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#else
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integer(pInt), intent(in) :: instance
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character(len=*) :: group
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#endif
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end subroutine plastic_phenopowerlaw_results
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267
src/results.f90
267
src/results.f90
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@ -34,8 +34,7 @@ module results
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results_addGroup, &
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results_openGroup, &
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results_writeVectorDataset, &
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HDF5_writeScalarDataset, &
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HDF5_writeTensorDataset, &
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results_setLink, &
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HDF5_removeLink
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contains
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@ -116,24 +115,16 @@ end function results_addGroup
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!--------------------------------------------------------------------------------------------------
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!> @brief set link to object in results file
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!--------------------------------------------------------------------------------------------------
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subroutine HDF5_setLink(path,link)
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use hdf5
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subroutine results_setLink(path,link)
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use hdf5_utilities, only: &
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HDF5_setLink
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implicit none
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character(len=*), intent(in) :: path, link
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integer :: hdferr
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logical :: linkExists
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call h5lexists_f(resultsFile, link,linkExists, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg = 'HDF5_setLink: h5lexists_soft_f ('//trim(link)//')')
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if (linkExists) then
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call h5ldelete_f(resultsFile,link, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg = 'HDF5_setLink: h5ldelete_soft_f ('//trim(link)//')')
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endif
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call h5lcreate_soft_f(path, resultsFile, link, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg = 'HDF5_setLink: h5lcreate_soft_f ('//trim(path)//' '//trim(link)//')')
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call HDF5_setLink(resultsFile,path,link)
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end subroutine HDF5_setLink
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end subroutine results_setLink
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!--------------------------------------------------------------------------------------------------
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!> @brief remove link to an object
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@ -952,253 +943,21 @@ subroutine HDF5_mappingCells(mapping)
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end subroutine HDF5_mappingCells
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!--------------------------------------------------------------------------------------------------
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!> @brief creates a new 3D Tensor dataset in the given group location !!!TODO: really necessary?
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!--------------------------------------------------------------------------------------------------
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subroutine HDF5_addTensor3DDataset(group,Nnodes,tensorSize,label,SIunit)
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use hdf5
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implicit none
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integer(HID_T), intent(in) :: group
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integer(pInt), intent(in) :: Nnodes, tensorSize
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character(len=*), intent(in) :: SIunit, label
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integer :: hdferr
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integer(HID_T) :: space_id, dset_id
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integer(HSIZE_T), dimension(3) :: dataShape
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dataShape = int([tensorSize,tensorSize,Nnodes], HSIZE_T)
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!--------------------------------------------------------------------------------------------------
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! create dataspace
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call h5screate_simple_f(3, dataShape, space_id, hdferr, dataShape)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_addTensor3DDataset: h5screate_simple_f')
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!--------------------------------------------------------------------------------------------------
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! create Dataset
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call h5dcreate_f(group, trim(label),H5T_NATIVE_DOUBLE, space_id, dset_id, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_addTensor3DDataset: h5dcreate_f')
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call HDF5_addStringAttribute(dset_id,'unit',trim(SIunit))
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!--------------------------------------------------------------------------------------------------
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!close types, dataspaces
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call h5dclose_f(dset_id, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_addTensor3DDataset: h5dclose_f')
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call h5sclose_f(space_id, hdferr)
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end subroutine HDF5_addTensor3DDataset
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!--------------------------------------------------------------------------------------------------
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!> @brief creates a new vector dataset in the given group location
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!--------------------------------------------------------------------------------------------------
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subroutine results_writeVectorDataset(group,dataset,label,SIunit)
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use hdf5
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implicit none
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integer(HID_T), intent(in) :: group
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character(len=*), intent(in) :: SIunit,label
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real(pReal), intent(in), dimension(:,:) :: dataset
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integer :: hdferr, vectorSize
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integer(HID_T) :: dset_id, space_id, memspace, plist_id
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integer(HSIZE_T), dimension(2) :: counter
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integer(HSSIZE_T), dimension(2) :: fileOffset
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if(any(shape(dataset) == 0)) return
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vectorSize = size(dataset,1)
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call h5dopen_f(group, label, dset_id, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeVectorDataset: h5dopen_f')
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character(len=*), intent(in) :: SIunit,label,group
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real(pReal), intent(inout), dimension(:,:) :: dataset
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integer(HID_T) :: groupHandle
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groupHandle = results_openGroup(group)
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call HDF5_write(dataset,groupHandle,label)
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call HDF5_closeGroup(groupHandle)
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end subroutine results_writeVectorDataset
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!--------------------------------------------------------------------------------------------------
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!> @brief creates a new tensor dataset in the given group location
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! by default, a 3x3 tensor is assumed !!!TODO: really necessary?
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!--------------------------------------------------------------------------------------------------
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subroutine HDF5_writeTensorDataset(group,dataset,label,SIunit,dataspace_size,mpiOffset)
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use hdf5
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implicit none
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integer(HID_T), intent(in) :: group
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character(len=*), intent(in) :: SIunit,label
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integer(pInt), intent(in) :: dataspace_size, mpiOffset
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real(pReal), intent(in), dimension(:,:,:) :: dataset
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integer :: hdferr, tensorSize
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integer(HID_T) :: dset_id, space_id, memspace, plist_id
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integer(HSIZE_T), dimension(3) :: counter
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integer(HSSIZE_T), dimension(3) :: fileOffset
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if(any(shape(dataset) == 0)) return
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tensorSize = size(dataset,1)
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call HDF5_addTensor3DDataset(group,dataspace_size,tensorSize,label,SIunit)
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call h5dopen_f(group, label, dset_id, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeTensorDataset: h5dopen_f')
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! Define and select hyperslabs
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counter(1) = tensorSize ! how big i am
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counter(2) = tensorSize
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counter(3) = size(dataset,3)
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fileOffset(1) = 0 ! where i start to write my data
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fileOffset(2) = 0
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fileOffset(3) = mpiOffset
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call h5screate_simple_f(3, counter, memspace, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeTensorDataset: h5screate_simple_f')
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call h5dget_space_f(dset_id, space_id, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeTensorDataset: h5dget_space_f')
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call h5sselect_hyperslab_f(space_id, H5S_SELECT_SET_F, fileOffset, counter, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeTensorDataset: h5sselect_hyperslab_f')
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! Create property list for collective dataset write
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#ifdef PETSc
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call h5pcreate_f(H5P_DATASET_XFER_F, plist_id, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeTensorDataset: h5pcreate_f')
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call h5pset_dxpl_mpio_f(plist_id, H5FD_MPIO_COLLECTIVE_F, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeTensorDataset: h5pset_dxpl_mpio_f')
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#endif
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! Write the dataset collectively
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call h5dwrite_f(dset_id, H5T_NATIVE_DOUBLE, dataset, int([tensorSize, dataspace_size],HSIZE_T), hdferr, &
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file_space_id = space_id, mem_space_id = memspace, xfer_prp = plist_id)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeTensorDataset: h5dwrite_f')
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call h5sclose_f(space_id, hdferr)
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call h5sclose_f(memspace, hdferr)
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call h5dclose_f(dset_id, hdferr)
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call h5pclose_f(plist_id, hdferr)
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end subroutine HDF5_writeTensorDataset
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!--------------------------------------------------------------------------------------------------
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!> @brief adds a new vector dataset to the given group location
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!--------------------------------------------------------------------------------------------------
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subroutine HDF5_addVectorDataset(group,nnodes,vectorSize,label,SIunit)
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use hdf5
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implicit none
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integer(HID_T), intent(in) :: group
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integer(pInt), intent(in) :: nnodes,vectorSize
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character(len=*), intent(in) :: SIunit,label
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integer :: hdferr
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integer(HID_T) :: space_id, dset_id
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!--------------------------------------------------------------------------------------------------
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! create dataspace
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call h5screate_simple_f(2, int([vectorSize,Nnodes],HSIZE_T), space_id, hdferr, &
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int([vectorSize,Nnodes],HSIZE_T))
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_addVectorDataset: h5screate_simple_f')
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!--------------------------------------------------------------------------------------------------
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! create Dataset
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call h5dcreate_f(group, trim(label), H5T_NATIVE_DOUBLE, space_id, dset_id, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_addVectorDataset: h5dcreate_f')
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call HDF5_addStringAttribute(dset_id,'unit',trim(SIunit))
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!--------------------------------------------------------------------------------------------------
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!close types, dataspaces
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call h5dclose_f(dset_id, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_addVectorDataset: h5dclose_f')
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call h5sclose_f(space_id, hdferr)
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end subroutine HDF5_addVectorDataset
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!--------------------------------------------------------------------------------------------------
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!> @brief writes to a new scalar dataset in the given group location
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!--------------------------------------------------------------------------------------------------
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subroutine HDF5_writeScalarDataset(group,dataset,label,SIunit,dataspace_size,mpiOffset)
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use hdf5
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implicit none
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integer(HID_T), intent(in) :: group
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character(len=*), intent(in) :: SIunit,label
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integer(pInt), intent(in) :: dataspace_size, mpiOffset
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real(pReal), intent(in), dimension(:) :: dataset
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integer :: hdferr, nNodes
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integer(HID_T) :: dset_id, space_id, memspace, plist_id
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integer(HSIZE_T), dimension(1) :: counter
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integer(HSIZE_T), dimension(1) :: fileOffset
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nNodes = size(dataset)
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if (nNodes < 1) return
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call HDF5_addScalarDataset(group,dataspace_size,label,SIunit)
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call h5dopen_f(group, label, dset_id, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeScalarDataset: h5dopen_f')
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! Define and select hyperslabs
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counter = size(dataset) ! how big i am
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fileOffset = mpiOffset ! where i start to write my data
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call h5screate_simple_f(1, counter, memspace, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeScalarDataset: h5screate_simple_f')
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call h5dget_space_f(dset_id, space_id, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeScalarDataset: h5dget_space_f')
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call h5sselect_hyperslab_f(space_id, H5S_SELECT_SET_F, fileOffset, counter, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeScalarDataset: h5sselect_hyperslab_f')
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! Create property list for collective dataset write
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#ifdef PETSc
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call h5pcreate_f(H5P_DATASET_XFER_F, plist_id, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeScalarDataset: h5pcreate_f')
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call h5pset_dxpl_mpio_f(plist_id, H5FD_MPIO_COLLECTIVE_F, hdferr)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeScalarDataset: h5pset_dxpl_mpio_f')
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#endif
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! Write the dataset collectively
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call h5dwrite_f(dset_id, H5T_NATIVE_DOUBLE, dataset, int([dataspace_size],HSIZE_T), hdferr, &
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file_space_id = space_id, mem_space_id = memspace, xfer_prp = plist_id)
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if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_writeScalarDataset: h5dwrite_f')
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call h5sclose_f(space_id, hdferr)
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call h5sclose_f(memspace, hdferr)
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call h5dclose_f(dset_id, hdferr)
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call h5pclose_f(plist_id, hdferr)
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end subroutine HDF5_writeScalarDataset
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!--------------------------------------------------------------------------------------------------
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!> @brief adds a new scalar dataset to the given group location
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!--------------------------------------------------------------------------------------------------
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subroutine HDF5_addScalarDataset(group,nnodes,label,SIunit)
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use hdf5
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implicit none
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integer(HID_T), intent(in) :: group
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integer(pInt), intent(in) :: nnodes
|
||||
character(len=*), intent(in) :: SIunit,label
|
||||
|
||||
integer :: hdferr
|
||||
integer(HID_T) :: space_id, dset_id
|
||||
|
||||
!--------------------------------------------------------------------------------------------------
|
||||
! create dataspace
|
||||
call h5screate_simple_f(1, int([Nnodes],HSIZE_T), space_id, hdferr, &
|
||||
int([Nnodes],HSIZE_T))
|
||||
if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_addScalarDataset: h5screate_simple_f')
|
||||
|
||||
!--------------------------------------------------------------------------------------------------
|
||||
! create Dataset
|
||||
call h5dcreate_f(group, trim(label),H5T_NATIVE_DOUBLE, space_id, dset_id, hdferr)
|
||||
if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_addScalarDataset: h5dcreate_f')
|
||||
call HDF5_addStringAttribute(dset_id,'unit',trim(SIunit))
|
||||
|
||||
!--------------------------------------------------------------------------------------------------
|
||||
!close types, dataspaces
|
||||
call h5dclose_f(dset_id, hdferr)
|
||||
if (hdferr < 0) call IO_error(1_pInt,ext_msg='HDF5_addScalarDataset: h5dclose_f')
|
||||
call h5sclose_f(space_id, hdferr)
|
||||
|
||||
end subroutine HDF5_addScalarDataset
|
||||
|
||||
end module results
|
||||
|
|
|
|||
Loading…
Reference in New Issue