!!****************************************************************************** !! !! This file is part of the AMUN source code, a program to perform !! Newtonian or relativistic magnetohydrodynamical simulations on uniform or !! adaptive mesh. !! !! Copyright (C) 2008-2020 Grzegorz Kowal !! !! This program is free software: you can redistribute it and/or modify !! it under the terms of the GNU General Public License as published by !! the Free Software Foundation, either version 3 of the License, or !! (at your option) any later version. !! !! This program is distributed in the hope that it will be useful, !! but WITHOUT ANY WARRANTY; without even the implied warranty of !! MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the !! GNU General Public License for more details. !! !! You should have received a copy of the GNU General Public License !! along with this program. If not, see . !! !!****************************************************************************** !! !! module: IO !! !! This module handles data storage and job restart from restart files. !! !! !!****************************************************************************** ! module io ! import external subroutines ! use blocks, only : pointer_meta #ifdef HDF5 use hdf5 , only : hid_t #endif /* HDF5 */ use timers, only : set_timer, start_timer, stop_timer ! module variables are not implicit by default ! implicit none ! subroutine interfaces ! interface read_snapshot_parameter module procedure read_snapshot_parameter_string module procedure read_snapshot_parameter_integer module procedure read_snapshot_parameter_double end interface interface write_attribute_xml module procedure write_attribute_xml_string module procedure write_attribute_xml_integer module procedure write_attribute_xml_double end interface #ifdef HDF5 interface read_snapshot_parameter_h5 module procedure read_snapshot_parameter_string_h5 module procedure read_snapshot_parameter_integer_h5 module procedure read_snapshot_parameter_integer_vector_h5 module procedure read_snapshot_parameter_double_h5 end interface #endif /* HDF5 */ interface write_attribute #ifdef HDF5 module procedure write_scalar_attribute_string_h5 module procedure write_scalar_attribute_integer_h5 module procedure write_scalar_attribute_double_h5 module procedure write_vector_attribute_integer_h5 module procedure write_vector_attribute_double_h5 module procedure write_array_attribute_long_h5 module procedure write_array_attribute_complex_h5 #endif /* HDF5 */ end interface interface read_attribute #ifdef HDF5 module procedure read_scalar_attribute_integer_h5 module procedure read_scalar_attribute_double_h5 module procedure read_vector_attribute_integer_h5 module procedure read_vector_attribute_double_h5 module procedure read_array_attribute_long_h5 module procedure read_array_attribute_complex_h5 #endif /* HDF5 */ end interface interface write_array #ifdef HDF5 module procedure write_1d_array_integer_h5 module procedure write_2d_array_integer_h5 module procedure write_3d_array_integer_h5 module procedure write_4d_array_integer_h5 module procedure write_5d_array_integer_h5 module procedure write_1d_array_double_h5 module procedure write_2d_array_double_h5 module procedure write_3d_array_double_h5 module procedure write_4d_array_double_h5 module procedure write_5d_array_double_h5 #endif /* HDF5 */ end interface interface read_array #ifdef HDF5 module procedure read_1d_array_integer_h5 module procedure read_2d_array_integer_h5 module procedure read_3d_array_integer_h5 module procedure read_4d_array_integer_h5 module procedure read_5d_array_integer_h5 module procedure read_1d_array_double_h5 module procedure read_2d_array_double_h5 module procedure read_3d_array_double_h5 module procedure read_4d_array_double_h5 module procedure read_5d_array_double_h5 #endif /* HDF5 */ end interface ! timer indices ! integer , save :: iio #ifdef PROFILE integer , save :: ioi, iow, ios #endif /* PROFILE */ ! MODULE PARAMETERS: ! ================= ! ! snapshot formats ! integer, parameter :: snapshot_xml = 0 #ifdef HDF5 integer, parameter :: snapshot_hdf5 = 1 #endif /* HDF5 */ ! snapshot_format - the format of snapshots; ! restart_format - the format of restart snapshots; ! integer, save :: snapshot_format = snapshot_xml integer, save :: restart_format = snapshot_xml ! respath - the directory from which the restart snapshots should be read; ! ftype - the type of snapshots to write: ! 'p' -> all primitive variables (default); ! 'c' -> all conserved variables; ! nrest - for job restarting, this is the number of restart snapshot; ! irest - the local counter for the restart snapshots; ! isnap - the local counter for the regular snapshots; ! ishift - the shift of the snapshot counter for restarting job with ! different snapshot interval; ! hrest - the execution time interval for restart snapshot storing ! (in hours); the minimum allowed value is 3 minutes; ! hsnap - the problem time interval for regular snapshot storing; ! tsnap - the next snapshot time; ! character(len=255), save :: respath = "./" character , save :: ftype = "p" character(len=64) , save :: ftype_name = "primitive" integer , save :: nrest = -1 integer(kind=4) , save :: irest = 1 integer(kind=4) , save :: isnap = 0 integer(kind=4) , save :: ishift = 0 real(kind=8) , save :: hrest = 6.0d+00 real(kind=8) , save :: hsnap = 1.0d+00 real(kind=8) , save :: tsnap = 0.0d+00 ! flag indicating to store snapshots at exact intervals ! logical , save :: precise_snapshots = .false. ! flags to determine the way of data writing ! logical , save :: with_ghosts = .true. ! a flag to determine if XDMF files should be generated ! logical , save :: with_xdmf = .false. #ifdef HDF5 ! compression type ! integer , parameter :: H5Z_DEFLATE = 1, H5Z_ZSTANDARD = 32015 ! compression type (0 for no compressions, 1 for deflate, 32015 for zstandard) ! integer , save :: compression = 0 ! compression level ! integer , save :: clevel = 0 ! HDF5 property object identifier ! integer(hid_t) , save :: pid #endif /* HDF5 */ ! local variables to store the number of processors ! integer(kind=4) , save :: nfiles = 1 ! array of pointer used during job restart ! type(pointer_meta), dimension(:), allocatable, save :: block_array ! by default everything is private ! private ! declare public subroutines ! public :: initialize_io, finalize_io, print_io public :: restart_snapshot_number, restart_from_snapshot public :: read_snapshot_parameter public :: read_restart_snapshot, write_restart_snapshot, write_snapshot public :: next_tout, precise_snapshots !- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ! contains ! !=============================================================================== !! !!*** PUBLIC SUBROUTINES ***************************************************** !! !=============================================================================== ! !=============================================================================== ! ! subroutine INITIALIZE_IO: ! ------------------------ ! ! Subroutine initializes module IO by setting its parameters. ! ! Arguments: ! ! verbose - flag determining if the subroutine should be verbose; ! status - return flag of the procedure execution status; ! !=============================================================================== ! subroutine initialize_io(verbose, status) ! import external procedures ! #ifdef HDF5 use hdf5 , only : hsize_t use hdf5 , only : H5P_DATASET_CREATE_F, H5Z_FLAG_OPTIONAL_F use hdf5 , only : h5open_f, h5zfilter_avail_f, h5pcreate_f use hdf5 , only : h5pset_deflate_f, h5pset_filter_f #endif /* HDF5 */ use iso_fortran_env, only : error_unit use parameters , only : get_parameter ! local variables are not implicit by default ! implicit none ! subroutine arguments ! logical, intent(in) :: verbose integer, intent(out) :: status ! local variables ! character(len=255) :: sformat = "xml" character(len=255) :: precise = "off" character(len=255) :: ghosts = "on" character(len=255) :: xdmf = "off" #ifdef HDF5 logical :: cmpstatus = .false. integer(hsize_t) :: cd_nelmts = 1 integer, dimension(1) :: cd_values = 3 #endif /* HDF5 */ ! local parameters ! character(len=*), parameter :: loc = 'IO::initialize_io()' ! !------------------------------------------------------------------------------- ! ! set timer descriptions ! call set_timer('SNAPSHOTS I/O' , iio) #ifdef PROFILE call set_timer('io:: initialization' , ioi) call set_timer('io:: snapshot writing', iow) call set_timer('io:: snapshot reading', ios) ! start accounting time for module initialization/finalization ! call start_timer(ioi) #endif /* PROFILE */ ! reset the status flag ! status = 0 ! get module parameters ! call get_parameter("restart_path" , respath) call get_parameter("restart_number" , nrest ) call get_parameter("restart_interval" , hrest ) call get_parameter("snapshot_type" , ftype ) call get_parameter("snapshot_interval", hsnap ) call get_parameter("precise_snapshots", precise) call get_parameter("include_ghosts" , ghosts ) call get_parameter("generate_xdmf" , xdmf ) ! add slash at the end of respath if not present ! if (index(respath, '/', back = .true.) /= len(trim(respath))) then write(respath,"(a)") trim(adjustl(respath)) // '/' end if ! check the snapshot format ! call get_parameter("snapshot_format" , sformat) select case(sformat) #ifdef HDF5 case('h5', 'hdf5', 'H5', 'HDF5') snapshot_format = snapshot_hdf5 #endif /* HDF5 */ case default snapshot_format = snapshot_xml end select ! check the restart snapshot format ! call get_parameter("restart_format" , sformat) select case(sformat) #ifdef HDF5 case('h5', 'hdf5', 'H5', 'HDF5') restart_format = snapshot_hdf5 #endif /* HDF5 */ case default restart_format = snapshot_xml end select ! check the snapshot type ! select case(ftype) case('c') ftype_name = 'conservative variables' case('p') ftype_name = 'primitive variables' case default if (verbose) then write(*,*) write(*,"(1x,a)") "ERROR!" write(*,"(1x,a)") "The selected snapshot type is not " // & "implemented: '" // trim(ftype) // "'." write(*,"(1x,a)") "Available snapshot types: 'p' for primitive " // & "variables, 'c' for conservative variables." end if status = 1 end select if (status == 0) then ! check ghost cell storing flag ! select case(trim(precise)) case ("off", "OFF", "n", "N", "false", "FALSE", "no", "NO") precise_snapshots = .false. case default precise_snapshots = .true. end select ! check ghost cell storing flag ! select case(trim(ghosts)) case ("off", "OFF", "n", "N", "false", "FALSE", "no", "NO") with_ghosts = .false. case default with_ghosts = .true. end select ! check flag for generating XDMF files ! select case(trim(xdmf)) case ("off", "OFF", "n", "N", "false", "FALSE", "no", "NO") with_xdmf = .false. case default with_xdmf = .true. end select #ifdef HDF5 ! initialize the FORTRAN interface ! call h5open_f(status) ! in the case of error, print a message and quit the subroutine ! if (status < 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot initialize the HDF5 Fortran interface!" else ! prepare the property object for compression ! call h5pcreate_f(H5P_DATASET_CREATE_F, pid, status) ! check if the object has been created properly, if not quit ! if (status < 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create the compression property for datasets!" else ! detect available compressions ! cmpstatus = .false. if (.not. cmpstatus) then call h5zfilter_avail_f(H5Z_ZSTANDARD, cmpstatus, status) if (cmpstatus) compression = H5Z_ZSTANDARD end if if (.not. cmpstatus) then call h5zfilter_avail_f(H5Z_DEFLATE, cmpstatus, status) if (cmpstatus) compression = H5Z_DEFLATE end if ! get compression_level ! call get_parameter("compression_level", clevel) ! initialize proper compressor ! if (status == 0) then select case(compression) case(H5Z_ZSTANDARD) if (clevel < 1 .or. clevel > 20) clevel = 3 cd_values(:) = clevel call h5pset_filter_f(pid, H5Z_ZSTANDARD, H5Z_FLAG_OPTIONAL_F, & cd_nelmts, cd_values, status) case(H5Z_DEFLATE) if (clevel < 1 .or. clevel > 9) clevel = 6 call h5pset_deflate_f(pid, clevel, status) case default end select end if end if end if #endif /* HDF5 */ end if ! status #ifdef PROFILE ! stop accounting time for module initialization/finalization ! call stop_timer(ioi) #endif /* PROFILE */ !------------------------------------------------------------------------------- ! end subroutine initialize_io ! !=============================================================================== ! ! subroutine FINALIZE_IO: ! ---------------------- ! ! Subroutine releases memory used by the module. ! ! Arguments: ! ! status - an integer flag for error return value; ! !=============================================================================== ! subroutine finalize_io(status) ! import external procedures ! #ifdef HDF5 use hdf5 , only : h5pclose_f, h5close_f use iso_fortran_env, only : error_unit #endif /* HDF5 */ ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer, intent(out) :: status ! local parameters ! character(len=*), parameter :: loc = 'IO::finalize_io()' ! !------------------------------------------------------------------------------- ! #ifdef PROFILE ! start accounting time for module initialization/finalization ! call start_timer(ioi) #endif /* PROFILE */ ! reset the status flag ! status = 0 #ifdef HDF5 ! close the property object for compression ! call h5pclose_f(pid, status) ! check if the object has been closed properly ! if (status < 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the compression property for datasets!" end if ! close the FORTRAN interface ! call h5close_f(status) ! check if the interface has been closed successfuly ! if (status > 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the HDF5 Fortran interface!" return end if #endif /* HDF5 */ #ifdef PROFILE ! stop accounting time for module initialization/finalization ! call stop_timer(ioi) #endif /* PROFILE */ !------------------------------------------------------------------------------- ! end subroutine finalize_io ! !=============================================================================== ! ! subroutine PRINT_IO: ! ------------------- ! ! Subroutine prints IO parameters. ! ! Arguments: ! ! verbose - flag determining if the subroutine should be verbose; ! !=============================================================================== ! subroutine print_io(verbose) ! import external procedures and variables ! use helpers, only : print_section, print_parameter ! local variables are not implicit by default ! implicit none ! subroutine arguments ! logical, intent(in) :: verbose ! local variables ! character(len=80) :: sfmt, msg integer :: dd, hh, mm, ss ! !------------------------------------------------------------------------------- ! if (verbose) then call print_section(verbose, "Snapshots") select case(snapshot_format) #ifdef HDF5 case(snapshot_hdf5) call print_parameter(verbose, "snapshot format", "HDF5") #endif /* HDF5 */ case default call print_parameter(verbose, "snapshot format", "XML+binary") end select select case(restart_format) #ifdef HDF5 case(snapshot_hdf5) call print_parameter(verbose, "restart snapshot format", "HDF5") #endif /* HDF5 */ case default call print_parameter(verbose, "restart snapshot format", "XML+binary") end select if (precise_snapshots) then call print_parameter(verbose, "precise snapshot intervals", "on" ) else call print_parameter(verbose, "precise snapshot intervals", "off") end if call print_parameter(verbose, "snapshot type", ftype_name) if (with_ghosts) then call print_parameter(verbose, "with ghosts cells", "on" ) else call print_parameter(verbose, "with ghosts cells", "off") end if #ifdef HDF5 select case(compression) case(H5Z_ZSTANDARD) call print_parameter(verbose, "HDF5 compression" , "zstd" ) call print_parameter(verbose, "compression level", clevel ) case(H5Z_DEFLATE) call print_parameter(verbose, "HDF5 compression" , "deflate") call print_parameter(verbose, "compression level", clevel ) case default call print_parameter(verbose, "HDF5 compression" , "none" ) end select #endif /* HDF5 */ if (with_xdmf) then call print_parameter(verbose, "generate XDMF files", "on" ) else call print_parameter(verbose, "generate XDMF files", "off") end if call print_parameter(verbose, "snapshot interval" , hsnap) if (hrest > 0.0d+00) then dd = int(hrest / 2.4d+01) hh = int(mod(hrest, 2.4d+01)) mm = int(mod(6.0d+01 * hrest, 6.0d+01)) ss = int(mod(3.6d+03 * hrest, 6.0d+01)) sfmt = "(i2.2,'d',i2.2,'h',i2.2,'m',i2.2,'s')" write(msg,sfmt) dd, hh, mm, ss call print_parameter(verbose, "restart interval" , msg ) end if if (restart_from_snapshot()) then call print_parameter(verbose, "restart from path" , respath) call print_parameter(verbose, "restart from snapshot", nrest ) end if end if !------------------------------------------------------------------------------- ! end subroutine print_io ! !=============================================================================== ! ! function RESTART_SNAPSHOT_NUMBER: ! -------------------------------- ! ! Subroutine returns the number of restart snapshot. ! ! !=============================================================================== ! integer function restart_snapshot_number() ! local variables are not implicit by default ! implicit none ! !------------------------------------------------------------------------------- ! restart_snapshot_number = nrest !------------------------------------------------------------------------------- ! end function restart_snapshot_number ! !=============================================================================== ! ! function RESTART_FROM_SNAPSHOT: ! ------------------------------ ! ! Subroutine returns true if the current job is the restarted one. ! ! !=============================================================================== ! logical function restart_from_snapshot() ! local variables are not implicit by default ! implicit none ! !------------------------------------------------------------------------------- ! restart_from_snapshot = (nrest > 0) !------------------------------------------------------------------------------- ! end function restart_from_snapshot ! !=============================================================================== ! ! subroutine READ_RESTART_SNAPSHOT: ! -------------------------------- ! ! Subroutine reads restart snapshot files in order to resume the job. ! This is a wrapper calling specific format subroutine. ! ! Arguments: ! ! status - the status flag to inform if subroutine succeeded or failed; ! !=============================================================================== ! subroutine read_restart_snapshot(status) use evolution, only : time implicit none integer, intent(out) :: status ! !------------------------------------------------------------------------------- ! #ifdef PROFILE call start_timer(ios) #endif /* PROFILE */ call start_timer(iio) status = 0 select case(restart_format) #ifdef HDF5 case(snapshot_hdf5) call read_restart_snapshot_h5(status) #endif /* HDF5 */ case default call read_restart_snapshot_xml(status) end select ! calculate the shift of the snapshot counter, and the next snapshot time ! ishift = int(time / hsnap) - isnap + 1 tsnap = (ishift + isnap) * hsnap call stop_timer(iio) #ifdef PROFILE call stop_timer(ios) #endif /* PROFILE */ !------------------------------------------------------------------------------- ! end subroutine read_restart_snapshot ! !=============================================================================== ! ! subroutine WRITE_RESTART_SNAPSHOT: ! --------------------------------- ! ! Subroutine stores current restart snapshot files. This is a wrapper ! calling specific format subroutine. ! ! Arguments: ! ! thrs - the current execution time in hours; ! nrun - the run number; ! status - the status flag; ! !=============================================================================== ! subroutine write_restart_snapshot(thrs, nrun, status) ! local variables are not implicit by default ! implicit none ! input and output arguments ! real(kind=8), intent(in) :: thrs integer , intent(in) :: nrun integer , intent(out) :: status ! !------------------------------------------------------------------------------- ! status = 0 ! check if conditions for storing the restart snapshot have been met ! if (hrest < 5.0d-02 .or. thrs < irest * hrest) return #ifdef PROFILE call start_timer(iow) #endif /* PROFILE */ call start_timer(iio) select case(snapshot_format) #ifdef HDF5 case(snapshot_hdf5) call write_restart_snapshot_h5(nrun, status) #endif /* HDF5 */ case default call write_restart_snapshot_xml(nrun, status) end select ! increase the restart snapshot counter ! irest = irest + 1 call stop_timer(iio) #ifdef PROFILE call stop_timer(iow) #endif /* PROFILE */ !------------------------------------------------------------------------------- ! end subroutine write_restart_snapshot ! !=============================================================================== ! ! subroutine WRITE_SNAPSHOT: ! ------------------------- ! ! Subroutine stores block data in snapshots. Block variables are grouped ! together and stored in big 4D arrays separately. This is a wrapper for ! specific format storing. ! ! !=============================================================================== ! subroutine write_snapshot() use evolution , only : time use mpitools , only : master implicit none ! local variables ! integer :: status ! !------------------------------------------------------------------------------- ! if (hsnap <= 0.0e+00 .or. time < tsnap) return #ifdef PROFILE call start_timer(iow) #endif /* PROFILE */ call start_timer(iio) select case(snapshot_format) #ifdef HDF5 case(snapshot_hdf5) call write_snapshot_h5() if (with_xdmf) then call write_snapshot_xdmf() if (master) call write_snapshot_xdmf_master() end if #endif /* HDF5 */ case default call write_snapshot_xml(status) end select ! increase the snapshot counter and calculate the next snapshot time ! isnap = isnap + 1 tsnap = (ishift + isnap) * hsnap call stop_timer(iio) #ifdef PROFILE call stop_timer(iow) #endif /* PROFILE */ !------------------------------------------------------------------------------- ! end subroutine write_snapshot ! !=============================================================================== ! ! function NEXT_TOUT: ! ------------------ ! ! Function returns the next data snapshot time. ! ! !=============================================================================== ! real(kind=8) function next_tout() ! local variables are not implicit by default ! implicit none ! !------------------------------------------------------------------------------- ! if (hsnap > 0.0d+00) then next_tout = tsnap else next_tout = huge(hsnap) end if !------------------------------------------------------------------------------- ! end function next_tout ! !=============================================================================== !! !!*** PRIVATE SUBROUTINES **************************************************** !! !=============================================================================== ! !=============================================================================== ! ! subroutine READ_SNAPSHOT_PARAMETER_STRING: ! ----------------------------------------- ! ! Subroutine reads a string parameter from the restart snapshot. ! ! Arguments: ! ! pname - the parameter name; ! pvalue - the parameter value; ! status - the status flag (the success is 0, failure otherwise); ! !=============================================================================== ! subroutine read_snapshot_parameter_string(pname, pvalue, status) use iso_fortran_env, only : error_unit implicit none ! subroutine arguments ! character(len=*), intent(in) :: pname character(len=*), intent(inout) :: pvalue integer , intent(inout) :: status ! local variables ! logical :: test character(len=255) :: dname, fname, line integer(kind=4) :: lun = 103 integer :: l, u ! local parameters ! character(len=*), parameter :: loc = 'IO::read_snapshot_parameter_string' ! !------------------------------------------------------------------------------- ! status = 0 select case(restart_format) #ifdef HDF5 case(snapshot_hdf5) call read_snapshot_parameter_h5(pname, pvalue, status) #endif /* HDF5 */ case default ! check if the snapshot directory and metafile exist ! write(dname, "(a,'restart-',i5.5)") trim(respath), nrest inquire(file = dname, exist = test) if (.not. test) then write(error_unit,"('[',a,']: ',a)") trim(loc), & trim(dname) // " does not exists!" status = 121 return end if write(fname,"(a,'/metadata.xml')") trim(dname) inquire(file = fname, exist = test) if (.not. test) then write(error_unit,"('[',a,']: ',a)") trim(loc), & trim(fname) // " does not exists!" status = 121 return end if ! read requested parameter from the file ! open(newunit = lun, file = fname, status = 'old') 10 read(lun, fmt = "(a)", end = 20) line l = index(line, trim(adjustl(pname))) if (l > 0) then l = index(line, '>') + 1 u = index(line, '<', back = .true.) - 1 pvalue = trim(adjustl(line(l:u))) end if go to 10 20 close(lun) end select !------------------------------------------------------------------------------- ! end subroutine read_snapshot_parameter_string ! !=============================================================================== ! ! subroutine READ_SNAPSHOT_PARAMETER_INTEGER: ! ------------------------------------------ ! ! Subroutine reads an integer parameter from the restart snapshot. ! ! Arguments: ! ! pname - the parameter name; ! pvalue - the parameter value; ! status - the status flag (the success is 0, failure otherwise); ! !=============================================================================== ! subroutine read_snapshot_parameter_integer(pname, pvalue, status) use iso_fortran_env, only : error_unit implicit none ! subroutine arguments ! character(len=*), intent(in) :: pname integer , intent(inout) :: pvalue integer , intent(inout) :: status ! local variables ! logical :: test character(len=255) :: dname, fname, line, svalue integer(kind=4) :: lun = 103 integer :: l, u ! local parameters ! character(len=*), parameter :: loc = 'IO::read_snapshot_parameter_integer' ! !------------------------------------------------------------------------------- ! status = 0 select case(restart_format) #ifdef HDF5 case(snapshot_hdf5) call read_snapshot_parameter_h5(pname, pvalue, status) #endif /* HDF5 */ case default ! check if the snapshot directory and metafile exist ! write(dname, "(a,'restart-',i5.5)") trim(respath), nrest inquire(file = dname, exist = test) if (.not. test) then write(error_unit,"('[',a,']: ',a)") trim(loc), & trim(dname) // " does not exists!" status = 121 return end if write(fname,"(a,'/metadata.xml')") trim(dname) inquire(file = fname, exist = test) if (.not. test) then write(error_unit,"('[',a,']: ',a)") trim(loc), & trim(fname) // " does not exists!" status = 121 return end if ! read parameter from the file ! open(newunit = lun, file = fname, status = 'old') 10 read(lun, fmt = "(a)", end = 20) line l = index(line, trim(adjustl(pname))) if (l > 0) then l = index(line, '>') + 1 u = index(line, '<', back = .true.) - 1 svalue = trim(adjustl(line(l:u))) read(svalue, fmt = *) pvalue end if go to 10 20 close(lun) end select !------------------------------------------------------------------------------- ! end subroutine read_snapshot_parameter_integer ! !=============================================================================== ! ! subroutine READ_SNAPSHOT_PARAMETER_DOUBLE: ! ----------------------------------------- ! ! Subroutine reads a floating point parameter from the restart snapshot. ! ! Arguments: ! ! pname - the parameter name; ! pvalue - the parameter value; ! status - the status flag (the success is 0, failure otherwise); ! !=============================================================================== ! subroutine read_snapshot_parameter_double(pname, pvalue, status) use iso_fortran_env, only : error_unit implicit none ! subroutine arguments ! character(len=*), intent(in) :: pname real(kind=8) , intent(inout) :: pvalue integer , intent(inout) :: status ! local variables ! logical :: test character(len=255) :: dname, fname, line, svalue integer(kind=4) :: lun = 103 integer :: l, u ! local parameters ! character(len=*), parameter :: loc = 'IO::read_snapshot_parameter_double' ! !------------------------------------------------------------------------------- ! status = 0 select case(restart_format) #ifdef HDF5 case(snapshot_hdf5) call read_snapshot_parameter_h5(pname, pvalue, status) #endif /* HDF5 */ case default ! check if the snapshot directory and metafile exist ! write(dname, "(a,'restart-',i5.5)") trim(respath), nrest inquire(file = dname, exist = test) if (.not. test) then write(error_unit,"('[',a,']: ',a)") trim(loc), & trim(dname) // " does not exists!" status = 121 return end if write(fname,"(a,'/metadata.xml')") trim(dname) inquire(file = fname, exist = test) if (.not. test) then write(error_unit,"('[',a,']: ',a)") trim(loc), & trim(fname) // " does not exists!" status = 121 return end if ! read parameter from the file ! open(newunit = lun, file = fname, status = 'old') 10 read(lun, fmt = "(a)", end = 20) line l = index(line, trim(adjustl(pname))) if (l > 0) then l = index(line, '>') + 1 u = index(line, '<', back = .true.) - 1 svalue = trim(adjustl(line(l:u))) read(svalue, fmt = *) pvalue end if go to 10 20 close(lun) end select !------------------------------------------------------------------------------- ! end subroutine read_snapshot_parameter_double ! !=============================================================================== ! ! subroutine READ_RESTART_SNAPSHOT_XML: ! ------------------------------------ ! ! Subroutine reads restart snapshot, i.e. parameters, meta and data blocks ! stored in the XML+binary format restart files and reconstructs ! the data structure in order to resume a terminated job. ! ! Arguments: ! ! status - the return flag to inform if subroutine succeeded or failed; ! !=============================================================================== ! subroutine read_restart_snapshot_xml(status) use blocks , only : block_meta, block_data, pointer_meta, list_meta use blocks , only : ndims, ns => nsides, nc => nchildren use blocks , only : append_metablock, append_datablock, link_blocks use blocks , only : get_mblocks use blocks , only : set_last_id, get_last_id use blocks , only : metablock_set_id, metablock_set_process use blocks , only : metablock_set_refinement use blocks , only : metablock_set_configuration use blocks , only : metablock_set_level, metablock_set_position use blocks , only : metablock_set_coordinates, metablock_set_bounds use blocks , only : metablock_set_leaf use blocks , only : change_blocks_process use coordinates , only : nn => bcells, ncells, nghosts, minlev, maxlev use coordinates , only : xmin, xmax, ymin, ymax, zmin, zmax use evolution , only : step, time, dt, dtn use forcing , only : nmodes, fcoefs, einj use hash , only : xxh64 use iso_fortran_env, only : error_unit #ifdef MPI use mesh , only : redistribute_blocks #endif /* MPI */ use mpitools , only : nprocs, nproc use random , only : gentype, nseeds, set_seeds implicit none integer, intent(out) :: status ! local variables ! logical :: test character(len=255) :: dname, fname, line, sname, svalue integer :: id, il, iu, nl, nx, nm, nd, nv, i, j, k, l, n, p, nu integer(kind=4) :: lndims, lnprocs, lnproc, lmblocks, lnleafs, llast_id integer(kind=4) :: ldblocks, lncells, lnseeds, lnmodes real(kind=8) :: deinj ! local pointers ! type(block_meta), pointer :: pmeta type(block_data), pointer :: pdata ! local variables ! integer(kind=4) :: lun = 104 integer(kind=8) :: hash ! hash strings ! character(len=22) :: hfield, hchild, hface, hedge, hcorner, hbound character(len=22) :: hids, harray, hseed, hforce ! local arrays ! integer(kind=4), dimension(:) , allocatable :: ids integer(kind=4), dimension(:,:) , allocatable :: fields integer(kind=4), dimension(:,:) , allocatable :: children #if NDIMS == 2 integer(kind=4), dimension(:,:,:,:) , allocatable :: edges integer(kind=4), dimension(:,:,:) , allocatable :: corners #endif /* NDIMS == 2 */ #if NDIMS == 3 integer(kind=4), dimension(:,:,:,:,:) , allocatable :: faces integer(kind=4), dimension(:,:,:,:,:) , allocatable :: edges integer(kind=4), dimension(:,:,:,:) , allocatable :: corners #endif /* NDIMS == 3 */ integer(kind=8), dimension(:,:) , allocatable :: seeds real(kind=8) , dimension(:,:,:) , allocatable :: bounds real(kind=8) , dimension(:,:,:,:,:,:), allocatable :: arrays ! array of pointer used during job restart ! type(pointer_meta), dimension(:), allocatable :: barray ! local parameters ! character(len=*), parameter :: loc = 'IO::read_restart_snapshot_xml()' character(len=*), parameter :: fmt = "(a,a,'_',i6.6,'.',a)" ! !------------------------------------------------------------------------------- ! status = 0 ! check if the snapshot directory exists ! write(dname, "(a,'restart-',i5.5)") trim(respath), nrest inquire(file = dname, exist = test) if (.not. test) then write(*,*) trim(dname) // " does not exists!" status = 121 return end if dname = trim(dname) // "/" write(fname,"(a,'metadata.xml')") trim(dname) inquire(file = fname, exist = test) if (.not. test) then write(*,*) trim(fname) // " does not exists!" status = 121 return end if ! read attributes from the metadata file ! open(newunit = lun, file = fname, status = 'old') 10 read(lun, fmt = "(a)", end = 20) line il = index(line, 'name="') if (il > 0) then iu = index(line, '"', back = .true.) write(sname,*) line(il+6:iu-1) il = index(line, '>') + 1 iu = index(line, '<', back = .true.) - 1 write(svalue,*) line(il:iu) select case(trim(adjustl(sname))) case('ndims') read(svalue, fmt = *) lndims case('nprocs') read(svalue, fmt = *) lnprocs case('nproc') read(svalue, fmt = *) lnproc case('mblocks') read(svalue, fmt = *) lmblocks case('dblocks') read(svalue, fmt = *) ldblocks case('nleafs') read(svalue, fmt = *) lnleafs case('last_id') read(svalue, fmt = *) llast_id case('ncells') read(svalue, fmt = *) lncells case('nseeds') read(svalue, fmt = *) lnseeds case('step') read(svalue, fmt = *) step case('isnap') read(svalue, fmt = *) isnap case('nvars') read(svalue, fmt = *) nv case('nmodes') read(svalue, fmt = *) lnmodes case('xmin') read(svalue, fmt = *) xmin case('xmax') read(svalue, fmt = *) xmax case('ymin') read(svalue, fmt = *) ymin case('ymax') read(svalue, fmt = *) ymax case('zmin') read(svalue, fmt = *) zmin case('zmax') read(svalue, fmt = *) zmax case('time') read(svalue, fmt = *) time case('dt') read(svalue, fmt = *) dt case('dtn') read(svalue, fmt = *) dtn case('fields') read(svalue, fmt = *) hfield case('children') read(svalue, fmt = *) hchild case('faces') read(svalue, fmt = *) hface case('edges') read(svalue, fmt = *) hedge case('corners') read(svalue, fmt = *) hcorner case('bounds') read(svalue, fmt = *) hbound case('forcing') read(svalue, fmt = *) hforce end select end if go to 10 20 close(lun) ! check the number of dimensions ! if (lndims /= NDIMS) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "The number of dimensions does not match!" return end if ! check the block dimensions ! if (lncells /= ncells) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "The block dimensions do not match!" return end if ! allocate all metablocks ! do l = 1, lmblocks call append_metablock(pmeta, status) end do ! check if the number of created metablocks is equal to lbmcloks ! if (lmblocks /= get_mblocks()) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Number of metablocks does not match!" end if ! set the last_id ! call set_last_id(llast_id) ! get numbers of meta and data blocks ! nx = llast_id nm = lmblocks ! prepare and store metablocks ! allocate(barray(nx), fields(nm,14), children(nm,nc), bounds(nm,NDIMS,2), & #if NDIMS == 3 faces(nm,NDIMS,ns,ns,ns), & edges(nm,NDIMS,ns,ns,ns), corners(nm,ns,ns,ns), & #else /* NDIMS == 3 */ edges(nm,NDIMS,ns,ns), corners(nm,ns,ns), & #endif /* NDIMS == 3 */ stat = status) if (status == 0) then fields(:,:) = -1 children(:,:) = -1 #if NDIMS == 3 faces(:,:,:,:,:) = -1 edges(:,:,:,:,:) = -1 corners(:,:,:,:) = -1 #else /* NDIMS == 3 */ edges(:,:,:,:) = -1 corners(:,:,:) = -1 #endif /* NDIMS == 3 */ bounds(:,:,:) = 0.0d+00 ! read metablocks from binary files and check hashes ! write(fname,"(a,'metablock_fields.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(fields)) read(lun, rec = 1) fields close(lun) read(hfield(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(fields, 1_1, sizeof(fields)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if write(fname,"(a,'metablock_children.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(children)) read(lun, rec = 1) children close(lun) read(hchild(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(children, 1_1, sizeof(children)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if #if NDIMS == 3 write(fname,"(a,'metablock_faces.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(faces)) read(lun, rec = 1) faces close(lun) read(hface(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(faces, 1_1, sizeof(faces)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if #endif /* NDIMS == 3 */ write(fname,"(a,'metablock_edges.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(edges)) read(lun, rec = 1) edges close(lun) read(hedge(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(edges, 1_1, sizeof(edges)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if write(fname,"(a,'metablock_corners.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(corners)) read(lun, rec = 1) corners close(lun) read(hcorner(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(corners, 1_1, sizeof(corners)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if write(fname,"(a,'metablock_bounds.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(bounds)) read(lun, rec = 1) bounds close(lun) read(hbound(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(bounds, 1_1, sizeof(bounds)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if ! iterate over all meta blocks and restore their fields ! l = 0 pmeta => list_meta do while(associated(pmeta)) l = l + 1 barray(fields(l,1))%ptr => pmeta call metablock_set_id (pmeta, fields(l, 1)) call metablock_set_process (pmeta, fields(l, 2)) call metablock_set_level (pmeta, fields(l, 3)) call metablock_set_configuration(pmeta, fields(l, 4)) call metablock_set_refinement (pmeta, fields(l, 5)) call metablock_set_position (pmeta, fields(l, 6), fields(l, 7), & fields(l, 8)) call metablock_set_coordinates (pmeta, fields(l, 9), fields(l,10), & fields(l,11)) call metablock_set_bounds (pmeta, bounds(l,1,1), bounds(l,1,2), & bounds(l,2,1), bounds(l,2,2), & bounds(l,3,1), bounds(l,3,2)) if (fields(l,12) == 1) call metablock_set_leaf(pmeta) pmeta => pmeta%next end do ! over all meta blocks ! iterate over all meta blocks and restore their pointers ! l = 0 pmeta => list_meta do while(associated(pmeta)) l = l + 1 if (fields(l,14) > 0) pmeta%parent => barray(fields(l,14))%ptr do p = 1, nc if (children(l,p) > 0) then pmeta%child(p)%ptr => barray(children(l,p))%ptr end if end do ! p = 1, nc #if NDIMS == 2 do j = 1, ns do i = 1, ns do n = 1, NDIMS if (edges(l,n,i,j) > 0) & pmeta%edges(i,j,n)%ptr => barray(edges(l,n,i,j))%ptr end do ! NDIMS if (corners(l,i,j) > 0) & pmeta%corners(i,j)%ptr => barray(corners(l,i,j))%ptr end do ! i = 1, ns end do ! j = 1, ns #endif /* NDIMS == 2 */ #if NDIMS == 3 do k = 1, ns do j = 1, ns do i = 1, ns do n = 1, NDIMS if (faces(l,n,i,j,k) > 0) & pmeta%faces(i,j,k,n)%ptr => barray(faces(l,n,i,j,k))%ptr if (edges(l,n,i,j,k) > 0) & pmeta%edges(i,j,k,n)%ptr => barray(edges(l,n,i,j,k))%ptr end do ! NDIMS if (corners(l,i,j,k) > 0) & pmeta%corners(i,j,k)%ptr => barray(corners(l,i,j,k))%ptr end do ! i = 1, ns end do ! j = 1, ns end do ! k = 1, ns #endif /* NDIMS == 3 */ pmeta => pmeta%next end do ! over all meta blocks if (allocated(fields)) deallocate(fields) if (allocated(children)) deallocate(children) if (allocated(bounds)) deallocate(bounds) #if NDIMS == 3 if (allocated(faces)) deallocate(faces) #endif /* NDIMS == 3 */ if (allocated(edges)) deallocate(edges) if (allocated(corners)) deallocate(corners) end if ! allocation ! check the number of forcing modes ! if (lnmodes == nmodes) then if (lnmodes > 0) then write(fname,"(a,'forcing_coefficients.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(fcoefs)) read(lun, rec = 1) fcoefs close(lun) read(hforce(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(fcoefs, 1_1, sizeof(fcoefs)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "The number of forcing modes does not match!" end if ! if the number of processes is bigger after the restart than before ! if (nprocs >= lnprocs) then if (nproc < lnprocs) then write(fname,fmt) trim(dname), "datablocks", nproc, "xml" inquire(file = fname, exist = test) if (.not. test) then write(*,*) trim(fname) // " does not exists!" status = 121 return end if ! read attributes from the metadata file ! open(newunit = lun, file = fname, status = 'old') 30 read(lun, fmt = "(a)", end = 40) line il = index(line, 'name="') if (il > 0) then iu = index(line, '"', back = .true.) write(sname,*) line(il+6:iu-1) il = index(line, '>') + 1 iu = index(line, '<', back = .true.) - 1 write(svalue,*) line(il:iu) select case(trim(adjustl(sname))) case('dblocks') read(svalue, fmt = *) nd case('einj') read(svalue, fmt = *) einj case('ids') read(svalue, fmt = *) hids case('arrays') read(svalue, fmt = *) harray case('seeds') read(svalue, fmt = *) hseed end select end if go to 30 40 close(lun) #if NDIMS == 3 allocate(ids(nd), arrays(nd,3,nv,nn,nn,nn), stat = status) #else /* NDIMS == 3 */ allocate(ids(nd), arrays(nd,3,nv,nn,nn, 1), stat = status) #endif /* NDIMS == 3 */ if (status == 0) then write(fname, fmt) trim(dname), "datablock_ids", nproc, "bin" open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct' , recl = sizeof(ids)) read(lun, rec = 1) ids close(lun) read(hids(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(ids, 1_1, sizeof(ids)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if write(fname, fmt) trim(dname), "datablock_arrays", nproc, "bin" open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct' , recl = sizeof(arrays)) read(lun, rec = 1) arrays close(lun) read(harray(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(arrays, 1_1, sizeof(arrays)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if do l = 1, nd call append_datablock(pdata, status) call link_blocks(barray(ids(l))%ptr, pdata) pdata%q (:,:,:,:) = arrays(l,1,:,:,:,:) pdata%u0(:,:,:,:) = arrays(l,2,:,:,:,:) pdata%u1(:,:,:,:) = arrays(l,3,:,:,:,:) end do if (allocated(ids)) deallocate(ids) if (allocated(arrays)) deallocate(arrays) end if ! allocation ! restore PRNG seeds ! allocate(seeds(4,lnseeds), stat = status) if (status == 0) then write(fname, fmt) trim(dname), "random_seeds", nproc, "bin" open(unit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(seeds)) read(lun, rec = 1) seeds close(lun) read(hseed(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(seeds, 1_1, sizeof(seeds)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if call set_seeds(lnseeds, seeds(:,:), .false.) if (allocated(seeds)) deallocate(seeds) end if ! allocation else ! nproc < lnprocs write(fname,fmt) trim(dname), "datablocks", 0, "xml" inquire(file = fname, exist = test) if (.not. test) then write(*,*) trim(fname) // " does not exists!" status = 121 return end if ! read attributes from the metadata file ! open(newunit = lun, file = fname, status = 'old') 50 read(lun, fmt = "(a)", end = 60) line il = index(line, 'name="') if (il > 0) then iu = index(line, '"', back = .true.) write(sname,*) line(il+6:iu-1) il = index(line, '>') + 1 iu = index(line, '<', back = .true.) - 1 write(svalue,*) line(il:iu) select case(trim(adjustl(sname))) case('seeds') read(svalue, fmt = *) hseed end select end if go to 50 60 close(lun) ! restore PRNG seeds for remaining processes ! if (trim(gentype) == "same") then allocate(seeds(4,lnseeds), stat = status) if (status == 0) then write(fname, fmt) trim(dname), "random_seeds", 0, "bin" open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(seeds)) read(lun, rec = 1) seeds close(lun) read(hseed(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(seeds, 1_1, sizeof(seeds)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if call set_seeds(lnseeds, seeds(:,:), .false.) if (allocated(seeds)) deallocate(seeds) end if ! allocation end if ! gentype == "same" end if ! nproc < nprocs else ! nprocs < lnprocs ! divide files between processes ! i = mod(lnprocs, nprocs) j = lnprocs / nprocs do p = 0, nprocs k = 0 do n = 0, p nl = k if (n < i) then nu = k + j else nu = k + j - 1 end if k = nu + 1 end do do n = nl, nu call change_blocks_process(n, p) end do end do k = 0 do n = 0, nproc nl = k if (n < i) then nu = k + j else nu = k + j - 1 end if k = nu + 1 end do do n = nl, nu write(fname,fmt) trim(dname), "datablocks", n, "xml" inquire(file = fname, exist = test) if (.not. test) then write(*,*) trim(fname) // " does not exists!" status = 121 return end if ! read attributes from the metadata file ! open(newunit = lun, file = fname, status = 'old') 70 read(lun, fmt = "(a)", end = 80) line il = index(line, 'name="') if (il > 0) then iu = index(line, '"', back = .true.) write(sname,*) line(il+6:iu-1) il = index(line, '>') + 1 iu = index(line, '<', back = .true.) - 1 write(svalue,*) line(il:iu) select case(trim(adjustl(sname))) case('dblocks') read(svalue, fmt = *) nd case('einj') read(svalue, fmt = *) deinj case('ids') read(svalue, fmt = *) hids case('arrays') read(svalue, fmt = *) harray case('seeds') read(svalue, fmt = *) hseed end select end if go to 70 80 close(lun) einj = einj + deinj #if NDIMS == 3 allocate(ids(nd), arrays(nd,3,nv,nn,nn,nn), stat = status) #else /* NDIMS == 3 */ allocate(ids(nd), arrays(nd,3,nv,nn,nn, 1), stat = status) #endif /* NDIMS == 3 */ if (status == 0) then write(fname, fmt) trim(dname), "datablock_ids", n, "bin" open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct' , recl = sizeof(ids)) read(lun, rec = 1) ids close(lun) read(hids(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(ids, 1_1, sizeof(ids)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if write(fname, fmt) trim(dname), "datablock_arrays", n, "bin" open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct' , recl = sizeof(arrays)) read(lun, rec = 1) arrays close(lun) read(harray(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(arrays, 1_1, sizeof(arrays)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if do l = 1, nd call append_datablock(pdata, status) call link_blocks(barray(ids(l))%ptr, pdata) pdata%q (:,:,:,:) = arrays(l,1,:,:,:,:) pdata%u0(:,:,:,:) = arrays(l,2,:,:,:,:) pdata%u1(:,:,:,:) = arrays(l,3,:,:,:,:) end do if (allocated(ids)) deallocate(ids) if (allocated(arrays)) deallocate(arrays) end if ! allocation end do ! n = nl, nu ! restore seeds ! allocate(seeds(4,lnseeds), stat = status) if (status == 0) then write(fname, fmt) trim(dname), "random_seeds", nproc, "bin" open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(seeds)) read(lun, rec = 1) seeds close(lun) read(hseed(7:), fmt = "(1z16)") hash if (hash /= xxh64(transfer(seeds, 1_1, sizeof(seeds)))) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "'" // trim(fname) // "' seems to be corrupted!" end if call set_seeds(lnseeds, seeds(:,:), .false.) if (allocated(seeds)) deallocate(seeds) end if ! allocation end if ! nprocs >= lnprocs if (allocated(barray)) deallocate(barray) #ifdef MPI ! redistribute blocks between processors ! call redistribute_blocks() #endif /* MPI */ !------------------------------------------------------------------------------- ! end subroutine read_restart_snapshot_xml ! !=============================================================================== ! ! subroutine WRITE_RESTART_SNAPSHOT_XML: ! ------------------------------------- ! ! Subroutine saves a restart snapshot, i.e. parameters, meta and data blocks ! using the XML format for parameters and binary format for meta and data ! block fields. ! ! Arguments: ! ! nrun - the snapshot number; ! status - the status flag to inform if subroutine succeeded or failed; ! !=============================================================================== ! subroutine write_restart_snapshot_xml(nrun, status) use blocks , only : block_meta, block_data, list_meta, list_data use blocks , only : get_mblocks, get_dblocks, get_nleafs use blocks , only : get_last_id use blocks , only : ns => nsides, nc => nchildren use coordinates , only : nn => bcells, ncells, nghosts, minlev, maxlev use coordinates , only : xmin, xmax, ymin, ymax, zmin, zmax use coordinates , only : bdims => domain_base_dims use equations , only : eqsys, eos, nv use evolution , only : step, time, dt, dtn use forcing , only : nmodes, fcoefs, einj use hash , only : xxh64 use iso_fortran_env, only : error_unit use mpitools , only : nprocs, nproc use parameters , only : get_parameter_file use problems , only : problem_name use random , only : gentype, nseeds, get_seeds implicit none ! input and output arguments ! integer, intent(in) :: nrun integer, intent(out) :: status ! local variables ! logical :: test character(len=64) :: dname, fname integer(kind=8) :: hash integer(kind=4) :: lun = 103 integer :: nd, nl, nm, nx, i, j, k, l, n, p ! hash strings ! character(len=22) :: hfield, hchild, hface, hedge, hcorner, hbound character(len=22) :: hids, harray, hseed, hforce ! local pointers ! type(block_meta), pointer :: pmeta type(block_data), pointer :: pdata ! local arrays ! integer(kind=4), dimension(:) , allocatable :: ids integer(kind=4), dimension(:,:) , allocatable :: fields integer(kind=4), dimension(:,:) , allocatable :: children #if NDIMS == 2 integer(kind=4), dimension(:,:,:,:) , allocatable :: edges integer(kind=4), dimension(:,:,:) , allocatable :: corners #endif /* NDIMS == 2 */ #if NDIMS == 3 integer(kind=4), dimension(:,:,:,:,:) , allocatable :: faces integer(kind=4), dimension(:,:,:,:,:) , allocatable :: edges integer(kind=4), dimension(:,:,:,:) , allocatable :: corners #endif /* NDIMS == 3 */ integer(kind=8), dimension(:,:) , allocatable :: seeds real(kind=8) , dimension(:,:,:) , allocatable :: bounds real(kind=8) , dimension(:,:,:,:,:,:), allocatable :: arrays ! local parameters ! character(len=*), parameter :: loc = "IO::write_restart_snapshot_xml()" character(len=*), parameter :: fmt = "(a,a,'_',i6.6,'.',a)" ! !------------------------------------------------------------------------------- ! status = 0 ! create snapshot directory, if it does not exists ! write(dname, "('restart-',i5.5)") nrun inquire(file = dname, exist = test) do while(.not. test) if (.not. test) call system("mkdir -p " // trim(dname)) inquire(file = dname, exist = test) end do dname = trim(dname) // "/" ! get numbers of meta and data blocks ! nx = get_last_id() nm = get_mblocks() nd = get_dblocks() nl = get_nleafs() ! only process 0 stores the metadata ! if (nproc == 0) then ! copy the parameter file to the restart directory ! call get_parameter_file(fname, status) if (status == 0) then call system("cp -a " // trim(fname) // " " // trim(dname)) else write(error_unit,"('[',a,']: ',a)") trim(loc), & "Cannot get the location of parameter file!" return end if ! prepare and store metablocks ! allocate(fields(nm,14), children(nm,nc), bounds(nm,NDIMS,2), & #if NDIMS == 3 faces(nm,NDIMS,ns,ns,ns), & edges(nm,NDIMS,ns,ns,ns), corners(nm,ns,ns,ns), & #else /* NDIMS == 3 */ edges(nm,NDIMS,ns,ns), corners(nm,ns,ns), & #endif /* NDIMS == 3 */ stat = status) if (status == 0) then fields(:,:) = -1 children(:,:) = -1 #if NDIMS == 3 faces(:,:,:,:,:) = -1 edges(:,:,:,:,:) = -1 corners(:,:,:,:) = -1 #else /* NDIMS == 3 */ edges(:,:,:,:) = -1 corners(:,:,:) = -1 #endif /* NDIMS == 3 */ bounds(:,:,:) = 0.0d+00 l = 0 pmeta => list_meta do while(associated(pmeta)) l = l + 1 fields(l, 1) = pmeta%id fields(l, 2) = pmeta%process fields(l, 3) = pmeta%level fields(l, 4) = pmeta%conf fields(l, 5) = pmeta%refine fields(l, 6) = pmeta%pos(1) fields(l, 7) = pmeta%pos(2) #if NDIMS == 3 fields(l, 8) = pmeta%pos(3) #endif /* NDIMS == 3 */ fields(l, 9) = pmeta%coords(1) fields(l,10) = pmeta%coords(2) #if NDIMS == 3 fields(l,11) = pmeta%coords(3) #endif /* NDIMS == 3 */ if (pmeta%leaf) fields(l,12) = 1 if (associated(pmeta%data) ) fields(l,13) = 1 if (associated(pmeta%parent)) fields(l,14) = pmeta%parent%id do p = 1, nc if (associated(pmeta%child(p)%ptr)) & children(l,p) = pmeta%child(p)%ptr%id end do #if NDIMS == 2 do j = 1, ns do i = 1, ns do n = 1, NDIMS if (associated(pmeta%edges(i,j,n)%ptr)) & edges(l,n,i,j) = pmeta%edges(i,j,n)%ptr%id end do ! NDIMS if (associated(pmeta%corners(i,j)%ptr)) & corners(l,i,j) = pmeta%corners(i,j)%ptr%id end do ! i = 1, ns end do ! j = 1, ns #endif /* NDIMS == 2 */ #if NDIMS == 3 do k = 1, ns do j = 1, ns do i = 1, ns do n = 1, NDIMS if (associated(pmeta%faces(i,j,k,n)%ptr)) & faces(l,n,i,j,k) = pmeta%faces(i,j,k,n)%ptr%id if (associated(pmeta%edges(i,j,k,n)%ptr)) & edges(l,n,i,j,k) = pmeta%edges(i,j,k,n)%ptr%id end do ! NDIMS if (associated(pmeta%corners(i,j,k)%ptr)) & corners(l,i,j,k) = pmeta%corners(i,j,k)%ptr%id end do ! i = 1, ns end do ! j = 1, ns end do ! k = 1, ns #endif /* NDIMS == 3 */ bounds(l,1,1) = pmeta%xmin bounds(l,1,2) = pmeta%xmax bounds(l,2,1) = pmeta%ymin bounds(l,2,2) = pmeta%ymax #if NDIMS == 3 bounds(l,3,1) = pmeta%zmin bounds(l,3,2) = pmeta%zmax #endif /* NDIMS == 3 */ pmeta => pmeta%next end do ! metablocks ! get hashes for metadablock data ! hash = xxh64(transfer(fields, 1_1, sizeof(fields))) write(hfield ,"('xxh64:', 1z0.16)") hash hash = xxh64(transfer(children, 1_1, sizeof(children))) write(hchild ,"('xxh64:', 1z0.16)") hash #if NDIMS == 3 hash = xxh64(transfer(faces, 1_1, sizeof(faces))) write(hface ,"('xxh64:', 1z0.16)") hash #endif /* NDIMS == 3 */ hash = xxh64(transfer(edges, 1_1, sizeof(edges))) write(hedge ,"('xxh64:', 1z0.16)") hash hash = xxh64(transfer(corners, 1_1, sizeof(corners))) write(hcorner,"('xxh64:', 1z0.16)") hash hash = xxh64(transfer(bounds, 1_1, sizeof(bounds))) write(hbound ,"('xxh64:', 1z0.16)") hash if (nmodes > 0) then hash = xxh64(transfer(fcoefs, 1_1, sizeof(fcoefs))) write(hforce,"('xxh64:', 1z0.16)") hash end if ! store metablock data ! write(fname,"(a,'metablock_fields.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(fields), status = 'replace') write(lun, rec = 1) fields close(lun) write(fname,"(a,'metablock_children.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(children), status = 'replace') write(lun, rec = 1) children close(lun) write(fname,"(a,'metablock_bounds.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(bounds), status = 'replace') write(lun, rec = 1) bounds close(lun) #if NDIMS == 3 write(fname,"(a,'metablock_faces.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(faces), status = 'replace') write(lun, rec = 1) faces close(lun) #endif /* NDIMS == 3 */ write(fname,"(a,'metablock_edges.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(edges), status = 'replace') write(lun, rec = 1) edges close(lun) write(fname,"(a,'metablock_corners.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(corners), status = 'replace') write(lun, rec = 1) corners close(lun) if (nmodes > 0) then write(fname,"(a,'forcing_coefficients.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(fcoefs), status = 'replace') write(lun, rec = 1) fcoefs close(lun) end if if (allocated(fields)) deallocate(fields) if (allocated(children)) deallocate(children) if (allocated(bounds)) deallocate(bounds) #if NDIMS == 3 if (allocated(faces)) deallocate(faces) #endif /* NDIMS == 3 */ if (allocated(edges)) deallocate(edges) if (allocated(corners)) deallocate(corners) else write(error_unit,"('[',a,']: ',a)") trim(loc), & "Cannot allocate space for metablocks!" status = 1001 return end if ! allocation ! store metadata (parameters and attributes) ! write(fname,"(a,'metadata.xml')") trim(dname) open(newunit = lun, file = fname, status = 'replace') write(lun,"(a)") '' write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "problem" , problem_name) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "nprocs" , nprocs) call write_attribute_xml(lun, "nproc" , nproc) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "eqsys" , eqsys) call write_attribute_xml(lun, "eos" , eos) call write_attribute_xml(lun, "nvars" , nv) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "ndims" , NDIMS) call write_attribute_xml(lun, "xblocks" , bdims(1)) call write_attribute_xml(lun, "yblocks" , bdims(2)) #if NDIMS == 3 call write_attribute_xml(lun, "zblocks" , bdims(3)) #endif /* NDIMS */ call write_attribute_xml(lun, "xmin" , xmin) call write_attribute_xml(lun, "xmax" , xmax) call write_attribute_xml(lun, "ymin" , ymin) call write_attribute_xml(lun, "ymax" , ymax) #if NDIMS == 3 call write_attribute_xml(lun, "zmin" , zmin) call write_attribute_xml(lun, "zmax" , zmax) #endif /* NDIMS */ write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "minlev" , minlev) call write_attribute_xml(lun, "maxlev" , maxlev) call write_attribute_xml(lun, "ncells" , ncells) call write_attribute_xml(lun, "nghosts" , nghosts) call write_attribute_xml(lun, "bcells" , nn) call write_attribute_xml(lun, "nchildren", nc) call write_attribute_xml(lun, "mblocks" , nm) call write_attribute_xml(lun, "nleafs" , nl) call write_attribute_xml(lun, "last_id" , nx) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "step" , step) call write_attribute_xml(lun, "time" , time) call write_attribute_xml(lun, "dt" , dt) call write_attribute_xml(lun, "dtn" , dtn) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "nmodes" , nmodes) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "gentype" , gentype) call write_attribute_xml(lun, "nseeds" , nseeds) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "isnap" , isnap) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "fields" , hfield) call write_attribute_xml(lun, "children" , hchild) #if NDIMS == 3 call write_attribute_xml(lun, "faces" , hface ) #endif /* NDIMS == 3 */ call write_attribute_xml(lun, "edges" , hedge ) call write_attribute_xml(lun, "corners" , hcorner) call write_attribute_xml(lun, "bounds" , hbound) if (nmodes > 0) then call write_attribute_xml(lun, "forcing", hforce) end if write(lun,"(a)") '' write(lun,"(a)") '' close(lun) end if ! meta data file is stored only on the master process if (nd > 0) then #if NDIMS == 3 allocate(ids(nd), arrays(nd,3,nv,nn,nn,nn), stat = status) #else /* NDIMS == 3 */ allocate(ids(nd), arrays(nd,3,nv,nn,nn, 1), stat = status) #endif /* NDIMS == 3 */ if (status == 0) then arrays = 0.0d+00 l = 0 pdata => list_data do while(associated(pdata)) l = l + 1 ids(l) = pdata%meta%id arrays(l,1,:,:,:,:) = pdata%q (:,:,:,:) arrays(l,2,:,:,:,:) = pdata%u0(:,:,:,:) arrays(l,3,:,:,:,:) = pdata%u1(:,:,:,:) pdata => pdata%next end do ! data blocks ! get hashes for block IDs and arrays ! hash = xxh64(transfer(ids, 1_1, sizeof(ids))) write(hids ,"('xxh64:', 1z0.16)") hash hash = xxh64(transfer(arrays, 1_1, sizeof(arrays))) write(harray,"('xxh64:', 1z0.16)") hash ! store block IDs and arrays ! write(fname,fmt) trim(dname), "datablock_ids", nproc, "bin" open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(ids), status = 'replace') write(lun, rec = 1) ids close(lun) write(fname,fmt) trim(dname), "datablock_arrays", nproc, "bin" open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(arrays), status = 'replace') write(lun, rec = 1) arrays close(lun) if (allocated(ids)) deallocate(ids) if (allocated(arrays)) deallocate(arrays) else write(error_unit,"('[',a,']: ',a)") trim(loc), & "Cannot allocate space for datablocks!" status = 1001 return end if ! allocation end if ! store PRNG seeds ! allocate(seeds(4,nseeds), stat = status) if (status == 0) then call get_seeds(seeds(:,:)) ! get the hash for seeds ! hash = xxh64(transfer(seeds, 1_1, sizeof(seeds))) write(hseed,"('xxh64:', 1z0.16)") hash ! store seeds ! write(fname,fmt) trim(dname), "random_seeds", nproc, "bin" open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(seeds), status = 'replace') write(lun, rec = 1) seeds close(lun) if (allocated(seeds)) deallocate(seeds) else write(error_unit,"('[',a,']: ',a)") trim(loc), & "Cannot allocate space for random generator seeds!" status = 1001 return end if ! prepare and store data block info ! write(fname,fmt) trim(dname), "datablocks", nproc, "xml" open(newunit = lun, file = fname, status = 'replace') write(lun,"(a)") '' write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "nprocs" , nprocs) call write_attribute_xml(lun, "nproc" , nproc) call write_attribute_xml(lun, "ndims" , NDIMS) call write_attribute_xml(lun, "ncells" , ncells) call write_attribute_xml(lun, "nghosts", nghosts) call write_attribute_xml(lun, "bcells" , nn) call write_attribute_xml(lun, "dblocks", nd) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "einj" , einj) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "gentype", gentype) call write_attribute_xml(lun, "nseeds" , nseeds) write(lun,"(a)") '' write(lun,"(a)") '' if (nd > 0) then call write_attribute_xml(lun, "ids" , hids) call write_attribute_xml(lun, "arrays", harray) end if if (nseeds > 0) then call write_attribute_xml(lun, "seeds", hseed) end if write(lun,"(a)") '' write(lun,"(a)") '' close(lun) !------------------------------------------------------------------------------- ! end subroutine write_restart_snapshot_xml ! !=============================================================================== ! ! subroutine WRITE_SNAPSHOT_XML: ! ----------------------------- ! ! Subroutine saves a regular snapshot, i.e. parameters, leafs and data blocks ! using the XML format for metadata and binary format for meta and data ! block fields. ! ! Arguments: ! ! status - the status flag to inform if subroutine succeeded or failed; ! !=============================================================================== ! subroutine write_snapshot_xml(status) use blocks , only : block_meta, block_data, list_meta, list_data use blocks , only : get_dblocks, get_nleafs use blocks , only : ns => nsides, nc => nchildren use coordinates , only : nn => bcells, ncells, nghosts, minlev, maxlev use coordinates , only : xmin, xmax, ymin, ymax, zmin, zmax use coordinates , only : bdims => domain_base_dims use equations , only : eqsys, eos, nv, pvars, gamma, csnd use evolution , only : step, time, dt, dtn use hash , only : xxh64 use iso_fortran_env, only : error_unit use mpitools , only : nprocs, nproc use parameters , only : get_parameter_file use problems , only : problem_name use sources , only : viscosity, resistivity implicit none ! input and output arguments ! integer, intent(out) :: status ! local variables ! logical :: test character(len=64) :: dname, fname character(len=256) :: vars integer(kind=4) :: lun = 103, dun = 104 integer(kind=8) :: hash integer :: nd, nl, l, p ! hash strings ! character(len=22) :: hfield, hbound, hvar ! local pointers ! type(block_meta), pointer :: pmeta type(block_data), pointer :: pdata ! local arrays ! integer(kind=4), dimension(:) , allocatable :: ids integer(kind=4), dimension(:,:) , allocatable :: fields real(kind=8) , dimension(:,:,:) , allocatable :: bounds real(kind=8) , dimension(:,:,:,:,:), allocatable :: arrays ! local parameters ! character(len=*), parameter :: loc = "IO::write_snapshot_xml()" character(len=*), parameter :: fmt = "(a,a,'_',i6.6,'.',a)" ! !------------------------------------------------------------------------------- ! status = 0 ! create snapshot directory, if it does not exists ! write(dname, "('snapshot-',i9.9)") isnap inquire(file = dname, exist = test) do while(.not. test) if (.not. test) call system("mkdir -p " // trim(dname)) inquire(file = dname, exist = test) end do dname = trim(dname) // "/" ! get numbers of meta and data blocks, leafs, and prepare stored variables ! nd = get_dblocks() nl = get_nleafs() vars = "" do l = 1, nv vars = trim(vars) // " " // trim(pvars(l)) end do ! only process 0 stores the metadata ! if (nproc == 0) then ! copy the parameter file to the restart directory ! call get_parameter_file(fname, status) if (status == 0) then call system("cp -a " // trim(fname) // " " // trim(dname)) else write(error_unit,"('[',a,']: ',a)") trim(loc), & "Cannot get the location of parameter file!" return end if ! prepare and store metablocks ! allocate(fields(nl,5), bounds(nl,3,2), stat = status) if (status == 0) then fields(:,:) = -1 bounds(:,:,:) = 0.0d+00 l = 0 pmeta => list_meta do while(associated(pmeta)) if (pmeta%leaf) then l = l + 1 fields(l,1) = pmeta%id fields(l,2) = pmeta%level fields(l,3) = pmeta%coords(1) fields(l,4) = pmeta%coords(2) #if NDIMS == 3 fields(l,5) = pmeta%coords(3) #endif /* NDIMS == 3 */ bounds(l,1,1) = pmeta%xmin bounds(l,1,2) = pmeta%xmax bounds(l,2,1) = pmeta%ymin bounds(l,2,2) = pmeta%ymax #if NDIMS == 3 bounds(l,3,1) = pmeta%zmin bounds(l,3,2) = pmeta%zmax #endif /* NDIMS == 3 */ end if ! leaf pmeta => pmeta%next end do ! metablocks ! get hashes for metadablock data ! hash = xxh64(transfer(fields, 1_1, sizeof(fields))) write(hfield ,"('xxh64:', 1z0.16)") hash hash = xxh64(transfer(bounds, 1_1, sizeof(bounds))) write(hbound ,"('xxh64:', 1z0.16)") hash ! store metablock data ! write(fname,"(a,'metablock_fields.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(fields), status = 'replace') write(lun, rec = 1) fields close(lun) write(fname,"(a,'metablock_bounds.bin')") trim(dname) open(newunit = lun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(bounds), status = 'replace') write(lun, rec = 1) bounds close(lun) if (allocated(fields)) deallocate(fields) if (allocated(bounds)) deallocate(bounds) else write(error_unit,"('[',a,']: ',a)") trim(loc), & "Cannot allocate space for metablocks!" status = 1001 return end if ! allocation ! store metadata (parameters and attributes) ! write(fname,"(a,'metadata.xml')") trim(dname) open(newunit = lun, file = fname, status = 'replace') write(lun,"(a)") '' write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "problem" , problem_name) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "nprocs" , nprocs) call write_attribute_xml(lun, "nproc" , nproc) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "eqsys" , eqsys) call write_attribute_xml(lun, "eos" , eos) call write_attribute_xml(lun, "nvars" , nv) call write_attribute_xml(lun, "gamma" , gamma) call write_attribute_xml(lun, "csnd" , csnd) call write_attribute_xml(lun, "viscosity" , viscosity) call write_attribute_xml(lun, "resistivity", resistivity) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "ndims" , NDIMS) call write_attribute_xml(lun, "xblocks" , bdims(1)) call write_attribute_xml(lun, "yblocks" , bdims(2)) #if NDIMS == 3 call write_attribute_xml(lun, "zblocks" , bdims(3)) #endif /* NDIMS */ call write_attribute_xml(lun, "xmin" , xmin) call write_attribute_xml(lun, "xmax" , xmax) call write_attribute_xml(lun, "ymin" , ymin) call write_attribute_xml(lun, "ymax" , ymax) #if NDIMS == 3 call write_attribute_xml(lun, "zmin" , zmin) call write_attribute_xml(lun, "zmax" , zmax) #endif /* NDIMS */ write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "minlev" , minlev) call write_attribute_xml(lun, "maxlev" , maxlev) call write_attribute_xml(lun, "ncells" , ncells) call write_attribute_xml(lun, "nghosts" , nghosts) call write_attribute_xml(lun, "bcells" , nn) call write_attribute_xml(lun, "nleafs" , nl) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "step" , step) call write_attribute_xml(lun, "time" , time) call write_attribute_xml(lun, "dt" , dt) call write_attribute_xml(lun, "dtn" , dtn) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "isnap" , isnap) call write_attribute_xml(lun, "variables", trim(vars)) write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "fields" , hfield) call write_attribute_xml(lun, "bounds" , hbound) write(lun,"(a)") '' write(lun,"(a)") '' close(lun) end if ! meta data file is stored only on the master process ! prepare and store data block info ! write(fname,fmt) trim(dname), "datablocks", nproc, "xml" open(newunit = lun, file = fname, status = 'replace') write(lun,"(a)") '' write(lun,"(a)") '' write(lun,"(a)") '' call write_attribute_xml(lun, "nprocs" , nprocs) call write_attribute_xml(lun, "nproc" , nproc) call write_attribute_xml(lun, "ndims" , NDIMS) call write_attribute_xml(lun, "ncells" , ncells) call write_attribute_xml(lun, "nghosts" , nghosts) call write_attribute_xml(lun, "bcells" , nn) call write_attribute_xml(lun, "nvars" , nv) call write_attribute_xml(lun, "dblocks" , nd) call write_attribute_xml(lun, "variables", trim(vars)) write(lun,"(a)") '' write(lun,"(a)") '' if (nd > 0) then #if NDIMS == 3 allocate(ids(nd), arrays(nv,nd,nn,nn,nn), stat = status) #else /* NDIMS == 3 */ allocate(ids(nd), arrays(nv,nd,nn,nn, 1), stat = status) #endif /* NDIMS == 3 */ if (status == 0) then l = 0 pdata => list_data do while(associated(pdata)) l = l + 1 ids(l) = pdata%meta%id arrays(:,l,:,:,:) = pdata%q(:,:,:,:) pdata => pdata%next end do ! data blocks write(fname,fmt) trim(dname), "datablock_ids", nproc, "bin" open(newunit = dun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(ids), status = 'replace') write(dun, rec = 1) ids close(dun) hash = xxh64(transfer(ids, 1_1, sizeof(ids))) write(hvar,"('xxh64:', 1z0.16)") hash call write_attribute_xml(lun, "ids", hvar) do p = 1, nv write(fname,fmt) trim(dname), "datablock_" // trim(pvars(p)), & nproc, "bin" open(newunit = dun, file = fname, form = 'unformatted', & access = 'direct', recl = sizeof(arrays(p,:,:,:,:)), & status = 'replace') write(dun, rec = 1) arrays(p,:,:,:,:) close(dun) hash = xxh64(transfer(arrays(p,:,:,:,:), 1_1, & sizeof(arrays(p,:,:,:,:)))) write(hvar,"('xxh64:', 1z0.16)") hash call write_attribute_xml(lun, trim(pvars(p)), hvar) end do if (allocated(ids)) deallocate(ids) if (allocated(arrays)) deallocate(arrays) else write(error_unit,"('[',a,']: ',a)") trim(loc), & "Cannot allocate space for datablocks!" status = 1001 return end if ! allocation end if write(lun,"(a)") '' write(lun,"(a)") '' close(lun) !------------------------------------------------------------------------------- ! end subroutine write_snapshot_xml ! !=============================================================================== ! ! subroutine WRITE_ATTRIBUTE_XML_STRING: ! ------------------------------------- ! ! Subroutine writes a string attribute in XML format to specified ! file handler. ! ! Arguments: ! ! lun - the file handler to write to; ! aname - the name of attribute; ! avalue - the value of attribute; ! !=============================================================================== ! subroutine write_attribute_xml_string(lun, aname, avalue) implicit none ! input and output arguments ! integer , intent(in) :: lun character(len=*), intent(in) :: aname character(len=*), intent(in) :: avalue ! local parameters ! character(len=*), parameter :: afmt = "('',a,'')" ! !------------------------------------------------------------------------------- ! write(lun,afmt) "string", trim(adjustl(aname)), trim(adjustl(avalue)) !------------------------------------------------------------------------------- ! end subroutine write_attribute_xml_string ! !=============================================================================== ! ! subroutine WRITE_ATTRIBUTE_XML_INTEGER: ! -------------------------------------- ! ! Subroutine writes an integer attribute in XML format to specified ! file handler. ! ! Arguments: ! ! lun - the file handler to write to; ! aname - the name of attribute; ! avalue - the value of attribute; ! !=============================================================================== ! subroutine write_attribute_xml_integer(lun, aname, avalue) implicit none ! input and output arguments ! integer , intent(in) :: lun character(len=*), intent(in) :: aname integer(kind=4) , intent(in) :: avalue ! local variables ! character(len=32) :: svalue ! local parameters ! character(len=*), parameter :: afmt = "('',a,'')" ! !------------------------------------------------------------------------------- ! write(svalue,"(1i32)") avalue write(lun,afmt) "integer", trim(adjustl(aname)), trim(adjustl(svalue)) !------------------------------------------------------------------------------- ! end subroutine write_attribute_xml_integer ! !=============================================================================== ! ! subroutine WRITE_ATTRIBUTE_XML_DOUBLE: ! -------------------------------------- ! ! Subroutine writes a double precision attribute in XML format to specified ! file handler. ! ! Arguments: ! ! lun - the file handler to write to; ! aname - the name of attribute; ! avalue - the value of attribute; ! !=============================================================================== ! subroutine write_attribute_xml_double(lun, aname, avalue) implicit none ! input and output arguments ! integer , intent(in) :: lun character(len=*), intent(in) :: aname real(kind=8) , intent(in) :: avalue ! local variables ! character(len=32) :: svalue ! local parameters ! character(len=*), parameter :: afmt = "('',a,'')" ! !------------------------------------------------------------------------------- ! write(svalue,"(1es32.20)") avalue write(lun,afmt) "double", trim(adjustl(aname)), trim(adjustl(svalue)) !------------------------------------------------------------------------------- ! end subroutine write_attribute_xml_double #ifdef HDF5 ! !=============================================================================== ! ! subroutine READ_SNAPSHOT_PARAMETER_STRING_H5: ! -------------------------------------------- ! ! Subroutine reads a string parameter from the restart snapshot. ! ! Arguments: ! ! pname - the parameter name; ! pvalue - the parameter value; ! iret - the success flag (the success is 0, failure otherwise); ! !=============================================================================== ! subroutine read_snapshot_parameter_string_h5(pname, pvalue, iret) ! import external procedures ! use hdf5 , only : hid_t use hdf5 , only : H5F_ACC_RDONLY_F use hdf5 , only : H5T_NATIVE_CHARACTER use hdf5 , only : hid_t, hsize_t, size_t use hdf5 , only : h5fopen_f, h5fclose_f use hdf5 , only : h5gopen_f, h5gclose_f use hdf5 , only : h5aexists_by_name_f use hdf5 , only : h5tcopy_f, h5tset_size_f use hdf5 , only : h5aopen_by_name_f, h5aread_f, h5aclose_f use iso_fortran_env, only : error_unit use mpitools , only : nproc use parameters , only : get_parameter ! local variables are not implicit by default ! implicit none ! subroutine arguments ! character(len=*), intent(in) :: pname character(len=*), intent(inout) :: pvalue integer , intent(inout) :: iret ! local variables ! logical :: info character(len=255) :: rname integer :: np integer(hid_t) :: fid, gid, tid, aid integer(size_t) :: aln integer(hsize_t) :: am(1) = 1 ! local parameters ! character(len=*), parameter :: loc = & 'IO::read_snapshot_parameter_string_h5()' ! !------------------------------------------------------------------------------- ! ! reset the success flag ! iret = 0 ! generate the filename of the restart snapshot ! info = .false. np = nproc + 1 do while (.not. info .and. np >= 0) np = np - 1 write (rname, "(a,'r',i6.6,'_',i5.5,'.h5')") trim(respath), nrest, np inquire(file = rname, exist = info) end do ! procees if file exists ! if (info) then call h5fopen_f(rname, H5F_ACC_RDONLY_F, fid, iret) if (iret >= 0) then call h5gopen_f(fid, 'attributes', gid, iret) if (iret >= 0) then call h5aexists_by_name_f(gid, '.', trim(pname), info, iret) if (info .and. iret >= 0) then call h5aopen_by_name_f(gid, '.', trim(pname), aid, iret) if (iret >= 0) then aln = len(pvalue) call h5tcopy_f(H5T_NATIVE_CHARACTER, tid, iret) call h5tset_size_f(tid, aln, iret) call h5aread_f(aid, tid, pvalue, am(:), iret) call h5aclose_f(aid, iret) end if end if call h5gclose_f(gid, iret) end if call h5fclose_f(fid, iret) end if else write(error_unit,"('[', a, ']: ', a)") trim(loc) & , "Snapshot " // trim(rname) // " file does not exist!" iret = 1 end if !------------------------------------------------------------------------------- ! end subroutine read_snapshot_parameter_string_h5 ! !=============================================================================== ! ! subroutine READ_SNAPSHOT_PARAMETER_INTEGER_H5: ! --------------------------------------------- ! ! Subroutine reads an integer parameter from the restart snapshot. ! ! Arguments: ! ! pname - the parameter name; ! pvalue - the parameter value; ! iret - the success flag (the success is 0, failure otherwise); ! !=============================================================================== ! subroutine read_snapshot_parameter_integer_h5(pname, pvalue, iret) ! import external procedures ! use hdf5 , only : hid_t use hdf5 , only : H5F_ACC_RDONLY_F use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t, size_t use hdf5 , only : h5fopen_f, h5fclose_f use hdf5 , only : h5gopen_f, h5gclose_f use hdf5 , only : h5aexists_by_name_f use hdf5 , only : h5aopen_by_name_f, h5aread_f, h5aclose_f use iso_fortran_env, only : error_unit use mpitools , only : nproc use parameters , only : get_parameter ! local variables are not implicit by default ! implicit none ! subroutine arguments ! character(len=*), intent(in) :: pname integer , intent(inout) :: pvalue integer , intent(inout) :: iret ! local variables ! logical :: info character(len=255) :: rname integer :: np integer(hid_t) :: fid, gid, aid integer(size_t) :: aln integer(hsize_t) :: am(1) = 1 ! local parameters ! character(len=*), parameter :: loc = & 'IO::read_snapshot_parameter_integer_h5()' ! !------------------------------------------------------------------------------- ! ! reset the success flag ! iret = 0 ! generate the filename of the restart snapshot ! info = .false. np = nproc + 1 do while (.not. info .and. np >= 0) np = np - 1 write (rname, "(a,'r',i6.6,'_',i5.5,'.h5')") trim(respath), nrest, np inquire(file = rname, exist = info) end do ! procees if file exists ! if (info) then call h5fopen_f(rname, H5F_ACC_RDONLY_F, fid, iret) if (iret >= 0) then call h5gopen_f(fid, 'attributes', gid, iret) if (iret >= 0) then call h5aexists_by_name_f(gid, '.', trim(pname), info, iret) if (info .and. iret >= 0) then call h5aopen_by_name_f(gid, '.', trim(pname), aid, iret) if (iret >= 0) then call h5aread_f(aid, H5T_NATIVE_INTEGER, pvalue, am(:), iret) call h5aclose_f(aid, iret) end if end if call h5gclose_f(gid, iret) end if call h5fclose_f(fid, iret) end if else write(error_unit,"('[', a, ']: ', a)") trim(loc) & , "Snapshot " // trim(rname) // " file does not exist!" iret = 1 end if !------------------------------------------------------------------------------- ! end subroutine read_snapshot_parameter_integer_h5 ! !=============================================================================== ! ! subroutine READ_SNAPSHOT_PARAMETER_INTEGER_VECTOR_H5: ! ---------------------------------------------------- ! ! Subroutine reads an integer vector parameter from the restart snapshot. ! ! Arguments: ! ! pname - the parameter name; ! pvalue - the parameter value; ! iret - the success flag (the success is 0, failure otherwise); ! !=============================================================================== ! subroutine read_snapshot_parameter_integer_vector_h5(pname, pvalue, iret) ! import external procedures ! use hdf5 , only : hid_t use hdf5 , only : H5F_ACC_RDONLY_F use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t, size_t use hdf5 , only : h5fopen_f, h5fclose_f use hdf5 , only : h5gopen_f, h5gclose_f use hdf5 , only : h5aexists_by_name_f use hdf5 , only : h5aopen_by_name_f, h5aread_f, h5aclose_f use iso_fortran_env, only : error_unit use mpitools , only : nproc use parameters , only : get_parameter ! local variables are not implicit by default ! implicit none ! subroutine arguments ! character(len=*) , intent(in) :: pname integer, dimension(:), intent(inout) :: pvalue integer , intent(inout) :: iret ! local variables ! logical :: info character(len=255) :: rname integer :: np integer(hid_t) :: fid, gid, aid integer(size_t) :: aln integer(hsize_t) :: am(1) = 1 ! local parameters ! character(len=*), parameter :: loc = & 'IO::read_snapshot_parameter_integer_vector_h5()' ! !------------------------------------------------------------------------------- ! ! reset the success flag ! iret = 0 ! generate the filename of the restart snapshot ! info = .false. np = nproc + 1 do while (.not. info .and. np >= 0) np = np - 1 write (rname, "(a,'r',i6.6,'_',i5.5,'.h5')") trim(respath), nrest, np inquire(file = rname, exist = info) end do ! procees if file exists ! if (info) then call h5fopen_f(rname, H5F_ACC_RDONLY_F, fid, iret) if (iret >= 0) then call h5gopen_f(fid, 'attributes', gid, iret) if (iret >= 0) then call h5aexists_by_name_f(gid, '.', trim(pname), info, iret) if (info .and. iret >= 0) then call h5aopen_by_name_f(gid, '.', trim(pname), aid, iret) if (iret >= 0) then am(1) = size(pvalue) call h5aread_f(aid, H5T_NATIVE_INTEGER, pvalue, am(:), iret) call h5aclose_f(aid, iret) end if end if call h5gclose_f(gid, iret) end if call h5fclose_f(fid, iret) end if else write(error_unit,"('[', a, ']: ', a)") trim(loc) & , "Snapshot " // trim(rname) // " file does not exist!" iret = 1 end if !------------------------------------------------------------------------------- ! end subroutine read_snapshot_parameter_integer_vector_h5 ! !=============================================================================== ! ! subroutine READ_SNAPSHOT_PARAMETER_DOUBLE_H5: ! -------------------------------------------- ! ! Subroutine reads a double precision real parameter from the restart ! snapshot. ! ! Arguments: ! ! pname - the parameter name; ! pvalue - the parameter value; ! iret - the success flag (the success is 0, failure otherwise); ! !=============================================================================== ! subroutine read_snapshot_parameter_double_h5(pname, pvalue, iret) ! import external procedures ! use hdf5 , only : hid_t use hdf5 , only : H5F_ACC_RDONLY_F use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t, size_t use hdf5 , only : h5fopen_f, h5fclose_f use hdf5 , only : h5gopen_f, h5gclose_f use hdf5 , only : h5aexists_by_name_f use hdf5 , only : h5aopen_by_name_f, h5aread_f, h5aclose_f use iso_fortran_env, only : error_unit use mpitools , only : nproc use parameters , only : get_parameter ! local variables are not implicit by default ! implicit none ! subroutine arguments ! character(len=*), intent(in) :: pname real(kind=8) , intent(inout) :: pvalue integer , intent(inout) :: iret ! local variables ! logical :: info character(len=255) :: rname integer :: np integer(hid_t) :: fid, gid, aid integer(size_t) :: aln integer(hsize_t) :: am(1) = 1 ! local parameters ! character(len=*), parameter :: loc = & 'IO::read_snapshot_parameter_double_h5()' ! !------------------------------------------------------------------------------- ! ! reset the success flag ! iret = 0 ! generate the filename of the restart snapshot ! info = .false. np = nproc + 1 do while (.not. info .and. np >= 0) np = np - 1 write (rname, "(a,'r',i6.6,'_',i5.5,'.h5')") trim(respath), nrest, np inquire(file = rname, exist = info) end do ! procees if file exists ! if (info) then call h5fopen_f(rname, H5F_ACC_RDONLY_F, fid, iret) if (iret >= 0) then call h5gopen_f(fid, 'attributes', gid, iret) if (iret >= 0) then call h5aexists_by_name_f(gid, '.', trim(pname), info, iret) if (info .and. iret >= 0) then call h5aopen_by_name_f(gid, '.', trim(pname), aid, iret) if (iret >= 0) then call h5aread_f(aid, H5T_NATIVE_DOUBLE, pvalue, am(:), iret) call h5aclose_f(aid, iret) end if end if call h5gclose_f(gid, iret) end if call h5fclose_f(fid, iret) end if else write(error_unit,"('[', a, ']: ', a)") trim(loc) & , "Snapshot " // trim(rname) // " file does not exist!" iret = 1 end if !------------------------------------------------------------------------------- ! end subroutine read_snapshot_parameter_double_h5 ! !=============================================================================== ! ! subroutine READ_RESTART_SNAPSHOT_H5: ! ----------------------------------- ! ! Subroutine reads restart snapshot, i.e. parameters, meta and data blocks ! stored in the HDF5 format restart files and reconstructs the data structure ! in order to resume a terminated job. ! ! Arguments: ! ! iret - the return flag to inform if subroutine succeeded or failed; ! !=============================================================================== ! subroutine read_restart_snapshot_h5(iret) ! import external procedures and variables ! use blocks , only : change_blocks_process use forcing , only : einj use hdf5 , only : hid_t use hdf5 , only : H5F_ACC_RDONLY_F use hdf5 , only : h5fis_hdf5_f, h5fopen_f, h5fclose_f use hdf5 , only : h5gopen_f, h5gclose_f use iso_fortran_env, only : error_unit #ifdef MPI use mesh , only : redistribute_blocks #endif /* MPI */ use mpitools , only : nprocs, npmax, nproc ! local variables are not implicit by default ! implicit none ! input and output arguments ! integer, intent(out) :: iret ! local variables ! character(len=255) :: fl, msg integer(hid_t) :: fid, gid integer :: err, lfile logical :: info real(kind=8) :: deinj ! local parameters ! character(len=*), parameter :: loc = 'IO::read_restart_snapshot_h5()' ! !------------------------------------------------------------------------------- ! ! initialize success flag ! iret = 0 !! 1. RESTORE PARAMETERS AND META BLOCKS FROM THE FIRST FILE !! ! prepare the filename using the current process number; in case the file does ! not exist decrease it until the file corresponding to lower process number ! is found; ! write (fl, "(a,'r',i6.6,'_',i5.5,'.h5')") trim(respath), nrest, 0 inquire(file = fl, exist = info) ! quit, if file does not exist ! if (.not. info) then iret = 121 msg = "File " // trim(fl) // " does not exist!" else ! file does exist ! check if this file is in the HDF5 format ! call h5fis_hdf5_f(fl, info, err) ! quit, if the format verification failed or file is not in HDF5 format ! if (err < 0 .or. .not. info) then iret = 122 if (err < 0) msg = "Cannot check the file format!" if (.not. info) msg = "File " // trim(fl) // " is not an HDF5 file!" else ! file is HDF5 ! open the HDF5 file ! call h5fopen_f(fl, H5F_ACC_RDONLY_F, fid, err) ! quit, if file could not be opened ! if (err < 0) then iret = 123 msg = "Cannot open file: " // trim(fl) else ! file is opened ! read global attributes ! call read_attributes_h5(fid) ! read meta blocks and recreate the meta block hierarchy ! call read_metablocks_h5(fid) ! close the file ! call h5fclose_f(fid, err) ! quit, if file could not be closed ! if (err > 0) then iret = 124 msg = "Cannot close file: " // trim(fl) end if end if ! file is opened end if ! file is HDF5 end if ! file does exist !! 1. RESTORE DATA BLOCKS !! ! separate data blocks reading into two cases, when the number of processors is ! larger or equal to the number of files, and when we have less processors than ! files ! ! first, read data blocks to processes which have corresponding restart file ! if (nproc < nfiles) then ! prepare the filename ! write (fl, "(a,'r',i6.6,'_',i5.5,'.h5')") trim(respath), nrest, nproc ! check if the HDF5 file exists ! inquire(file = fl, exist = info) ! quit, if file does not exist ! if (.not. info) then iret = 121 msg = "File " // trim(fl) // " does not exist!" else ! file does exist ! check if this file is in the HDF5 format ! call h5fis_hdf5_f(fl, info, err) ! quit, if the format verification failed or file is not in HDF5 format ! if (err < 0 .or. .not. info) then iret = 122 if (err < 0) msg = "Cannot check the file format!" if (.not. info) msg = "File " // trim(fl) // " is not an HDF5 file!" else ! file is HDF5 ! open the HDF5 file ! call h5fopen_f(fl, H5F_ACC_RDONLY_F, fid, err) ! quit, if file could not be opened ! if (err < 0) then iret = 123 msg = "Cannot open file: " // trim(fl) else ! file is opened ! restore injected energy ! call h5gopen_f(fid, 'attributes', gid, err) if (err >= 0) then call read_attribute(gid, 'einj', einj) call h5gclose_f(gid, err) if (err /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the group!" end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open the group!" end if ! read data blocks ! call read_datablocks_h5(fid) ! close the file ! call h5fclose_f(fid, err) ! quit, if file could not be closed ! if (err > 0) then iret = 124 msg = "Cannot close file: " // trim(fl) end if end if ! file is opened end if ! file is HDF5 end if ! file exists end if ! nproc < nfiles ! if there are more files than processes, read the remaining files by ! the last process and redistribute blocks after each processed file, ! otherwise only redistribute blocks ! if (nprocs < nfiles) then ! iterate over remaining files and read one by one to the last block ! do lfile = nprocs, nfiles - 1 ! switch meta blocks from the read file to belong to the reading process ! call change_blocks_process(lfile, npmax) ! read the remaining files by the last process only ! if (nproc == npmax) then ! prepare the filename ! write (fl, "(a,'r',i6.6,'_',i5.5,'.h5')") trim(respath), nrest, lfile ! check if the HDF5 file exists ! inquire(file = fl, exist = info) ! quit, if file does not exist ! if (.not. info) then iret = 121 msg = "File " // trim(fl) // " does not exist!" else ! file does exist ! check if this file is in the HDF5 format ! call h5fis_hdf5_f(fl, info, err) ! quit, if the format verification failed or file is not in HDF5 format ! if (err < 0 .or. .not. info) then iret = 122 if (err < 0) msg = "Cannot check the file format!" if (.not. info) msg = "File " // trim(fl) // & " is not an HDF5 file!" else ! file is HDF5 ! open the HDF5 file ! call h5fopen_f(fl, H5F_ACC_RDONLY_F, fid, err) ! quit, if file could not be opened ! if (err < 0) then iret = 123 msg = "Cannot open file: " // trim(fl) else ! file is opened ! restore injected energy ! call h5gopen_f(fid, 'attributes', gid, err) if (err >= 0) then call read_attribute(gid, 'einj', deinj) einj = einj + deinj call h5gclose_f(gid, err) if (err /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the group!" end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open the group!" end if ! read data blocks ! call read_datablocks_h5(fid) ! close the file ! call h5fclose_f(fid, err) ! quit, if file could not be closed ! if (err > 0) then iret = 124 msg = "Cannot close file: " // trim(fl) end if end if ! file is opened end if ! file is HDF5 end if ! file exists end if ! nproc == npmax #ifdef MPI ! redistribute blocks between processors ! call redistribute_blocks() #endif /* MPI */ end do ! lfile = nprocs, nfiles - 1 else ! nprocs < nfiles #ifdef MPI ! redistribute blocks between processors ! call redistribute_blocks() #endif /* MPI */ end if ! nprocs < nfiles ! deallocate the array of block pointers ! if (allocated(block_array)) deallocate(block_array) ! if there was any problem, print the message ! if (iret > 0) write(error_unit,"('[',a,']: ',a)") trim(loc), trim(msg) !------------------------------------------------------------------------------- ! end subroutine read_restart_snapshot_h5 ! !=============================================================================== ! ! subroutine WRITE_RESTART_SNAPSHOT_H5: ! ------------------------------------ ! ! Subroutine writes restart snapshot, i.e. parameters, meta and data blocks ! to the HDF5 format restart files in order to resume a terminated job later. ! ! Arguments: ! ! nrun - the snapshot number; ! iret - the return flag to inform if subroutine succeeded or failed; ! !=============================================================================== ! subroutine write_restart_snapshot_h5(nrun, iret) ! import external procedures and variables ! use hdf5 , only : hid_t use hdf5 , only : H5F_ACC_TRUNC_F, H5F_SCOPE_GLOBAL_F use hdf5 , only : h5fcreate_f, h5fflush_f, h5fclose_f use iso_fortran_env, only : error_unit use mpitools , only : nproc ! local variables are not implicit by default ! implicit none ! input and output arguments ! integer, intent(in) :: nrun integer, intent(out) :: iret ! local variables ! character(len=64) :: fl integer(hid_t) :: fid integer :: err ! local parameters ! character(len=*), parameter :: loc = 'IO::write_restart_snapshot_h5()' ! !------------------------------------------------------------------------------- ! ! prepare the restart snapshot filename ! write (fl, "('r',i6.6,'_',i5.5,'.h5')") nrun, nproc ! create the new HDF5 file to store the snapshot ! call h5fcreate_f(fl, H5F_ACC_TRUNC_F, fid, err) ! if the file could not be created, print message and quit ! if (err < 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create file: " // trim(fl) iret = 201 return end if ! write the global attributes ! call write_attributes_h5(fid) ! write all metablocks which represent the internal structure of domain ! call write_metablocks_h5(fid) ! write all datablocks which represent the all variables ! call write_datablocks_h5(fid) ! flush the file ! call h5fflush_f(fid, H5F_SCOPE_GLOBAL_F, err) ! close the file ! call h5fclose_f(fid, err) ! if the file could not be closed print message and quit ! if (err > 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close file: " // trim(fl) iret = 203 return end if !------------------------------------------------------------------------------- ! end subroutine write_restart_snapshot_h5 ! !=============================================================================== ! ! subroutine WRITE_SNAPSHOT_H5: ! ---------------------------- ! ! Subroutine writes the current simulation snapshot, i.e. parameters, ! coordinates and variables to the HDF5 format files for further processing. ! ! !=============================================================================== ! subroutine write_snapshot_h5() ! import external procedures and variables ! use hdf5 , only : hid_t use hdf5 , only : H5F_ACC_TRUNC_F, H5F_SCOPE_GLOBAL_F use hdf5 , only : h5fcreate_f, h5fflush_f, h5fclose_f use iso_fortran_env, only : error_unit use mpitools , only : nproc ! local variables are not implicit by default ! implicit none ! local variables ! character(len=64) :: fl integer(hid_t) :: fid integer :: err ! local parameters ! character(len=*), parameter :: loc = 'IO::write_snapshot_h5()' ! !------------------------------------------------------------------------------- ! ! prepare the restart snapshot filename ! write (fl, "(a1,i6.6,'_',i5.5,'.h5')") ftype, isnap, nproc ! create the new HDF5 file to store the snapshot ! call h5fcreate_f(fl, H5F_ACC_TRUNC_F, fid, err) ! if the file could not be created, print message and quit ! if (err < 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create file: " // trim(fl) return end if ! write the global attributes ! call write_attributes_h5(fid) ! write the coordinates (data block bounds, refinement levels, etc.) ! call write_coordinates_h5(fid) ! depending on the selected type of output file write the right groups ! select case(ftype) case('c') ! write the variables stored in data blocks (leafs) ! call write_conservative_variables_h5(fid) case('p') ! write the variables stored in data blocks (leafs) ! call write_primitive_variables_h5(fid) case default ! print information about unsupported file format and quit ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "File type is not suppoerted!" call h5fclose_f(fid, err) return end select ! flush the file ! call h5fflush_f(fid, H5F_SCOPE_GLOBAL_F, err) ! close the file ! call h5fclose_f(fid, err) ! if the file could not be closed print message and quit ! if (err > 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close file: " // trim(fl) return end if !------------------------------------------------------------------------------- ! end subroutine write_snapshot_h5 ! !=============================================================================== ! ! subroutine WRITE_ATTRIBUTES_H5: ! ------------------------------ ! ! Subroutine stores global attributes in the HDF5 file provided by an ! identifier. ! ! Arguments: ! ! fid - the HDF5 file identifier; ! !=============================================================================== ! subroutine write_attributes_h5(fid) ! import external procedures and variables ! use blocks , only : get_mblocks, get_dblocks, get_nleafs use blocks , only : get_last_id use coordinates , only : minlev, maxlev use coordinates , only : ncells, nghosts use coordinates , only : bdims => domain_base_dims use coordinates , only : xmin, xmax, ymin, ymax, zmin, zmax use coordinates , only : periodic use equations , only : eqsys, eos, gamma, csnd use evolution , only : step, time, dt, dtn use forcing , only : nmodes, einj, fcoefs use hdf5 , only : hid_t use hdf5 , only : h5gcreate_f, h5gclose_f use iso_fortran_env, only : error_unit use mpitools , only : nprocs, nproc use problems , only : problem_name use random , only : nseeds, get_seeds ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t), intent(in) :: fid ! local variables ! integer(hid_t) :: gid integer :: err ! local vectors ! integer, dimension(3) :: dims = 1 integer, dimension(3) :: per ! local allocatable arrays ! integer(kind=8), dimension(:,:), allocatable :: seeds ! local parameters ! character(len=*), parameter :: loc = 'IO::write_attributes_h5()' ! !------------------------------------------------------------------------------- ! ! store the code name in order to determine the format of data ! call write_attribute(fid, 'code' , 'AMUN') call write_attribute(fid, 'version', 'v1.0') ! create a group to store the global attributes ! call h5gcreate_f(fid, 'attributes', gid, err) ! check if the group has been created successfuly ! if (err < 0) then ! print error about the problem with creating the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create the group!" ! return from the subroutine ! return end if ! convert periodic(:) to an integer vector ! per(:) = merge(1, 0, periodic(:)) ! store string attributes ! call write_attribute(gid, 'problem', problem_name ) call write_attribute(gid, 'eqsys' , eqsys ) call write_attribute(gid, 'eos' , eos ) ! store the integer attributes ! call write_attribute(gid, 'ndims' , NDIMS ) call write_attribute(gid, 'last_id' , get_last_id()) call write_attribute(gid, 'mblocks' , get_mblocks()) call write_attribute(gid, 'dblocks' , get_dblocks()) call write_attribute(gid, 'nleafs' , get_nleafs() ) call write_attribute(gid, 'ncells' , ncells ) call write_attribute(gid, 'nghosts' , nghosts ) call write_attribute(gid, 'minlev' , minlev ) call write_attribute(gid, 'maxlev' , maxlev ) call write_attribute(gid, 'nprocs' , nprocs ) call write_attribute(gid, 'nproc' , nproc ) call write_attribute(gid, 'nseeds' , nseeds ) call write_attribute(gid, 'step' , step ) call write_attribute(gid, 'isnap' , isnap ) call write_attribute(gid, 'periodic', per(:) ) ! store the real attributes ! call write_attribute(gid, 'xmin', xmin) call write_attribute(gid, 'xmax', xmax) call write_attribute(gid, 'ymin', ymin) call write_attribute(gid, 'ymax', ymax) call write_attribute(gid, 'zmin', zmin) call write_attribute(gid, 'zmax', zmax) call write_attribute(gid, 'time', time) call write_attribute(gid, 'dt' , dt ) call write_attribute(gid, 'dtn' , dtn ) if (eos == 'adi') then call write_attribute(gid, 'gamma', gamma) end if if (eos == 'iso') then call write_attribute(gid, 'csnd' , csnd ) end if ! store the vector attributes ! dims(1:NDIMS) = ncells call write_attribute(gid, 'dims' , dims) call write_attribute(gid, 'bdims' , bdims) call write_attribute(gid, 'xblocks', bdims(1)) call write_attribute(gid, 'yblocks', bdims(2)) call write_attribute(gid, 'zblocks', bdims(3)) ! store forcing parameters ! call write_attribute(gid, 'nmodes', nmodes) call write_attribute(gid, 'einj' , einj) if (nmodes > 0) then call write_attribute(gid, 'fcoefs', fcoefs) end if ! store random number generator seed values ! if (nseeds > 0) then ! allocate space for seeds ! allocate(seeds(4,nseeds)) ! get the seed values ! call get_seeds(seeds(:,:)) ! store them in the current group ! call write_attribute(gid, 'seeds', seeds(:,:)) ! deallocate seed array ! deallocate(seeds) end if ! nseeds > 0 ! close the group ! call h5gclose_f(gid, err) ! check if the group has been closed successfuly ! if (err < 0) then ! print error about the problem with closing the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the group!" end if !------------------------------------------------------------------------------- ! end subroutine write_attributes_h5 ! !=============================================================================== ! ! subroutine READ_ATTRIBUTES_H5: ! ----------------------------- ! ! Subroutine restores global attributes from an HDF5 file provided by its ! identifier. ! ! Arguments: ! ! fid - the HDF5 file identifier; ! !=============================================================================== ! subroutine read_attributes_h5(fid) ! import external procedures and variables ! use blocks , only : block_meta use blocks , only : append_metablock use blocks , only : set_last_id, get_last_id use blocks , only : get_mblocks, get_dblocks, get_nleafs use coordinates , only : ncells, nghosts use coordinates , only : xmin, xmax, ymin, ymax, zmin, zmax use evolution , only : step, time, dt, dtn use forcing , only : nmodes, fcoefs use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5gopen_f, h5gclose_f use iso_fortran_env, only : error_unit use mpitools , only : nprocs, nproc use random , only : nseeds, set_seeds, gentype ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t), intent(in) :: fid ! local variables ! integer(hid_t) :: gid integer :: ierr, l integer :: lndims, lmblocks, lnleafs, llast_id integer :: lncells, lnproc, lnseeds, lnmodes integer :: status ! local pointers ! type(block_meta), pointer :: pmeta ! allocatable arrays ! integer(kind=8), dimension(:,:), allocatable :: seeds ! local parameters ! character(len=*), parameter :: loc = 'IO::read_attributes_h5()' ! !------------------------------------------------------------------------------- ! ! open the global attributes group ! call h5gopen_f(fid, 'attributes', gid, ierr) ! check if the group has been opened successfuly ! if (ierr < 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open the group!" return end if ! restore integer attributes ! call read_attribute(gid, 'ndims' , lndims ) call read_attribute(gid, 'nprocs' , nfiles ) call read_attribute(gid, 'nproc' , lnproc ) call read_attribute(gid, 'mblocks', lmblocks) call read_attribute(gid, 'nleafs' , lnleafs ) call read_attribute(gid, 'last_id', llast_id) call read_attribute(gid, 'ncells' , lncells ) call read_attribute(gid, 'nseeds' , lnseeds ) call read_attribute(gid, 'step' , step ) call read_attribute(gid, 'isnap' , isnap ) ! restore double precision attributes ! call read_attribute(gid, 'xmin', xmin) call read_attribute(gid, 'xmax', xmax) call read_attribute(gid, 'ymin', ymin) call read_attribute(gid, 'ymax', ymax) call read_attribute(gid, 'zmin', zmin) call read_attribute(gid, 'zmax', zmax) call read_attribute(gid, 'time', time) call read_attribute(gid, 'dt' , dt ) call read_attribute(gid, 'dtn' , dtn ) ! check the number of dimensions ! if (lndims /= NDIMS) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "The number of dimensions does not match!" return end if ! check the block dimensions ! if (lncells /= ncells) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "The block dimensions do not match!" end if ! restore forcing coefficients ! call read_attribute(gid, 'nmodes', lnmodes) if (lnmodes == nmodes .and. lnmodes > 0) then call read_attribute(gid, 'fcoefs', fcoefs) else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "The number of driving modes does not match!" end if ! restore seeds ! if (trim(gentype) == "same") then allocate(seeds(4,0:lnseeds-1)) call read_attribute(gid, 'seeds', seeds(:,:)) call set_seeds(lnseeds, seeds(:,:), .false.) deallocate(seeds) end if ! allocate all metablocks ! do l = 1, lmblocks call append_metablock(pmeta, status) end do ! check if the number of created metablocks is equal to lbmcloks ! if (lmblocks /= get_mblocks()) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Number of metablocks does not match!" end if ! allocate an array of pointers with the size llast_id ! allocate(block_array(llast_id)) ! set the last_id ! call set_last_id(llast_id) ! close the group ! call h5gclose_f(gid, ierr) ! check if the group has been closed successfuly ! if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the group!" end if !------------------------------------------------------------------------------- ! end subroutine read_attributes_h5 ! !=============================================================================== ! ! subroutine WRITE_METABLOCKS_H5: ! ------------------------------ ! ! Subroutine stores all meta blocks with their complete fields in 'metablock' ! group in a provided file identifier. ! ! Arguments: ! ! fid - the HDF5 file identifier; ! !=============================================================================== ! subroutine write_metablocks_h5(fid) ! import procedures and variables from other modules ! use blocks , only : block_meta, list_meta use blocks , only : ndims, nchildren, nsides use blocks , only : get_last_id, get_mblocks use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5gcreate_f, h5gclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t), intent(in) :: fid ! local variables ! integer(hid_t) :: gid integer(kind=4) :: i, j, k, l, n, p integer :: iret integer(hsize_t), dimension(1) :: am, cm integer(hsize_t), dimension(2) :: dm, pm #if NDIMS == 2 integer(hsize_t), dimension(4) :: nm #endif /* NDIMS == 2 */ #if NDIMS == 3 integer(hsize_t), dimension(5) :: nm #endif /* NDIMS == 3 */ ! local allocatable arrays ! integer(kind=4), dimension(:) , allocatable :: idx integer(kind=4), dimension(:) , allocatable :: par, dat integer(kind=4), dimension(:) , allocatable :: id, cpu, lev, cfg, ref, lea real (kind=8), dimension(:) , allocatable :: xmn, xmx, ymn, ymx, zmn, zmx integer(kind=4), dimension(:,:), allocatable :: chl, pos, cor #if NDIMS == 2 integer(kind=4), dimension(:,:,:,:) , allocatable :: edges integer(kind=4), dimension(:,:,:) , allocatable :: corners #endif /* NDIMS == 2 */ #if NDIMS == 3 integer(kind=4), dimension(:,:,:,:,:), allocatable :: faces integer(kind=4), dimension(:,:,:,:,:), allocatable :: edges integer(kind=4), dimension(:,:,:,:) , allocatable :: corners #endif /* NDIMS == 3 */ ! local pointers ! type(block_meta), pointer :: pmeta ! local parameters ! character(len=*), parameter :: loc = 'IO::write_metablocks_h5()' ! !------------------------------------------------------------------------------- ! ! create the group for metadata ! call h5gcreate_f(fid, 'metablocks', gid, iret) ! check if the group has been created successfuly ! if (iret >= 0) then ! prepate dimensions ! am(1) = get_mblocks() cm(1) = get_last_id() dm(1) = get_mblocks() dm(2) = nchildren pm(1) = get_mblocks() pm(2) = NDIMS nm(1) = get_mblocks() nm(2) = nsides nm(3) = nsides #if NDIMS == 2 nm(4) = ndims #endif /* NDIMS == 2 */ #if NDIMS == 3 nm(4) = nsides nm(5) = ndims #endif /* NDIMS == 3 */ ! only store data from processes that have any meta blocks ! if (am(1) > 0) then ! allocate arrays to store meta block fields ! allocate(idx(cm(1))) allocate(par(am(1))) allocate(dat(am(1))) allocate(id (am(1))) allocate(cpu(am(1))) allocate(lev(am(1))) allocate(cfg(am(1))) allocate(ref(am(1))) allocate(lea(am(1))) allocate(xmn(am(1))) allocate(xmx(am(1))) allocate(ymn(am(1))) allocate(ymx(am(1))) allocate(zmn(am(1))) allocate(zmx(am(1))) allocate(chl(dm(1),dm(2))) allocate(pos(pm(1),pm(2))) allocate(cor(pm(1),pm(2))) #if NDIMS == 2 allocate(edges (nm(1),nm(2),nm(3),nm(4))) allocate(corners(nm(1),nm(2),nm(3))) #endif /* NDIMS == 2 */ #if NDIMS == 3 allocate(faces (nm(1),nm(2),nm(3),nm(4),nm(5))) allocate(edges (nm(1),nm(2),nm(3),nm(4),nm(5))) allocate(corners(nm(1),nm(2),nm(3),nm(4))) #endif /* NDIMS == 3 */ ! reset stored arrays ! idx(:) = -1 par(:) = -1 dat(:) = -1 lea(:) = -1 chl(:,:) = -1 #if NDIMS == 2 edges(:,:,:,:) = -1 corners(:,:,:) = -1 #endif /* NDIMS == 2 */ #if NDIMS == 3 faces(:,:,:,:,:) = -1 edges(:,:,:,:,:) = -1 corners(:,:,:,:) = -1 #endif /* NDIMS == 3 */ ! reset the block counter ! l = 0 ! associate pmeta with the first block on the meta block list ! pmeta => list_meta ! iterate over all meta blocks and fill in the arrays for storage ! do while(associated(pmeta)) ! increase the block counter ! l = l + 1 ! store meta block fields ! idx(pmeta%id) = l if (associated(pmeta%parent)) par(l) = pmeta%parent%id if (associated(pmeta%data) ) dat(l) = 1 id (l) = pmeta%id cpu(l) = pmeta%process lev(l) = pmeta%level cfg(l) = pmeta%conf ref(l) = pmeta%refine pos(l,:) = pmeta%pos(:) cor(l,:) = pmeta%coords(:) if (pmeta%leaf) lea(l) = 1 xmn(l) = pmeta%xmin xmx(l) = pmeta%xmax ymn(l) = pmeta%ymin ymx(l) = pmeta%ymax zmn(l) = pmeta%zmin zmx(l) = pmeta%zmax do p = 1, nchildren if (associated(pmeta%child(p)%ptr)) chl(l,p) = pmeta%child(p)%ptr%id end do ! store face, edge and corner neighbor pointers ! #if NDIMS == 2 do i = 1, nsides do j = 1, nsides do n = 1, ndims if (associated(pmeta%edges(i,j,n)%ptr)) & edges(l,i,j,n) = pmeta%edges(i,j,n)%ptr%id end do ! ndims if (associated(pmeta%corners(i,j)%ptr)) & corners(l,i,j) = pmeta%corners(i,j)%ptr%id end do ! i = 1, nsides end do ! j = 1, nsides #endif /* NDIMS == 2 */ #if NDIMS == 3 do i = 1, nsides do j = 1, nsides do k = 1, nsides do n = 1, ndims if (associated(pmeta%faces(i,j,k,n)%ptr)) & faces(l,i,j,k,n) = pmeta%faces(i,j,k,n)%ptr%id if (associated(pmeta%edges(i,j,k,n)%ptr)) & edges(l,i,j,k,n) = pmeta%edges(i,j,k,n)%ptr%id end do ! ndims if (associated(pmeta%corners(i,j,k)%ptr)) & corners(l,i,j,k) = pmeta%corners(i,j,k)%ptr%id end do ! i = 1, nsides end do ! j = 1, nsides end do ! k = 1, nsides #endif /* NDIMS == 3 */ ! associate pmeta with the next block on the list ! pmeta => pmeta%next end do ! over all meta blocks ! store meta block data in the HDF5 file ! call write_array(gid, 'indices', cm(1) , idx) call write_array(gid, 'parent' , am(1) , par) call write_array(gid, 'data' , am(1) , dat) call write_array(gid, 'id' , am(1) , id ) call write_array(gid, 'cpu' , am(1) , cpu) call write_array(gid, 'level' , am(1) , lev) call write_array(gid, 'config' , am(1) , cfg) call write_array(gid, 'refine' , am(1) , ref) call write_array(gid, 'leaf' , am(1) , lea) call write_array(gid, 'xmin' , am(1) , xmn) call write_array(gid, 'xmax' , am(1) , xmx) call write_array(gid, 'ymin' , am(1) , ymn) call write_array(gid, 'ymax' , am(1) , ymx) call write_array(gid, 'zmin' , am(1) , zmn) call write_array(gid, 'zmax' , am(1) , zmx) call write_array(gid, 'child' , dm(:) , chl(:,:)) call write_array(gid, 'pos' , pm(:) , pos(:,:)) call write_array(gid, 'coord' , pm(:) , cor(:,:)) #if NDIMS == 2 call write_array(gid, 'edges' , nm(1:4), edges(:,:,:,:)) call write_array(gid, 'corners', nm(1:3), corners(:,:,:)) #endif /* NDIMS == 2 */ #if NDIMS == 3 call write_array(gid, 'faces' , nm(1:5), faces(:,:,:,:,:)) call write_array(gid, 'edges' , nm(1:5), edges(:,:,:,:,:)) call write_array(gid, 'corners', nm(1:4), corners(:,:,:,:)) #endif /* NDIMS == 3 */ ! deallocate allocated arrays ! if (allocated(idx)) deallocate(idx) if (allocated(par)) deallocate(par) if (allocated(dat)) deallocate(dat) if (allocated(id) ) deallocate(id) if (allocated(cpu)) deallocate(cpu) if (allocated(lev)) deallocate(lev) if (allocated(cfg)) deallocate(cfg) if (allocated(ref)) deallocate(ref) if (allocated(lea)) deallocate(lea) if (allocated(xmn)) deallocate(xmn) if (allocated(xmx)) deallocate(xmx) if (allocated(ymn)) deallocate(ymn) if (allocated(ymx)) deallocate(ymx) if (allocated(zmn)) deallocate(zmn) if (allocated(zmx)) deallocate(zmx) if (allocated(chl)) deallocate(chl) if (allocated(cor)) deallocate(cor) #if NDIMS == 3 if (allocated(faces)) deallocate(faces) #endif /* NDIMS == 3 */ if (allocated(edges)) deallocate(edges) if (allocated(corners)) deallocate(corners) end if ! meta blocks > 0 ! close the group ! call h5gclose_f(gid, iret) ! check if the group has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the group!" end if else ! print error about the problem with creating the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create the group!" end if !------------------------------------------------------------------------------- ! end subroutine write_metablocks_h5 ! !=============================================================================== ! ! subroutine READ_METABLOCKS_H5: ! ----------------------------- ! ! Subroutine restores all meta blocks with their complete fields from ! 'metablock' group in a provided restart file identifier. ! ! Arguments: ! ! fid - the HDF5 file identifier; ! !=============================================================================== ! subroutine read_metablocks_h5(fid) ! import procedures and variables from other modules ! use blocks , only : block_meta, list_meta use blocks , only : ndims, nchildren, nsides use blocks , only : get_mblocks use blocks , only : metablock_set_id, metablock_set_process use blocks , only : metablock_set_refinement use blocks , only : metablock_set_configuration use blocks , only : metablock_set_level, metablock_set_position use blocks , only : metablock_set_coordinates, metablock_set_bounds use blocks , only : metablock_set_leaf use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5gopen_f, h5gclose_f use iso_fortran_env, only : error_unit use mpitools , only : nprocs ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t), intent(in) :: fid ! local variables ! integer(hid_t) :: gid integer(kind=4) :: i, j, k, l, p, n, ip integer :: err integer(hsize_t), dimension(1) :: am integer(hsize_t), dimension(2) :: dm, pm #if NDIMS == 2 integer(hsize_t), dimension(4) :: nm #endif /* NDIMS == 2 */ #if NDIMS == 3 integer(hsize_t), dimension(5) :: nm #endif /* NDIMS == 3 */ ! local allocatable arrays ! integer(kind=4), dimension(:) , allocatable :: idx integer(kind=4), dimension(:) , allocatable :: par, dat integer(kind=4), dimension(:) , allocatable :: id, cpu, lev, cfg, ref, lea real (kind=8), dimension(:) , allocatable :: xmn, xmx, ymn, ymx, zmn, zmx integer(kind=4), dimension(:,:), allocatable :: chl, pos, cor #if NDIMS == 2 integer(kind=4), dimension(:,:,:,:) , allocatable :: edges integer(kind=4), dimension(:,:,:) , allocatable :: corners #endif /* NDIMS == 2 */ #if NDIMS == 3 integer(kind=4), dimension(:,:,:,:,:), allocatable :: faces integer(kind=4), dimension(:,:,:,:,:), allocatable :: edges integer(kind=4), dimension(:,:,:,:) , allocatable :: corners #endif /* NDIMS == 3 */ ! local pointers ! type(block_meta), pointer :: pmeta ! local parameters ! character(len=*), parameter :: loc = 'IO::read_metablocks_h5()' ! !------------------------------------------------------------------------------- ! ! open metablock group ! call h5gopen_f(fid, 'metablocks', gid, err) ! check if the group has been opened successfuly ! if (err >= 0) then ! prepate dimensions ! am(1) = get_mblocks() dm(1) = get_mblocks() dm(2) = nchildren pm(1) = get_mblocks() pm(2) = NDIMS nm(1) = get_mblocks() nm(2) = nsides nm(3) = nsides #if NDIMS == 2 nm(4) = ndims #endif /* NDIMS == 2 */ #if NDIMS == 3 nm(4) = nsides nm(5) = ndims #endif /* NDIMS == 3 */ ! allocate arrays to restore metablocks data ! allocate(id (am(1))) allocate(cpu(am(1))) allocate(lev(am(1))) allocate(par(am(1))) allocate(dat(am(1))) allocate(cfg(am(1))) allocate(ref(am(1))) allocate(lea(am(1))) allocate(xmn(am(1))) allocate(xmx(am(1))) allocate(ymn(am(1))) allocate(ymx(am(1))) allocate(zmn(am(1))) allocate(zmx(am(1))) allocate(chl(dm(1),dm(2))) allocate(pos(pm(1),pm(2))) allocate(cor(pm(1),pm(2))) #if NDIMS == 2 allocate(edges (nm(1),nm(2),nm(3),nm(4))) allocate(corners(nm(1),nm(2),nm(3))) #endif /* NDIMS == 2 */ #if NDIMS == 3 allocate(faces (nm(1),nm(2),nm(3),nm(4),nm(5))) allocate(edges (nm(1),nm(2),nm(3),nm(4),nm(5))) allocate(corners(nm(1),nm(2),nm(3),nm(4))) #endif /* NDIMS == 3 */ ! reset vectors ! par(:) = -1 dat(:) = -1 lea(:) = -1 chl(:,:) = -1 #if NDIMS == 2 edges(:,:,:,:) = -1 corners(:,:,:) = -1 #endif /* NDIMS == 2 */ #if NDIMS == 3 faces(:,:,:,:,:) = -1 edges(:,:,:,:,:) = -1 corners(:,:,:,:) = -1 #endif /* NDIMS == 3 */ ! read metablock fields from the HDF5 file ! call read_array(gid, 'id' , am(:), id (:)) call read_array(gid, 'cpu' , am(:), cpu(:)) call read_array(gid, 'level' , am(:), lev(:)) call read_array(gid, 'config' , am(:), cfg(:)) call read_array(gid, 'refine' , am(:), ref(:)) call read_array(gid, 'leaf' , am(:), lea(:)) call read_array(gid, 'parent' , am(:), par(:)) call read_array(gid, 'xmin' , am(:), xmn(:)) call read_array(gid, 'xmax' , am(:), xmx(:)) call read_array(gid, 'ymin' , am(:), ymn(:)) call read_array(gid, 'ymax' , am(:), ymx(:)) call read_array(gid, 'zmin' , am(:), zmn(:)) call read_array(gid, 'zmax' , am(:), zmx(:)) call read_array(gid, 'pos' , pm(:), pos(:,:)) call read_array(gid, 'coord' , pm(:), cor(:,:)) call read_array(gid, 'child' , dm(:), chl(:,:)) #if NDIMS == 2 call read_array(gid, 'edges' , nm(1:4), edges(:,:,:,:)) call read_array(gid, 'corners', nm(1:3), corners(:,:,:)) #endif /* NDIMS == 2 */ #if NDIMS == 3 call read_array(gid, 'faces' , nm(1:5), faces(:,:,:,:,:)) call read_array(gid, 'edges' , nm(1:5), edges(:,:,:,:,:)) call read_array(gid, 'corners', nm(1:4), corners(:,:,:,:)) #endif /* NDIMS == 3 */ ! reset the block counter ! l = 0 ! associate pmeta with the first block on the meta block list ! pmeta => list_meta ! iterate over all meta blocks and restore their fields ! do while(associated(pmeta)) ! increase the block counter ! l = l + 1 ! restore meta block fields ! block_array(id(l))%ptr => pmeta call metablock_set_id (pmeta, id (l)) call metablock_set_process (pmeta, cpu(l)) call metablock_set_refinement (pmeta, ref(l)) call metablock_set_configuration(pmeta, cfg(l)) call metablock_set_level (pmeta, lev(l)) call metablock_set_position (pmeta, pos(l,1), pos(l,2), pos(l,3)) call metablock_set_coordinates (pmeta, cor(l,1), cor(l,2), cor(l,3)) call metablock_set_bounds (pmeta, xmn(l), xmx(l), ymn(l), ymx(l) & , zmn(l), zmx(l)) if (lea(l) == 1) call metablock_set_leaf(pmeta) ! associate pmeta with the next block on the list ! pmeta => pmeta%next end do ! over all meta blocks ! reset the block counter ! l = 0 ! associate pmeta with the first block on the meta block list ! pmeta => list_meta ! iterate over all meta blocks and restore their pointers ! do while(associated(pmeta)) ! increase the block counter ! l = l + 1 ! restore %parent pointer ! if (par(l) > 0) pmeta%parent => block_array(par(l))%ptr ! restore %child pointers ! do p = 1, nchildren if (chl(l,p) > 0) then pmeta%child(p)%ptr => block_array(chl(l,p))%ptr end if end do ! p = 1, nchildren ! restore %faces, %edges and %corners neighbor pointers ! #if NDIMS == 2 do i = 1, nsides do j = 1, nsides do n = 1, ndims ip = edges(l,i,j,n) if (ip > 0) pmeta%edges(i,j,n)%ptr => block_array(ip)%ptr end do ! n = 1, ndims ip = corners(l,i,j) if (ip > 0) pmeta%corners(i,j)%ptr => block_array(ip)%ptr end do ! i = 1, nsides end do ! j = 1, nsides #endif /* NDIMS == 2 */ #if NDIMS == 3 do i = 1, nsides do j = 1, nsides do k = 1, nsides do n = 1, ndims ip = faces(l,i,j,k,n) if (ip > 0) pmeta%faces(i,j,k,n)%ptr => block_array(ip)%ptr ip = edges(l,i,j,k,n) if (ip > 0) pmeta%edges(i,j,k,n)%ptr => block_array(ip)%ptr end do ! n = 1, ndims ip = corners(l,i,j,k) if (ip > 0) pmeta%corners(i,j,k)%ptr => block_array(ip)%ptr end do ! i = 1, nsides end do ! j = 1, nsides end do ! k = 1, nsides #endif /* NDIMS == 3 */ ! associate pmeta with the next block on the list ! pmeta => pmeta%next end do ! over all meta blocks ! deallocate allocatable arrays ! if (allocated(id) ) deallocate(id ) if (allocated(par)) deallocate(par) if (allocated(dat)) deallocate(dat) if (allocated(cpu)) deallocate(cpu) if (allocated(lev)) deallocate(lev) if (allocated(cfg)) deallocate(cfg) if (allocated(ref)) deallocate(ref) if (allocated(lea)) deallocate(lea) if (allocated(xmn)) deallocate(xmn) if (allocated(xmx)) deallocate(xmx) if (allocated(ymn)) deallocate(ymn) if (allocated(ymx)) deallocate(ymx) if (allocated(zmn)) deallocate(zmn) if (allocated(zmx)) deallocate(zmx) if (allocated(chl)) deallocate(chl) if (allocated(cor)) deallocate(cor) #if NDIMS == 3 if (allocated(faces)) deallocate(faces) #endif /* NDIMS == 3 */ if (allocated(edges)) deallocate(edges) if (allocated(corners)) deallocate(corners) ! close the group ! call h5gclose_f(gid, err) ! check if the group has been closed successfuly ! if (err > 0) then ! print error about the problem with closing the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the metablock group!" end if else ! print error about the problem with opening the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open the metablock group!" end if !------------------------------------------------------------------------------- ! end subroutine read_metablocks_h5 ! !=============================================================================== ! ! subroutine WRITE_DATABLOCKS_H5: ! ------------------------------ ! ! Subroutine writes all data block fields in the new group 'datablocks' ! in the provided handler to the HDF5 file. ! ! Arguments: ! ! fid - the HDF5 file identifier; ! !=============================================================================== ! subroutine write_datablocks_h5(fid) ! import external procedures and variables ! use blocks , only : ndims use blocks , only : block_meta, block_data, list_data use blocks , only : get_dblocks use coordinates , only : nn => bcells use equations , only : nv use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5gcreate_f, h5gclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine variables ! integer(hid_t), intent(in) :: fid ! local pointers ! type(block_meta), pointer :: pmeta type(block_data), pointer :: pdata ! local variables ! character(len=16) :: bname integer(hid_t) :: gid, bid integer(kind=4) :: l integer :: err ! local arrays ! integer(hsize_t), dimension(4) :: dm = 1 ! local parameters ! character(len=*), parameter :: loc = 'IO::write_datablocks_h5()' ! !------------------------------------------------------------------------------- ! ! create a new group for storing data blocks ! call h5gcreate_f(fid, 'datablocks', gid, err) ! check if the group has been created successfuly ! if (err >= 0) then ! store data blocks only if there is at least one belonging to ! the current process ! if (get_dblocks() > 0) then ! prepate the dimensions ! dm(1) = nv dm(2) = nn dm(3) = nn #if NDIMS == 3 dm(4) = nn #endif /* NDIMS == 3 */ ! reset the block counter ! l = 0 ! associate the pointer with the first block in the data block list ! pdata => list_data ! iterate over all data blocks and fill in the arrays id, u, and q ! do while(associated(pdata)) ! increase the block counter ! l = l + 1 ! create name for the current block ! write(bname, "('dblk_', i11.11)") l ! create a group for storing the current data block fields ! call h5gcreate_f(gid, bname, bid, err) ! store the corresponding meta block index ! call write_attribute(bid, 'meta', pdata%meta%id) ! store the primitive and conservative variables ! call write_array(bid, 'pvar' , dm(:), pdata%q (:,:,:,:)) call write_array(bid, 'cvar0', dm(:), pdata%u0(:,:,:,:)) call write_array(bid, 'cvar1', dm(:), pdata%u1(:,:,:,:)) ! close the block group ! call h5gclose_f(bid, err) ! associate the pointer with the next data block on the list ! pdata => pdata%next end do ! data blocks end if ! dblocks > 0 ! close the group ! call h5gclose_f(gid, err) ! check if the group has been closed successfuly ! if (err > 0) then ! print error about the problem with closing the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the group!" end if else ! print error about the problem with creating the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create the group!" end if !------------------------------------------------------------------------------- ! end subroutine write_datablocks_h5 ! !=============================================================================== ! ! subroutine READ_DATABLOCKS_H5: ! ----------------------------- ! ! Subroutine reads all data blocks stored in the group 'datablocks' of ! the provided handler to the HDF5 restart file. ! ! Arguments: ! ! fid - the HDF5 file identifier; ! !=============================================================================== ! subroutine read_datablocks_h5(fid) ! import external procedures and variables ! use blocks , only : block_meta, block_data, list_data use blocks , only : append_datablock, link_blocks use coordinates , only : nn => bcells, ng => nghosts use equations , only : nv use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5gopen_f, h5gclose_f, h5lexists_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine variables ! integer(hid_t), intent(in) :: fid ! local pointers ! type(block_data), pointer :: pdata ! local variables ! logical :: flag character(len=16) :: bname integer(hid_t) :: gid, bid integer(kind=4) :: l, i integer :: dblocks, ncells, nghosts, nc, nb, ne, status ! local arrays ! integer(hsize_t), dimension(5) :: dm = 1 ! local allocatable arrays ! real(kind=8), dimension(:,:,:,:,:), allocatable :: uu ! local parameters ! character(len=*), parameter :: loc = 'IO::read_datablocks_h5()' ! !------------------------------------------------------------------------------- ! ! read the number of data blocks ! call h5gopen_f(fid, 'attributes', gid, status) if (status /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open the attribute group!" return end if call read_attribute(gid, 'dblocks', dblocks) call read_attribute(gid, 'ncells' , ncells ) call read_attribute(gid, 'nghosts', nghosts) call h5gclose_f(gid, status) if (status /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the attribute group!" return end if ! restore data blocks only if there are any ! if (dblocks > 0) then ! open the group 'datablocks' ! call h5gopen_f(fid, 'datablocks', gid, status) if (status /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open the data block group!" else ! prepare the number of cells in the stored blocks and corresponding indices ! nc = ncells + 2 * nghosts if (nghosts >= ng) then nb = 1 + (nghosts - ng) ne = nc - (nghosts - ng) else nb = 1 + (ng - nghosts) ne = nn - (ng - nghosts) end if ! fill out dimensions ! dm(1) = dblocks dm(2) = nv dm(3) = nc dm(4) = nc #if NDIMS == 3 dm(5) = nc #endif /* NDIMS == 3 */ ! allocate arrays for input data ! allocate(uu(3,dm(2),dm(3),dm(4),dm(5)), stat = status) ! check if allocation was successful ! if (status == 0) then ! iterate over data blocks ! do l = 1, dm(1) ! allocate and append to the end of the list a new datablock ! call append_datablock(pdata, status) ! create name for the current block ! write(bname, "('dblk_', i11.11)") l ! open the group for the current block fields ! call h5gopen_f(gid, bname, bid, status) if (status == 0) then ! get the id of the linked meta block ! call read_attribute(bid, 'meta', i) ! associate the corresponding meta block with the current data block ! call link_blocks(block_array(i)%ptr, pdata) ! read the data ! call read_array(bid, 'pvar' , dm(2:5), uu(1,:,:,:,:)) call read_array(bid, 'cvar0', dm(2:5), uu(2,:,:,:,:)) call read_array(bid, 'cvar1', dm(2:5), uu(3,:,:,:,:)) ! fill out the block arrays taking into account the change of nghosts ! if (nghosts >= ng) then #if NDIMS == 3 pdata%q (:,:,:,:) = uu(1,:,nb:ne,nb:ne,nb:ne) pdata%u0(:,:,:,:) = uu(2,:,nb:ne,nb:ne,nb:ne) pdata%u1(:,:,:,:) = uu(3,:,nb:ne,nb:ne,nb:ne) #else /* NDIMS == 3 */ pdata%q (:,:,:,:) = uu(1,:,nb:ne,nb:ne, : ) pdata%u0(:,:,:,:) = uu(2,:,nb:ne,nb:ne, : ) pdata%u1(:,:,:,:) = uu(3,:,nb:ne,nb:ne, : ) #endif /* NDIMS == 3 */ else #if NDIMS == 3 pdata%q (:,nb:ne,nb:ne,nb:ne) = uu(1,:,:,:,:) pdata%u0(:,nb:ne,nb:ne,nb:ne) = uu(2,:,:,:,:) pdata%u1(:,nb:ne,nb:ne,nb:ne) = uu(3,:,:,:,:) #else /* NDIMS == 3 */ pdata%q (:,nb:ne,nb:ne, : ) = uu(1,:,:,:,:) pdata%u0(:,nb:ne,nb:ne, : ) = uu(2,:,:,:,:) pdata%u1(:,nb:ne,nb:ne, : ) = uu(3,:,:,:,:) #endif /* NDIMS == 3 */ end if ! close the current data block group ! call h5gclose_f(bid, status) if (status /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close group '", trim(bname), "'!" end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open group '", trim(bname), "'!" end if end do ! l = 1, dm(1) else ! allocate write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot allocate temporary array!" end if ! allocate ! deallocate allocatable arrays ! if (allocated(uu)) deallocate(uu) ! close the data block group ! call h5gclose_f(gid, status) if (status /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the data block group!" end if end if end if ! dblocks > 0 !------------------------------------------------------------------------------- ! end subroutine read_datablocks_h5 ! !=============================================================================== ! ! write_coordinates_h5: subroutine writes data block coordinates and other ! variables which determine geometrical position of ! the blocks ! ! info: this subroutine stores coordinates ! ! arguments: ! fid - the HDF5 file identifier; ! !=============================================================================== ! subroutine write_coordinates_h5(fid) ! references to other modules ! use blocks , only : block_meta, block_data, list_data use blocks , only : nsides use blocks , only : get_dblocks use coordinates , only : maxlev use coordinates , only : adx, ady, adz use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5gcreate_f, h5gclose_f use iso_fortran_env, only : error_unit ! declare variables ! implicit none ! input variables ! integer(hid_t), intent(in) :: fid ! HDF5 variables ! integer(hid_t) :: gid ! local variables ! integer :: err integer(kind=4) :: l integer(hsize_t) :: am(1), cm(2), rm(2), dm(3) ! local allocatable arrays ! integer(kind=4), dimension(:) , allocatable :: ids, lev, ref integer(kind=4), dimension(:,:) , allocatable :: cor real (kind=8), dimension(:,:,:), allocatable :: bnd ! local pointers ! type(block_data), pointer :: pdata ! local parameters ! character(len=*), parameter :: loc = 'IO::write_coordinates_h5()' ! !------------------------------------------------------------------------------- ! ! create a group to store global attributes ! call h5gcreate_f(fid, 'coordinates', gid, err) ! check if the group has been created successfuly ! if (err .ge. 0) then ! store coordinates only if there are some data blocks on the current processor ! if (get_dblocks() .gt. 0) then ! prepare dimensions ! am(1) = maxlev cm(1) = get_dblocks() cm(2) = NDIMS rm(1) = maxlev rm(2) = NDIMS dm(1) = get_dblocks() dm(2) = NDIMS dm(3) = nsides ! allocate arrays to store coordinates ! allocate(ids(cm(1))) allocate(lev(cm(1))) allocate(ref(cm(1))) allocate(cor(cm(1),cm(2))) allocate(bnd(dm(1),dm(2),dm(3))) ! iterate over all data blocks and fill in the arrays ! l = 1 pdata => list_data do while(associated(pdata)) ! fill in the IDs array ! ids(l) = pdata%meta%id ! fill in the level array ! lev(l) = pdata%meta%level ! fill in the refinement flag ! ref(l) = pdata%meta%refine ! fill in the coordinate array ! cor(l,:) = pdata%meta%coords(:) ! fill in the bounds array ! bnd(l,1,1) = pdata%meta%xmin bnd(l,1,2) = pdata%meta%xmax bnd(l,2,1) = pdata%meta%ymin bnd(l,2,2) = pdata%meta%ymax #if NDIMS == 3 bnd(l,3,1) = pdata%meta%zmin bnd(l,3,2) = pdata%meta%zmax #endif /* NDIMS == 3 */ l = l + 1 pdata => pdata%next end do ! write the arrays to the HDF5 file ! call write_array(gid, 'ids' , cm(1), ids) call write_array(gid, 'levels', cm(1), lev) call write_array(gid, 'refine', cm(1), ref) call write_array(gid, 'coords', cm(:), cor) call write_array(gid, 'bounds', dm(:), bnd) call write_array(gid, 'dx' , am(1), adx(1:maxlev)) call write_array(gid, 'dy' , am(1), ady(1:maxlev)) call write_array(gid, 'dz' , am(1), adz(1:maxlev)) ! deallocate temporary arrays ! if (allocated(ids)) deallocate(ids) if (allocated(lev)) deallocate(lev) if (allocated(ref)) deallocate(ref) if (allocated(cor)) deallocate(cor) if (allocated(bnd)) deallocate(bnd) end if ! dblocks > 0 ! close the attribute group ! call h5gclose_f(gid, err) ! check if the group has been closed successfuly ! if (err .gt. 0) then ! print error about the problem with closing the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the group!" end if else ! print error about the problem with creating the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create the group!" end if !------------------------------------------------------------------------------- ! end subroutine write_coordinates_h5 ! !=============================================================================== ! ! subroutine WRITE_PRIMITIVE_VARIABLES_H5: ! --------------------------------------- ! ! Subroutine groups each primitive variable from all data blocks and writes ! it as an array in the HDF5 dataset connected to the input HDF file ! identifier. ! ! Arguments: ! ! fid - the HDF5 file identifier; ! !=============================================================================== ! subroutine write_primitive_variables_h5(fid) ! references to other modules ! use blocks , only : block_data, list_data use blocks , only : get_dblocks use coordinates , only : ni => ncells, nn => bcells use coordinates , only : nb, ne use equations , only : nv, pvars use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5gcreate_f, h5gclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t), intent(in) :: fid ! HDF5 variables ! integer(hid_t) :: gid integer(hsize_t) :: dm(4) = 1 ! local variables ! integer :: err integer(kind=4) :: i, j, k, l, n integer(kind=4) :: il, jl, kl = 1 integer(kind=4) :: iu, ju, ku = 1 ! local allocatable arrays ! real(kind=8), dimension(:,:,:,:), allocatable :: qarr ! local pointers ! type(block_data), pointer :: pdata ! local parameters ! character(len=*), parameter :: loc = 'IO::write_primitive_variables_h5()' ! !------------------------------------------------------------------------------- ! ! create a group to store variables ! call h5gcreate_f(fid, 'variables', gid, err) ! check if the group was created successfuly ! if (err >= 0) then ! store variables only if there is at least one data block associated with ! the current process ! if (get_dblocks() > 0) then ! prepare dimensions and index limits ! dm(1) = get_dblocks() if (with_ghosts) then dm(2) = nn dm(3) = nn #if NDIMS == 3 dm(4) = nn #endif /* NDIMS == 3 */ il = 1 jl = 1 #if NDIMS == 3 kl = 1 #endif /* NDIMS == 3 */ iu = nn ju = nn #if NDIMS == 3 ku = nn #endif /* NDIMS == 3 */ else dm(2) = ni dm(3) = ni #if NDIMS == 3 dm(4) = ni #endif /* NDIMS == 3 */ il = nb jl = nb #if NDIMS == 3 kl = nb #endif /* NDIMS == 3 */ iu = ne ju = ne #if NDIMS == 3 ku = ne #endif /* NDIMS == 3 */ end if ! allocate array to group a variable from all data blocks ! allocate(qarr(dm(1),dm(2),dm(3),dm(4))) ! iterate over all variables ! do n = 1, nv ! reset the block counter ! l = 0 ! assosiate the block pointer with the first data block on the list ! pdata => list_data ! iterate over all data blocks and copy the variable from each of them to ! the allocate array ! do while(associated(pdata)) ! increase the data block counter ! l = l + 1 ! copy the variable from the current data block ! qarr(l,1:dm(2),1:dm(3),1:dm(4)) = pdata%q(n,il:iu,jl:ju,kl:ku) ! assign the pointer with the next data block on the list ! pdata => pdata%next end do ! pdata=>list_data ! write the variable array to the HDF5 file ! call write_array(gid, trim(pvars(n)), dm, qarr) end do ! n = 1, nv ! deallocate allocatable array ! if (allocated(qarr)) deallocate(qarr) end if ! dblocks > 0 ! close the variable group ! call h5gclose_f(gid, err) ! check if the group has been closed successfuly ! if (err > 0) then ! print error about the problem with closing the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the group!" end if else ! error with creating a group ! print error about the problem with creating the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create the group!" end if !------------------------------------------------------------------------------- ! end subroutine write_primitive_variables_h5 ! !=============================================================================== ! ! subroutine WRITE_CONSERVATIVE_VARIABLES_H5: ! ------------------------------------------ ! ! Subroutine groups each conservative variable from all data blocks and writes ! it as an array in the HDF5 dataset connected to the input HDF file ! identifier. ! ! Arguments: ! ! fid - the HDF5 file identifier; ! !=============================================================================== ! subroutine write_conservative_variables_h5(fid) ! references to other modules ! use blocks , only : block_data, list_data use blocks , only : get_dblocks use coordinates , only : ni => ncells, nn => bcells use coordinates , only : nb, ne use equations , only : nv, cvars use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5gcreate_f, h5gclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t), intent(in) :: fid ! HDF5 variables ! integer(hid_t) :: gid integer(hsize_t) :: dm(4) = 1 ! local variables ! integer :: err integer(kind=4) :: i, j, k, l, n integer(kind=4) :: il, jl, kl = 1 integer(kind=4) :: iu, ju, ku = 1 ! local allocatable arrays ! real(kind=8), dimension(:,:,:,:), allocatable :: qarr ! local pointers ! type(block_data), pointer :: pdata ! local parameters ! character(len=*), parameter :: loc = 'IO::write_conservative_variables_h5()' ! !------------------------------------------------------------------------------- ! ! create a group to store variables ! call h5gcreate_f(fid, 'variables', gid, err) ! check if the group was created successfuly ! if (err >= 0) then ! store variables only if there is at least one data block associated with ! the current process ! if (get_dblocks() > 0) then ! prepare dimensions and index limits ! dm(1) = get_dblocks() if (with_ghosts) then dm(2) = nn dm(3) = nn #if NDIMS == 3 dm(4) = nn #endif /* NDIMS == 3 */ il = 1 jl = 1 #if NDIMS == 3 kl = 1 #endif /* NDIMS == 3 */ iu = nn ju = nn #if NDIMS == 3 ku = nn #endif /* NDIMS == 3 */ else dm(2) = ni dm(3) = ni #if NDIMS == 3 dm(4) = ni #endif /* NDIMS == 3 */ il = nb jl = nb #if NDIMS == 3 kl = nb #endif /* NDIMS == 3 */ iu = ne ju = ne #if NDIMS == 3 ku = ne #endif /* NDIMS == 3 */ end if ! allocate array to group a variable from all data blocks ! allocate(qarr(dm(1),dm(2),dm(3),dm(4))) ! iterate over all variables ! do n = 1, nv ! reset the block counter ! l = 0 ! assosiate the block pointer with the first data block on the list ! pdata => list_data ! iterate over all data blocks and copy the variable from each of them to ! the allocate array ! do while(associated(pdata)) ! increase the data block counter ! l = l + 1 ! copy the variable from the current data block ! qarr(l,1:dm(2),1:dm(3),1:dm(4)) = pdata%u(n,il:iu,jl:ju,kl:ku) ! assign the pointer with the next data block on the list ! pdata => pdata%next end do ! pdata=>list_data ! write the variable array to the HDF5 file ! call write_array(gid, trim(cvars(n)), dm, qarr) end do ! n = 1, nv ! deallocate allocatable array ! if (allocated(qarr)) deallocate(qarr) end if ! dblocks > 0 ! close the variable group ! call h5gclose_f(gid, err) ! check if the group has been closed successfuly ! if (err > 0) then ! print error about the problem with closing the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the group!" end if else ! error with creating a group ! print error about the problem with creating the group ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create the group!" end if !------------------------------------------------------------------------------- ! end subroutine write_conservative_variables_h5 ! !=============================================================================== ! ! WRITE_ATTRIBUTE SUBROUTINES ! !=============================================================================== ! ! subroutine WRITE_SCALAR_ATTRIBUTE_STRING_H5: ! -------------------------------------------- ! ! Subroutine stores a value of the string attribute in the group provided ! by an identifier and the attribute name. ! ! Arguments: ! ! gid - the group identifier to which the attribute should be linked; ! aname - the attribute name; ! avalue - the attribute value; ! !=============================================================================== ! subroutine write_scalar_attribute_string_h5(gid, aname, avalue) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_CHARACTER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5acreate_f, h5awrite_f, h5aclose_f use hdf5 , only : h5tcopy_f, h5tset_size_f, h5tclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*), intent(in) :: aname character(len=*), intent(in) :: avalue ! local variables ! integer(hid_t) :: sid, aid, atype integer(hsize_t) :: alen integer(hsize_t), dimension(1) :: am = (/ 1 /) integer :: ierr ! local parameters ! character(len=*), parameter :: loc = 'IO::write_scalar_attribute_string_h5()' ! !------------------------------------------------------------------------------- ! ! copy the attribute type and set its size ! call h5tcopy_f(H5T_NATIVE_CHARACTER, atype, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot copy type for attribute :" // trim(aname) return end if ! get the string length ! alen = len(trim(avalue)) if (alen <= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "String attribute has wrong length:" // trim(aname) return end if ! set the attribute type size ! call h5tset_size_f(atype, alen, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot set the type size for attribute :" // trim(aname) return end if ! create space for the attribute value ! call h5screate_simple_f(1, am, sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for attribute :" // trim(aname) return end if ! create the attribute in the given group ! call h5acreate_f(gid, aname, atype, sid, aid, ierr) if (ierr == 0) then ! write the attribute data ! call h5awrite_f(aid, atype, trim(avalue), am, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write the attribute data in :" // trim(aname) end if ! close the attribute ! call h5aclose_f(aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close attribute :" // trim(aname) end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create attribute :" // trim(aname) end if ! release the space ! call h5sclose_f(sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for attribute :" // trim(aname) end if !------------------------------------------------------------------------------- ! end subroutine write_scalar_attribute_string_h5 ! !=============================================================================== ! ! subroutine WRITE_SCALAR_ATTRIBUTE_INTEGER_H5: ! -------------------------------------------- ! ! Subroutine stores a value of the integer attribute in the group provided ! by an identifier and the attribute name. ! ! Arguments: ! ! gid - the group identifier to which the attribute should be linked; ! aname - the attribute name; ! avalue - the attribute value; ! !=============================================================================== ! subroutine write_scalar_attribute_integer_h5(gid, aname, avalue) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5acreate_f, h5awrite_f, h5aclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*), intent(in) :: aname integer(kind=4) , intent(in) :: avalue ! local variables ! integer(hid_t) :: sid, aid integer(hsize_t), dimension(1) :: am = (/ 1 /) integer :: ierr ! local parameters ! character(len=*), parameter :: loc = 'IO::write_scalar_attribute_integer_h5()' ! !------------------------------------------------------------------------------- ! ! create space for the attribute value ! call h5screate_simple_f(1, am, sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for attribute :" // trim(aname) return end if ! create the attribute in the given group ! call h5acreate_f(gid, aname, H5T_NATIVE_INTEGER, sid, aid, ierr) if (ierr == 0) then ! write the attribute data ! call h5awrite_f(aid, H5T_NATIVE_INTEGER, avalue, am, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write the attribute data in :" // trim(aname) end if ! close the attribute ! call h5aclose_f(aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close attribute :" // trim(aname) end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create attribute :" // trim(aname) end if ! release the space ! call h5sclose_f(sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for attribute :" // trim(aname) end if !------------------------------------------------------------------------------- ! end subroutine write_scalar_attribute_integer_h5 ! !=============================================================================== ! ! subroutine WRITE_SCALAR_ATTRIBUTE_DOUBLE_H5: ! ------------------------------------------- ! ! Subroutine stores a value of the double precision attribute in the group ! provided by an identifier and the attribute name. ! ! Arguments: ! ! gid - the group identifier to which the attribute should be linked; ! aname - the attribute name; ! avalue - the attribute value; ! !=============================================================================== ! subroutine write_scalar_attribute_double_h5(gid, aname, avalue) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5acreate_f, h5awrite_f, h5aclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! attribute arguments ! integer(hid_t) , intent(in) :: gid character(len=*), intent(in) :: aname real(kind=8) , intent(in) :: avalue ! local variables ! integer(hid_t) :: sid, aid integer(hsize_t), dimension(1) :: am = (/ 1 /) integer :: ierr ! local parameters ! character(len=*), parameter :: loc = 'IO::write_scalar_attribute_double_h5()' ! !------------------------------------------------------------------------------- ! ! create space for the attribute value ! call h5screate_simple_f(1, am, sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for attribute :" // trim(aname) return end if ! create the attribute in the given group ! call h5acreate_f(gid, aname, H5T_NATIVE_DOUBLE, sid, aid, ierr) if (ierr == 0) then ! write the attribute data ! call h5awrite_f(aid, H5T_NATIVE_DOUBLE, avalue, am, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write the attribute data in :" // trim(aname) end if ! close the attribute ! call h5aclose_f(aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close attribute :" // trim(aname) end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create attribute :" // trim(aname) end if ! release the space ! call h5sclose_f(sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for attribute :" // trim(aname) end if !------------------------------------------------------------------------------- ! end subroutine write_scalar_attribute_double_h5 ! !=============================================================================== ! ! subroutine WRITE_VECTOR_ATTRIBUTE_INTEGER_H5: ! -------------------------------------------- ! ! Subroutine stores a vector of the integer attribute in the group provided ! by an identifier and the attribute name. ! ! Arguments: ! ! gid - the group identifier to which the attribute should be linked; ! aname - the attribute name; ! avalue - the attribute values; ! !=============================================================================== ! subroutine write_vector_attribute_integer_h5(gid, aname, avalue) ! import procedures and variables from other modules ! use hdf5 , only : hid_t, hsize_t, H5T_NATIVE_INTEGER use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5acreate_f, h5awrite_f, h5aclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! attribute arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: aname integer(kind=4) , dimension(:), intent(in) :: avalue ! local variables ! integer(hid_t) :: sid, aid integer(hsize_t), dimension(1) :: am = (/ 1 /) integer :: ierr ! local parameters ! character(len=*), parameter :: loc = 'IO::write_vector_attribute_integer_h5()' ! !------------------------------------------------------------------------------- ! ! set the proper attribute length ! am(1) = size(avalue) ! create space for the attribute value ! call h5screate_simple_f(1, am, sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for attribute :" // trim(aname) return end if ! create the attribute in the given group ! call h5acreate_f(gid, aname, H5T_NATIVE_INTEGER, sid, aid, ierr) if (ierr == 0) then ! write the attribute data ! call h5awrite_f(aid, H5T_NATIVE_INTEGER, avalue, am, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write the attribute data in :" // trim(aname) end if ! close the attribute ! call h5aclose_f(aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close attribute :" // trim(aname) end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create attribute :" // trim(aname) end if ! release the space ! call h5sclose_f(sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for attribute :" // trim(aname) end if !------------------------------------------------------------------------------- ! end subroutine write_vector_attribute_integer_h5 ! !=============================================================================== ! ! subroutine WRITE_VECTOR_ATTRIBUTE_DOUBLE_H5: ! ------------------------------------------- ! ! Subroutine stores a vector of the double precision attribute in the group ! provided by an identifier and the attribute name. ! ! Arguments: ! ! gid - the group identifier to which the attribute should be linked; ! aname - the attribute name; ! avalue - the attribute values; ! !=============================================================================== ! subroutine write_vector_attribute_double_h5(gid, aname, avalue) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5acreate_f, h5awrite_f, h5aclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! attribute arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: aname real(kind=8) , dimension(:), intent(in) :: avalue ! local variables ! integer(hid_t) :: sid, aid integer(hsize_t), dimension(1) :: am = (/ 1 /) integer :: ierr ! local parameters ! character(len=*), parameter :: loc = 'IO::write_vector_attribute_double_h5()' ! !------------------------------------------------------------------------------- ! ! set the proper attribute length ! am(1) = size(avalue) ! create space for the attribute value ! call h5screate_simple_f(1, am, sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for attribute :" // trim(aname) return end if ! create the attribute in the given group ! call h5acreate_f(gid, aname, H5T_NATIVE_DOUBLE, sid, aid, ierr) if (ierr == 0) then ! write the attribute data ! call h5awrite_f(aid, H5T_NATIVE_DOUBLE, avalue, am, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write the attribute data in :" // trim(aname) end if ! close the attribute ! call h5aclose_f(aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close attribute :" // trim(aname) end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create attribute :" // trim(aname) end if ! release the space ! call h5sclose_f(sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for attribute :" // trim(aname) end if !------------------------------------------------------------------------------- ! end subroutine write_vector_attribute_double_h5 ! !=============================================================================== ! ! subroutine WRITE_ARRAY_ATTRIBUTE_LONG_H5: ! ---------------------------------------- ! ! Subroutine stores a 2D array of the integer attribute in the group provided ! by an identifier and the attribute name. ! ! Arguments: ! ! gid - the group identifier to which the attribute should be linked; ! aname - the attribute name; ! avalue - the attribute values; ! !=============================================================================== ! subroutine write_array_attribute_long_h5(gid, aname, avalue) ! import procedures and variables from other modules ! use hdf5 , only : hid_t, hsize_t, H5T_STD_I64LE use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5acreate_f, h5awrite_f, h5aclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! attribute arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: aname integer(kind=8) , dimension(:,:), intent(in) :: avalue ! local variables ! integer(hid_t) :: sid, aid integer(hsize_t), dimension(2) :: am = (/ 1, 1 /) integer :: ierr ! local parameters ! character(len=*), parameter :: loc = 'IO::write_array_attribute_long_h5()' ! !------------------------------------------------------------------------------- ! ! set the proper attribute length ! am(1) = size(avalue, 1) am(2) = size(avalue, 2) ! create space for the attribute value ! call h5screate_simple_f(2, am, sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for attribute :" // trim(aname) return end if ! create the attribute in the given group ! call h5acreate_f(gid, aname, H5T_STD_I64LE, sid, aid, ierr) if (ierr == 0) then ! write the attribute data ! call h5awrite_f(aid, H5T_STD_I64LE, avalue, am, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write the attribute data in :" // trim(aname) end if ! close the attribute ! call h5aclose_f(aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close attribute :" // trim(aname) end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create attribute :" // trim(aname) end if ! release the space ! call h5sclose_f(sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for attribute :" // trim(aname) end if !------------------------------------------------------------------------------- ! end subroutine write_array_attribute_long_h5 ! !=============================================================================== ! ! subroutine WRITE_ARRAY_ATTRIBUTE_COMPLEX_H5: ! ------------------------------------------- ! ! Subroutine stores a 2D array of the double precision complex attribute ! in the group provided by an identifier and the attribute name. ! ! Arguments: ! ! gid - the group identifier to which the attribute should be linked; ! aname - the attribute name; ! avalue - the attribute values; ! !=============================================================================== ! subroutine write_array_attribute_complex_h5(gid, aname, avalue) ! import procedures and variables from other modules ! use hdf5 , only : hid_t, hsize_t, H5T_NATIVE_DOUBLE use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5acreate_f, h5awrite_f, h5aclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! attribute arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: aname complex(kind=8) , dimension(:,:), intent(in) :: avalue ! local variables ! integer(hid_t) :: sid, aid integer(hsize_t), dimension(3) :: am = (/ 1, 1, 1 /) integer :: ierr ! allocatable arrays ! real(kind=8), dimension(:,:,:), allocatable :: tvalue ! local parameters ! character(len=*), parameter :: loc = 'IO::write_array_attribute_complex_h5()' ! !------------------------------------------------------------------------------- ! ! set the proper attribute length ! am(1) = 2 am(2) = size(avalue, 1) am(3) = size(avalue, 2) ! create space for the attribute value ! call h5screate_simple_f(3, am, sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for attribute :" // trim(aname) return end if ! allocate space for temporary array and copy the input array values ! allocate(tvalue(am(1),am(2),am(3))) tvalue(1,:,:) = dreal(avalue(:,:)) tvalue(2,:,:) = dimag(avalue(:,:)) ! create the attribute in the given group ! call h5acreate_f(gid, aname, H5T_NATIVE_DOUBLE, sid, aid, ierr) if (ierr == 0) then ! write the attribute data ! call h5awrite_f(aid, H5T_NATIVE_DOUBLE, tvalue, am, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write the attribute data in :" // trim(aname) end if ! close the attribute ! call h5aclose_f(aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close attribute :" // trim(aname) end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create attribute :" // trim(aname) end if ! deallocate temporary array ! deallocate(tvalue) ! release the space ! call h5sclose_f(sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for attribute :" // trim(aname) end if !------------------------------------------------------------------------------- ! end subroutine write_array_attribute_complex_h5 !=============================================================================== ! ! READ_ATTRIBUTE SUBROUTINES ! !=============================================================================== ! ! subroutine READ_SCALAR_ATTRIBUTE_INTEGER_H5: ! ------------------------------------------- ! ! Subroutine reads a value of the integer attribute provided by the group ! identifier to which it is linked and its name. ! ! Arguments: ! ! gid - the group identifier to which the attribute is linked; ! aname - the attribute name; ! avalue - the attribute value; ! !=============================================================================== ! subroutine read_scalar_attribute_integer_h5(gid, aname, avalue) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5aexists_by_name_f use hdf5 , only : h5aopen_by_name_f, h5aread_f, h5aclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! attribute arguments ! integer(hid_t) , intent(in) :: gid character(len=*), intent(in) :: aname integer(kind=4) , intent(inout) :: avalue ! local variables ! logical :: exists = .false. integer(hid_t) :: aid integer(hsize_t), dimension(1) :: am = (/ 1 /) integer :: ierr ! local parameters ! character(len=*), parameter :: loc = 'IO::read_scalar_attribute_integer_h5()' ! !------------------------------------------------------------------------------- ! ! check if the attribute exists in the group provided by gid ! call h5aexists_by_name_f(gid, '.', aname, exists, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot check if attribute exists :" // trim(aname) return end if if (.not. exists) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Attribute does not exist :" // trim(aname) return end if ! open the attribute ! call h5aopen_by_name_f(gid, '.', aname, aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open attribute :" // trim(aname) return end if ! read attribute value ! call h5aread_f(aid, H5T_NATIVE_INTEGER, avalue, am(:), ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read attribute :" // trim(aname) end if ! close the attribute ! call h5aclose_f(aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close attribute :" // trim(aname) return end if !------------------------------------------------------------------------------- ! end subroutine read_scalar_attribute_integer_h5 ! !=============================================================================== ! ! subroutine READ_SCALAR_ATTRIBUTE_DOUBLE_H5: ! ------------------------------------------ ! ! Subroutine reads a value of the double precision attribute provided by ! the group identifier to which it is linked and its name. ! ! Arguments: ! ! gid - the group identifier to which the attribute is linked; ! aname - the attribute name; ! avalue - the attribute value; ! !=============================================================================== ! subroutine read_scalar_attribute_double_h5(gid, aname, avalue) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5aexists_by_name_f use hdf5 , only : h5aopen_by_name_f, h5aread_f, h5aclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! attribute arguments ! integer(hid_t) , intent(in) :: gid character(len=*), intent(in) :: aname real(kind=8) , intent(inout) :: avalue ! local variables ! logical :: exists = .false. integer(hid_t) :: aid integer(hsize_t), dimension(1) :: am = (/ 1 /) integer :: ierr ! local parameters ! character(len=*), parameter :: loc = 'IO::read_scalar_attribute_double_h5()' ! !------------------------------------------------------------------------------- ! ! check if the attribute exists in the group provided by gid ! call h5aexists_by_name_f(gid, '.', aname, exists, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot check if attribute exists :" // trim(aname) return end if if (.not. exists) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Attribute does not exist :" // trim(aname) return end if ! open the attribute ! call h5aopen_by_name_f(gid, '.', aname, aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open attribute :" // trim(aname) return end if ! read attribute value ! call h5aread_f(aid, H5T_NATIVE_DOUBLE, avalue, am(:), ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read attribute :" // trim(aname) end if ! close the attribute ! call h5aclose_f(aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close attribute :" // trim(aname) return end if !------------------------------------------------------------------------------- ! end subroutine read_scalar_attribute_double_h5 ! !=============================================================================== ! ! subroutine READ_VECTOR_ATTRIBUTE_INTEGER_H5: ! ------------------------------------------- ! ! Subroutine reads a vector of the integer attribute provided by the group ! identifier to which it is linked and its name. ! ! Arguments: ! ! gid - the group identifier to which the attribute is linked; ! aname - the attribute name; ! avalue - the attribute value; ! !=============================================================================== ! subroutine read_vector_attribute_integer_h5(gid, aname, avalue) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5aexists_by_name_f, h5aget_space_f use hdf5 , only : h5aopen_by_name_f, h5aread_f, h5aclose_f use hdf5 , only : h5sclose_f, h5sget_simple_extent_dims_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! attribute arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: aname integer(kind=4) , dimension(:), intent(inout) :: avalue ! local variables ! logical :: exists = .false. integer(hid_t) :: aid, sid integer(hsize_t), dimension(1) :: am, bm integer(hsize_t) :: alen integer :: ierr ! local parameters ! character(len=*), parameter :: loc = 'IO::read_vector_attribute_integer_h5()' ! !------------------------------------------------------------------------------- ! ! check if the attribute exists in the group provided by gid ! call h5aexists_by_name_f(gid, '.', aname, exists, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot check if attribute exists :" // trim(aname) return end if if (.not. exists) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Attribute does not exist :" // trim(aname) return end if ! open the attribute ! call h5aopen_by_name_f(gid, '.', aname, aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open attribute :" // trim(aname) return end if ! get the attribute space ! call h5aget_space_f(aid, sid, ierr) if (ierr == 0) then call h5sget_simple_extent_dims_f(sid, am, bm, ierr) if (ierr /= 1) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot get attribute dimensions :" // trim(aname) end if call h5sclose_f(sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the attribute space :" // trim(aname) end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot get the attribute space :" // trim(aname) return end if ! check if the output array is large enough ! if (am(1) > size(avalue)) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Attribute too large for output argument :" // trim(aname) return end if ! read attribute value ! call h5aread_f(aid, H5T_NATIVE_INTEGER, avalue, am(:), ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read attribute :" // trim(aname) end if ! close the attribute ! call h5aclose_f(aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close attribute :" // trim(aname) return end if !------------------------------------------------------------------------------- ! end subroutine read_vector_attribute_integer_h5 ! !=============================================================================== ! ! subroutine READ_VECTOR_ATTRIBUTE_DOUBLE_H5: ! ------------------------------------------ ! ! Subroutine reads a vector of the double precision attribute provided by ! the group identifier to which it is linked and its name. ! ! Arguments: ! ! gid - the group identifier to which the attribute is linked; ! aname - the attribute name; ! avalue - the attribute value; ! !=============================================================================== ! subroutine read_vector_attribute_double_h5(gid, aname, avalue) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5aexists_by_name_f, h5aget_space_f use hdf5 , only : h5aopen_by_name_f, h5aread_f, h5aclose_f use hdf5 , only : h5sclose_f, h5sget_simple_extent_dims_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! attribute arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: aname real(kind=8) , dimension(:), intent(inout) :: avalue ! local variables ! logical :: exists = .false. integer(hid_t) :: aid, sid integer(hsize_t), dimension(1) :: am, bm integer(hsize_t) :: alen integer :: ierr ! local parameters ! character(len=*), parameter :: loc = 'IO::read_vector_attribute_double_h5()' ! !------------------------------------------------------------------------------- ! ! check if the attribute exists in the group provided by gid ! call h5aexists_by_name_f(gid, '.', aname, exists, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot check if attribute exists :" // trim(aname) return end if if (.not. exists) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Attribute does not exist :" // trim(aname) return end if ! open the attribute ! call h5aopen_by_name_f(gid, '.', aname, aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open attribute :" // trim(aname) return end if ! get the attribute space ! call h5aget_space_f(aid, sid, ierr) if (ierr == 0) then call h5sget_simple_extent_dims_f(sid, am, bm, ierr) if (ierr /= 1) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot get attribute dimensions :" // trim(aname) end if call h5sclose_f(sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the attribute space :" // trim(aname) end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot get the attribute space :" // trim(aname) return end if ! check if the output array is large enough ! if (am(1) > size(avalue)) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Attribute too large for output argument :" // trim(aname) return end if ! read attribute value ! call h5aread_f(aid, H5T_NATIVE_DOUBLE, avalue, am(:), ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read attribute :" // trim(aname) end if ! close the attribute ! call h5aclose_f(aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close attribute :" // trim(aname) return end if !------------------------------------------------------------------------------- ! end subroutine read_vector_attribute_double_h5 ! !=============================================================================== ! ! subroutine READ_ARRAY_ATTRIBUTE_LONG_H5: ! --------------------------------------- ! ! Subroutine reads a 2D array of the integer attribute provided by the group ! identifier to which it is linked and its name. ! ! Arguments: ! ! gid - the group identifier to which the attribute is linked; ! aname - the attribute name; ! avalue - the attribute value; ! !=============================================================================== ! subroutine read_array_attribute_long_h5(gid, aname, avalue) ! import procedures and variables from other modules ! use hdf5 , only : H5T_STD_I64LE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5aexists_by_name_f, h5aget_space_f use hdf5 , only : h5aopen_by_name_f, h5aread_f, h5aclose_f use hdf5 , only : h5sclose_f, h5sget_simple_extent_dims_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! attribute arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: aname integer(kind=8) , dimension(:,:), intent(inout) :: avalue ! local variables ! logical :: exists = .false. integer(hid_t) :: aid, sid integer(hsize_t), dimension(2) :: am, bm integer(hsize_t) :: alen integer :: ierr ! local parameters ! character(len=*), parameter :: loc = 'IO::read_array_attribute_long_h5()' ! !------------------------------------------------------------------------------- ! ! check if the attribute exists in the group provided by gid ! call h5aexists_by_name_f(gid, '.', aname, exists, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot check if attribute exists :" // trim(aname) return end if if (.not. exists) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Attribute does not exist :" // trim(aname) return end if ! open the attribute ! call h5aopen_by_name_f(gid, '.', aname, aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open attribute :" // trim(aname) return end if ! get the attribute space ! call h5aget_space_f(aid, sid, ierr) if (ierr == 0) then call h5sget_simple_extent_dims_f(sid, am, bm, ierr) if (ierr /= 2) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot get attribute dimensions :" // trim(aname) end if call h5sclose_f(sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the attribute space :" // trim(aname) end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot get the attribute space :" // trim(aname) return end if ! check if the output array is large enough ! if (am(1) * am(2) > size(avalue)) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Attribute too large for output argument :" // trim(aname) return end if ! read attribute value ! call h5aread_f(aid, H5T_STD_I64LE, avalue, am(:), ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read attribute :" // trim(aname) end if ! close the attribute ! call h5aclose_f(aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close attribute :" // trim(aname) return end if !------------------------------------------------------------------------------- ! end subroutine read_array_attribute_long_h5 ! !=============================================================================== ! ! subroutine READ_ARRAY_ATTRIBUTE_COMPLEX_H5: ! ------------------------------------------ ! ! Subroutine reads a 2D array of the double precision complex attribute ! provided by the group identifier to which it is linked and its name. ! ! Arguments: ! ! gid - the group identifier to which the attribute is linked; ! aname - the attribute name; ! avalue - the attribute value; ! !=============================================================================== ! subroutine read_array_attribute_complex_h5(gid, aname, avalue) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5aexists_by_name_f, h5aget_space_f use hdf5 , only : h5aopen_by_name_f, h5aread_f, h5aclose_f use hdf5 , only : h5sclose_f, h5sget_simple_extent_dims_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! attribute arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: aname complex(kind=8) , dimension(:,:), intent(inout) :: avalue ! local variables ! logical :: exists = .false. integer(hid_t) :: aid, sid integer(hsize_t), dimension(3) :: am, bm integer(hsize_t) :: alen integer :: ierr ! local allocatable arrays ! real(kind=8), dimension(:,:,:), allocatable :: tvalue ! local parameters ! character(len=*), parameter :: loc = 'IO::read_array_attribute_complex_h5()' ! !------------------------------------------------------------------------------- ! ! check if the attribute exists in the group provided by gid ! call h5aexists_by_name_f(gid, '.', aname, exists, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot check if attribute exists :" // trim(aname) return end if if (.not. exists) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Attribute does not exist :" // trim(aname) return end if ! open the attribute ! call h5aopen_by_name_f(gid, '.', aname, aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open attribute :" // trim(aname) return end if ! get the attribute space ! call h5aget_space_f(aid, sid, ierr) if (ierr == 0) then call h5sget_simple_extent_dims_f(sid, am, bm, ierr) if (ierr /= 3) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot get attribute dimensions :" // trim(aname) end if call h5sclose_f(sid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close the attribute space :" // trim(aname) end if else write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot get the attribute space :" // trim(aname) return end if ! allocate temporary array for attribute ! allocate(tvalue(am(1),am(2),am(3))) ! check if the output array is large enough ! if (am(1) * am(2) * am(3) > size(tvalue)) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Attribute too large for output argument :" // trim(aname) return end if ! read attribute value ! call h5aread_f(aid, H5T_NATIVE_DOUBLE, tvalue, am(:), ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read attribute :" // trim(aname) end if ! copy array to complex one ! avalue(:,:) = dcmplx(tvalue(1,:,:), tvalue(2,:,:)) ! deallocate temporary array ! deallocate(tvalue) ! close the attribute ! call h5aclose_f(aid, ierr) if (ierr /= 0) then write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close attribute :" // trim(aname) return end if !------------------------------------------------------------------------------- ! end subroutine read_array_attribute_complex_h5 ! !=============================================================================== ! ! WRITE_ARRAY SUBROUTINES ! !=============================================================================== ! ! subroutine WRITE_1D_ARRAY_INTEGER_H5: ! ------------------------------------ ! ! Subroutine stores a one-dimensional integer array in a group specified by ! identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine write_1d_array_integer_h5(gid, name, ln, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5dcreate_f, h5dwrite_f, h5dclose_f use hdf5 , only : h5pset_chunk_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t) , intent(in) :: ln integer(kind=4) , dimension(:), intent(in) :: var ! HDF5 object identifiers ! integer(hid_t) :: sid, did ! array dimensions ! integer(hsize_t), dimension(1) :: dm ! procedure return value ! integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::write_1d_array_integer_h5()' ! !------------------------------------------------------------------------------- ! ! substitute array dimensions ! dm(1) = ln ! create a space for the array ! call h5screate_simple_f(1, dm(1:1), sid, iret) ! check if the space has been created successfuly, if not quit ! if (iret < 0) then ! print error about the problem with creating the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for dataset: " // trim(name) ! quit the subroutine ! return end if ! set the chunk size ! call h5pset_chunk_f(pid, 1, dm(1:1), iret) ! check if the chunk size has been set properly ! if (iret > 0) then ! print error about the problem with setting the chunk size ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot set the size of the chunk!" end if ! create the dataset ! call h5dcreate_f(gid, name, H5T_NATIVE_INTEGER, sid, did, iret, pid) ! check if the dataset has been created successfuly ! if (iret >= 0) then ! write the dataset data ! call h5dwrite_f(did, H5T_NATIVE_INTEGER, var(:), dm(1:1), iret, sid) ! check if the dataset has been written successfuly ! if (iret > 0) then ! print error about the problem with writing down the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if else ! print error about the problem with creating the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create dataset: " // trim(name) end if ! release the space ! call h5sclose_f(sid, iret) ! check if the space has been released successfuly ! if (iret > 0) then ! print error about the problem with closing the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine write_1d_array_integer_h5 ! !=============================================================================== ! ! subroutine WRITE_2D_ARRAY_INTEGER_H5: ! ------------------------------------ ! ! Subroutine stores a two-dimensional integer array in a group specified by ! identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine write_2d_array_integer_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5dcreate_f, h5dwrite_f, h5dclose_f use hdf5 , only : h5pset_chunk_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(2) , intent(in) :: dm integer(kind=4) , dimension(:,:), intent(in) :: var ! HDF5 object identifiers ! integer(hid_t) :: sid, did ! procedure return value ! integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::write_2d_array_integer_h5()' ! !------------------------------------------------------------------------------- ! ! create a space for the array ! call h5screate_simple_f(2, dm(1:2), sid, iret) ! check if the space has been created successfuly, if not quit ! if (iret < 0) then ! print error about the problem with creating the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for dataset: " // trim(name) ! quit the subroutine ! return end if ! set the chunk size ! call h5pset_chunk_f(pid, 2, dm(1:2), iret) ! check if the chunk size has been set properly ! if (iret > 0) then ! print error about the problem with setting the chunk size ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot set the size of the chunk!" end if ! create the dataset ! call h5dcreate_f(gid, name, H5T_NATIVE_INTEGER, sid, did, iret, pid) ! check if the dataset has been created successfuly ! if (iret >= 0) then ! write the dataset data ! call h5dwrite_f(did, H5T_NATIVE_INTEGER, var(:,:), dm(1:2), iret, sid) ! check if the dataset has been written successfuly ! if (iret > 0) then ! print error about the problem with writing down the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if else ! print error about the problem with creating the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create dataset: " // trim(name) end if ! release the space ! call h5sclose_f(sid, iret) ! check if the space has been released successfuly ! if (iret > 0) then ! print error about the problem with closing the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine write_2d_array_integer_h5 ! !=============================================================================== ! ! subroutine WRITE_3D_ARRAY_INTEGER_H5: ! ------------------------------------ ! ! Subroutine stores a three-dimensional integer array in a group specified by ! identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine write_3d_array_integer_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5dcreate_f, h5dwrite_f, h5dclose_f use hdf5 , only : h5pset_chunk_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(3) , intent(in) :: dm integer(kind=4) , dimension(:,:,:), intent(in) :: var ! HDF5 object identifiers ! integer(hid_t) :: sid, did ! procedure return value ! integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::write_3d_array_integer_h5()' ! !------------------------------------------------------------------------------- ! ! create a space for the array ! call h5screate_simple_f(3, dm(1:3), sid, iret) ! check if the space has been created successfuly, if not quit ! if (iret < 0) then ! print error about the problem with creating the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for dataset: " // trim(name) ! quit the subroutine ! return end if ! set the chunk size ! call h5pset_chunk_f(pid, 3, dm(1:3), iret) ! check if the chunk size has been set properly ! if (iret > 0) then ! print error about the problem with setting the chunk size ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot set the size of the chunk!" end if ! create the dataset ! call h5dcreate_f(gid, name, H5T_NATIVE_INTEGER, sid, did, iret, pid) ! check if the dataset has been created successfuly ! if (iret >= 0) then ! write the dataset data ! call h5dwrite_f(did, H5T_NATIVE_INTEGER, var(:,:,:), dm(1:3), iret, sid) ! check if the dataset has been written successfuly ! if (iret > 0) then ! print error about the problem with writing down the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if else ! print error about the problem with creating the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create dataset: " // trim(name) end if ! release the space ! call h5sclose_f(sid, iret) ! check if the space has been released successfuly ! if (iret > 0) then ! print error about the problem with closing the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine write_3d_array_integer_h5 ! !=============================================================================== ! ! subroutine WRITE_4D_ARRAY_INTEGER_H5: ! ------------------------------------ ! ! Subroutine stores a four-dimensional integer array in a group specified by ! identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine write_4d_array_integer_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5dcreate_f, h5dwrite_f, h5dclose_f use hdf5 , only : h5pset_chunk_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(4) , intent(in) :: dm integer(kind=4) , dimension(:,:,:,:), intent(in) :: var ! HDF5 object identifiers ! integer(hid_t) :: sid, did ! procedure return value ! integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::write_4d_array_integer_h5()' ! !------------------------------------------------------------------------------- ! ! create a space for the array ! call h5screate_simple_f(4, dm(1:4), sid, iret) ! check if the space has been created successfuly, if not quit ! if (iret < 0) then ! print error about the problem with creating the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for dataset: " // trim(name) ! quit the subroutine ! return end if ! set the chunk size ! call h5pset_chunk_f(pid, 4, dm(1:4), iret) ! check if the chunk size has been set properly ! if (iret > 0) then ! print error about the problem with setting the chunk size ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot set the size of the chunk!" end if ! create the dataset ! call h5dcreate_f(gid, name, H5T_NATIVE_INTEGER, sid, did, iret, pid) ! check if the dataset has been created successfuly ! if (iret >= 0) then ! write the dataset data ! call h5dwrite_f(did, H5T_NATIVE_INTEGER, var(:,:,:,:), dm(1:4), iret, sid) ! check if the dataset has been written successfuly ! if (iret > 0) then ! print error about the problem with writing down the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if else ! print error about the problem with creating the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create dataset: " // trim(name) end if ! release the space ! call h5sclose_f(sid, iret) ! check if the space has been released successfuly ! if (iret > 0) then ! print error about the problem with closing the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine write_4d_array_integer_h5 ! !=============================================================================== ! ! subroutine WRITE_5D_ARRAY_INTEGER_H5: ! ------------------------------------ ! ! Subroutine stores a five-dimensional integer array in a group specified by ! identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine write_5d_array_integer_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5dcreate_f, h5dwrite_f, h5dclose_f use hdf5 , only : h5pset_chunk_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(5) , intent(in) :: dm integer(kind=4) , dimension(:,:,:,:,:), intent(in) :: var ! HDF5 object identifiers ! integer(hid_t) :: sid, did ! procedure return value ! integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::write_5d_array_integer_h5()' ! !------------------------------------------------------------------------------- ! ! create a space for the array ! call h5screate_simple_f(5, dm(1:5), sid, iret) ! check if the space has been created successfuly, if not quit ! if (iret < 0) then ! print error about the problem with creating the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for dataset: " // trim(name) ! quit the subroutine ! return end if ! set the chunk size ! call h5pset_chunk_f(pid, 5, dm(1:5), iret) ! check if the chunk size has been set properly ! if (iret > 0) then ! print error about the problem with setting the chunk size ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot set the size of the chunk!" end if ! create the dataset ! call h5dcreate_f(gid, name, H5T_NATIVE_INTEGER, sid, did, iret, pid) ! check if the dataset has been created successfuly ! if (iret >= 0) then ! write the dataset data ! call h5dwrite_f(did, H5T_NATIVE_INTEGER, var(:,:,:,:,:), dm(1:5) & , iret, sid) ! check if the dataset has been written successfuly ! if (iret > 0) then ! print error about the problem with writing down the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if else ! print error about the problem with creating the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create dataset: " // trim(name) end if ! release the space ! call h5sclose_f(sid, iret) ! check if the space has been released successfuly ! if (iret > 0) then ! print error about the problem with closing the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine write_5d_array_integer_h5 ! !=============================================================================== ! ! subroutine WRITE_1D_ARRAY_DOUBLE_H5: ! ----------------------------------- ! ! Subroutine stores a one-dimensional double precision array in a group ! specified by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine write_1d_array_double_h5(gid, name, ln, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5dcreate_f, h5dwrite_f, h5dclose_f use hdf5 , only : h5pset_chunk_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t) , intent(in) :: ln real(kind=8) , dimension(:), intent(in) :: var ! HDF5 object identifiers ! integer(hid_t) :: sid, did ! array dimensions ! integer(hsize_t), dimension(1) :: dm ! procedure return value ! integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::write_1d_array_double_h5()' ! !------------------------------------------------------------------------------- ! ! substitute array dimensions ! dm(1) = ln ! create a space for the array ! call h5screate_simple_f(1, dm(1:1), sid, iret) ! check if the space has been created successfuly, if not quit ! if (iret < 0) then ! print error about the problem with creating the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for dataset: " // trim(name) ! quit the subroutine ! return end if ! set the chunk size ! call h5pset_chunk_f(pid, 1, dm(1:1), iret) ! check if the chunk size has been set properly ! if (iret > 0) then ! print error about the problem with setting the chunk size ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot set the size of the chunk!" end if ! create the dataset ! call h5dcreate_f(gid, name, H5T_NATIVE_DOUBLE, sid, did, iret, pid) ! check if the dataset has been created successfuly ! if (iret >= 0) then ! write the dataset data ! call h5dwrite_f(did, H5T_NATIVE_DOUBLE, var(:), dm(1:1), iret, sid) ! check if the dataset has been written successfuly ! if (iret > 0) then ! print error about the problem with writing down the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if else ! print error about the problem with creating the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create dataset: " // trim(name) end if ! release the space ! call h5sclose_f(sid, iret) ! check if the space has been released successfuly ! if (iret > 0) then ! print error about the problem with closing the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine write_1d_array_double_h5 ! !=============================================================================== ! ! subroutine WRITE_2D_ARRAY_DOUBLE_H5: ! ------------------------------------ ! ! Subroutine stores a two-dimensional double precision array in a group ! specified by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine write_2d_array_double_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5dcreate_f, h5dwrite_f, h5dclose_f use hdf5 , only : h5pset_chunk_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(2) , intent(in) :: dm real(kind=8) , dimension(:,:), intent(in) :: var ! HDF5 object identifiers ! integer(hid_t) :: sid, did ! procedure return value ! integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::write_2d_array_double_h5()' ! !------------------------------------------------------------------------------- ! ! create a space for the array ! call h5screate_simple_f(2, dm(1:2), sid, iret) ! check if the space has been created successfuly, if not quit ! if (iret < 0) then ! print error about the problem with creating the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for dataset: " // trim(name) ! quit the subroutine ! return end if ! set the chunk size ! call h5pset_chunk_f(pid, 2, dm(1:2), iret) ! check if the chunk size has been set properly ! if (iret > 0) then ! print error about the problem with setting the chunk size ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot set the size of the chunk!" end if ! create the dataset ! call h5dcreate_f(gid, name, H5T_NATIVE_DOUBLE, sid, did, iret, pid) ! check if the dataset has been created successfuly ! if (iret >= 0) then ! write the dataset data ! call h5dwrite_f(did, H5T_NATIVE_DOUBLE, var(:,:), dm(1:2), iret, sid) ! check if the dataset has been written successfuly ! if (iret > 0) then ! print error about the problem with writing down the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if else ! print error about the problem with creating the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create dataset: " // trim(name) end if ! release the space ! call h5sclose_f(sid, iret) ! check if the space has been released successfuly ! if (iret > 0) then ! print error about the problem with closing the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine write_2d_array_double_h5 ! !=============================================================================== ! ! subroutine WRITE_3D_ARRAY_DOUBLE_H5: ! ----------------------------------- ! ! Subroutine stores a three-dimensional double precision array in a group ! specified by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine write_3d_array_double_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5dcreate_f, h5dwrite_f, h5dclose_f use hdf5 , only : h5pset_chunk_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(3) , intent(in) :: dm real(kind=8) , dimension(:,:,:), intent(in) :: var ! HDF5 object identifiers ! integer(hid_t) :: sid, did ! procedure return value ! integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::write_3d_array_double_h5()' ! !------------------------------------------------------------------------------- ! ! create a space for the array ! call h5screate_simple_f(3, dm(1:3), sid, iret) ! check if the space has been created successfuly, if not quit ! if (iret < 0) then ! print error about the problem with creating the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for dataset: " // trim(name) ! quit the subroutine ! return end if ! set the chunk size ! call h5pset_chunk_f(pid, 3, dm(1:3), iret) ! check if the chunk size has been set properly ! if (iret > 0) then ! print error about the problem with setting the chunk size ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot set the size of the chunk!" end if ! create the dataset ! call h5dcreate_f(gid, name, H5T_NATIVE_DOUBLE, sid, did, iret, pid) ! check if the dataset has been created successfuly ! if (iret >= 0) then ! write the dataset data ! call h5dwrite_f(did, H5T_NATIVE_DOUBLE, var(:,:,:), dm(1:3), iret, sid) ! check if the dataset has been written successfuly ! if (iret > 0) then ! print error about the problem with writing down the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if else ! print error about the problem with creating the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create dataset: " // trim(name) end if ! release the space ! call h5sclose_f(sid, iret) ! check if the space has been released successfuly ! if (iret > 0) then ! print error about the problem with closing the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine write_3d_array_double_h5 ! !=============================================================================== ! ! subroutine WRITE_4D_ARRAY_DOUBLE_H5: ! ------------------------------------ ! ! Subroutine stores a four-dimensional double precision array in a group ! specified by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine write_4d_array_double_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5dcreate_f, h5dwrite_f, h5dclose_f use hdf5 , only : h5pset_chunk_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(4) , intent(in) :: dm real(kind=8) , dimension(:,:,:,:), intent(in) :: var ! HDF5 object identifiers ! integer(hid_t) :: sid, did ! procedure return value ! integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::write_4d_array_double_h5()' ! !------------------------------------------------------------------------------- ! ! create a space for the array ! call h5screate_simple_f(4, dm(1:4), sid, iret) ! check if the space has been created successfuly, if not quit ! if (iret < 0) then ! print error about the problem with creating the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for dataset: " // trim(name) ! quit the subroutine ! return end if ! set the chunk size ! call h5pset_chunk_f(pid, 4, dm(1:4), iret) ! check if the chunk size has been set properly ! if (iret > 0) then ! print error about the problem with setting the chunk size ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot set the size of the chunk!" end if ! create the dataset ! call h5dcreate_f(gid, name, H5T_NATIVE_DOUBLE, sid, did, iret, pid) ! check if the dataset has been created successfuly ! if (iret >= 0) then ! write the dataset data ! call h5dwrite_f(did, H5T_NATIVE_DOUBLE, var(:,:,:,:), dm(1:4), iret, sid) ! check if the dataset has been written successfuly ! if (iret > 0) then ! print error about the problem with writing down the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if else ! print error about the problem with creating the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create dataset: " // trim(name) end if ! release the space ! call h5sclose_f(sid, iret) ! check if the space has been released successfuly ! if (iret > 0) then ! print error about the problem with closing the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine write_4d_array_double_h5 ! !=============================================================================== ! ! subroutine WRITE_5D_ARRAY_DOUBLE_H5: ! ----------------------------------- ! ! Subroutine stores a five-dimensional double precision array in a group ! specified by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine write_5d_array_double_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5screate_simple_f, h5sclose_f use hdf5 , only : h5dcreate_f, h5dwrite_f, h5dclose_f use hdf5 , only : h5pset_chunk_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(5) , intent(in) :: dm real(kind=8) , dimension(:,:,:,:,:), intent(in) :: var ! HDF5 object identifiers ! integer(hid_t) :: sid, did ! procedure return value ! integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::write_5d_array_double_h5()' ! !------------------------------------------------------------------------------- ! ! create a space for the array ! call h5screate_simple_f(5, dm(1:5), sid, iret) ! check if the space has been created successfuly, if not quit ! if (iret < 0) then ! print error about the problem with creating the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create space for dataset: " // trim(name) ! quit the subroutine ! return end if ! set the chunk size ! call h5pset_chunk_f(pid, 5, dm(1:5), iret) ! check if the chunk size has been set properly ! if (iret > 0) then ! print error about the problem with setting the chunk size ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot set the size of the chunk!" end if ! create the dataset ! call h5dcreate_f(gid, name, H5T_NATIVE_DOUBLE, sid, did, iret, pid) ! check if the dataset has been created successfuly ! if (iret >= 0) then ! write the dataset data ! call h5dwrite_f(did, H5T_NATIVE_DOUBLE, var(:,:,:,:,:), dm(1:5) & , iret, sid) ! check if the dataset has been written successfuly ! if (iret > 0) then ! print error about the problem with writing down the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot write dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if else ! print error about the problem with creating the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot create dataset: " // trim(name) end if ! release the space ! call h5sclose_f(sid, iret) ! check if the space has been released successfuly ! if (iret > 0) then ! print error about the problem with closing the space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close space for dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine write_5d_array_double_h5 !=============================================================================== ! ! READ_ARRAY SUBROUTINES ! !=============================================================================== ! ! subroutine READ_1D_ARRAY_INTEGER_H5: ! ----------------------------------- ! ! Subroutine restores a one-dimensional integer array from a group specified ! by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine read_1d_array_integer_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5dopen_f, h5dread_f, h5dclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(1), intent(inout) :: dm integer(kind=4) , dimension(:), intent(inout) :: var ! local variables ! integer(hid_t) :: did integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::read_1d_array_integer_h5()' ! !------------------------------------------------------------------------------- ! ! open the dataset ! call h5dopen_f(gid, name, did, iret) ! check if the dataset has been opened successfuly ! if (iret < 0) then ! print error about the problem with opening the data space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open dataset: " // trim(name) ! quit the subroutine ! return end if ! read dataset data ! call h5dread_f(did, H5T_NATIVE_INTEGER, var(:), dm(1:1), iret) ! check if the dataset has been read successfuly ! if (iret > 0) then ! print error about the problem with reading the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine read_1d_array_integer_h5 ! !=============================================================================== ! ! subroutine READ_2D_ARRAY_INTEGER_H5: ! ----------------------------------- ! ! Subroutine restores a two-dimensional integer array from a group specified ! by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine read_2d_array_integer_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5dopen_f, h5dread_f, h5dclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(2) , intent(inout) :: dm integer(kind=4) , dimension(:,:), intent(inout) :: var ! local variables ! integer(hid_t) :: did integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::read_2d_array_integer_h5()' ! !------------------------------------------------------------------------------- ! ! open the dataset ! call h5dopen_f(gid, name, did, iret) ! check if the dataset has been opened successfuly ! if (iret < 0) then ! print error about the problem with opening the data space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open dataset: " // trim(name) ! quit the subroutine ! return end if ! read dataset data ! call h5dread_f(did, H5T_NATIVE_INTEGER, var(:,:), dm(1:2), iret) ! check if the dataset has been read successfuly ! if (iret > 0) then ! print error about the problem with reading the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine read_2d_array_integer_h5 ! !=============================================================================== ! ! subroutine READ_3D_ARRAY_INTEGER_H5: ! ----------------------------------- ! ! Subroutine restores a three-dimensional integer array from a group specified ! by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine read_3d_array_integer_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5dopen_f, h5dread_f, h5dclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(3) , intent(inout) :: dm integer(kind=4) , dimension(:,:,:), intent(inout) :: var ! local variables ! integer(hid_t) :: did integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::read_3d_array_integer_h5()' ! !------------------------------------------------------------------------------- ! ! open the dataset ! call h5dopen_f(gid, name, did, iret) ! check if the dataset has been opened successfuly ! if (iret < 0) then ! print error about the problem with opening the data space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open dataset: " // trim(name) ! quit the subroutine ! return end if ! read dataset data ! call h5dread_f(did, H5T_NATIVE_INTEGER, var(:,:,:), dm(1:3), iret) ! check if the dataset has been read successfuly ! if (iret > 0) then ! print error about the problem with reading the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine read_3d_array_integer_h5 ! !=============================================================================== ! ! subroutine READ_4D_ARRAY_INTEGER_H5: ! ----------------------------------- ! ! Subroutine restores a four-dimensional integer array from a group specified ! by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine read_4d_array_integer_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5dopen_f, h5dread_f, h5dclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(4) , intent(inout) :: dm integer(kind=4) , dimension(:,:,:,:), intent(inout) :: var ! local variables ! integer(hid_t) :: did integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::read_4d_array_integer_h5()' ! !------------------------------------------------------------------------------- ! ! open the dataset ! call h5dopen_f(gid, name, did, iret) ! check if the dataset has been opened successfuly ! if (iret < 0) then ! print error about the problem with opening the data space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open dataset: " // trim(name) ! quit the subroutine ! return end if ! read dataset data ! call h5dread_f(did, H5T_NATIVE_INTEGER, var(:,:,:,:), dm(1:4), iret) ! check if the dataset has been read successfuly ! if (iret > 0) then ! print error about the problem with reading the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine read_4d_array_integer_h5 ! !=============================================================================== ! ! subroutine READ_5D_ARRAY_INTEGER_H5: ! ----------------------------------- ! ! Subroutine restores a five-dimensional integer array from a group specified ! by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine read_5d_array_integer_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_INTEGER use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5dopen_f, h5dread_f, h5dclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(5) , intent(inout) :: dm integer(kind=4) , dimension(:,:,:,:,:), intent(inout) :: var ! local variables ! integer(hid_t) :: did integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::read_5d_array_integer_h5()' ! !------------------------------------------------------------------------------- ! ! open the dataset ! call h5dopen_f(gid, name, did, iret) ! check if the dataset has been opened successfuly ! if (iret < 0) then ! print error about the problem with opening the data space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open dataset: " // trim(name) ! quit the subroutine ! return end if ! read dataset data ! call h5dread_f(did, H5T_NATIVE_INTEGER, var(:,:,:,:,:), dm(1:5), iret) ! check if the dataset has been read successfuly ! if (iret > 0) then ! print error about the problem with reading the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine read_5d_array_integer_h5 ! !=============================================================================== ! ! subroutine READ_1D_ARRAY_DOUBLE_H5: ! ---------------------------------- ! ! Subroutine restores a one-dimensional double precision array from a group ! specified by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine read_1d_array_double_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5dopen_f, h5dread_f, h5dclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(1), intent(inout) :: dm real(kind=8) , dimension(:), intent(inout) :: var ! local variables ! integer(hid_t) :: did integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::read_1d_array_double_h5()' ! !------------------------------------------------------------------------------- ! ! open the dataset ! call h5dopen_f(gid, name, did, iret) ! check if the dataset has been opened successfuly ! if (iret < 0) then ! print error about the problem with opening the data space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open dataset: " // trim(name) ! quit the subroutine ! return end if ! read dataset data ! call h5dread_f(did, H5T_NATIVE_DOUBLE, var(:), dm(1:1), iret) ! check if the dataset has been read successfuly ! if (iret > 0) then ! print error about the problem with reading the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine read_1d_array_double_h5 ! !=============================================================================== ! ! subroutine READ_2D_ARRAY_DOUBLE_H5: ! ----------------------------------- ! ! Subroutine restores a two-dimensional double precision array from a group ! specified by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine read_2d_array_double_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5dopen_f, h5dread_f, h5dclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(2) , intent(inout) :: dm real(kind=8) , dimension(:,:), intent(inout) :: var ! local variables ! integer(hid_t) :: did integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::read_2d_array_double_h5()' ! !------------------------------------------------------------------------------- ! ! open the dataset ! call h5dopen_f(gid, name, did, iret) ! check if the dataset has been opened successfuly ! if (iret < 0) then ! print error about the problem with opening the data space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open dataset: " // trim(name) ! quit the subroutine ! return end if ! read dataset data ! call h5dread_f(did, H5T_NATIVE_DOUBLE, var(:,:), dm(1:2), iret) ! check if the dataset has been read successfuly ! if (iret > 0) then ! print error about the problem with reading the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine read_2d_array_double_h5 ! !=============================================================================== ! ! subroutine READ_3D_ARRAY_DOUBLE_H5: ! ----------------------------------- ! ! Subroutine restores a three-dimensional double precision array from a group ! specified by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine read_3d_array_double_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5dopen_f, h5dread_f, h5dclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(3) , intent(inout) :: dm real(kind=8) , dimension(:,:,:), intent(inout) :: var ! local variables ! integer(hid_t) :: did integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::read_3d_array_double_h5()' ! !------------------------------------------------------------------------------- ! ! open the dataset ! call h5dopen_f(gid, name, did, iret) ! check if the dataset has been opened successfuly ! if (iret < 0) then ! print error about the problem with opening the data space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open dataset: " // trim(name) ! quit the subroutine ! return end if ! read dataset data ! call h5dread_f(did, H5T_NATIVE_DOUBLE, var(:,:,:), dm(1:3), iret) ! check if the dataset has been read successfuly ! if (iret > 0) then ! print error about the problem with reading the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine read_3d_array_double_h5 ! !=============================================================================== ! ! subroutine READ_4D_ARRAY_DOUBLE_H5: ! ----------------------------------- ! ! Subroutine restores a four-dimensional double precision array from a group ! specified by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine read_4d_array_double_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5dopen_f, h5dread_f, h5dclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(4) , intent(inout) :: dm real(kind=8) , dimension(:,:,:,:), intent(inout) :: var ! local variables ! integer(hid_t) :: did integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::read_4d_array_double_h5()' ! !------------------------------------------------------------------------------- ! ! open the dataset ! call h5dopen_f(gid, name, did, iret) ! check if the dataset has been opened successfuly ! if (iret < 0) then ! print error about the problem with opening the data space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open dataset: " // trim(name) ! quit the subroutine ! return end if ! read dataset data ! call h5dread_f(did, H5T_NATIVE_DOUBLE, var(:,:,:,:), dm(1:4), iret) ! check if the dataset has been read successfuly ! if (iret > 0) then ! print error about the problem with reading the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine read_4d_array_double_h5 ! !=============================================================================== ! ! subroutine READ_5D_ARRAY_DOUBLE_H5: ! ----------------------------------- ! ! Subroutine restores a five-dimensional double precision array from a group ! specified by identifier. ! ! Arguments: ! ! gid - the HDF5 group identifier ! name - the string name describing the array ! dm - the array dimensions ! value - the array values ! !=============================================================================== ! subroutine read_5d_array_double_h5(gid, name, dm, var) ! import procedures and variables from other modules ! use hdf5 , only : H5T_NATIVE_DOUBLE use hdf5 , only : hid_t, hsize_t use hdf5 , only : h5dopen_f, h5dread_f, h5dclose_f use iso_fortran_env, only : error_unit ! local variables are not implicit by default ! implicit none ! subroutine arguments ! integer(hid_t) , intent(in) :: gid character(len=*) , intent(in) :: name integer(hsize_t), dimension(5) , intent(inout) :: dm real(kind=8) , dimension(:,:,:,:,:), intent(inout) :: var ! local variables ! integer(hid_t) :: did integer :: iret ! local parameters ! character(len=*), parameter :: loc = 'IO::read_5d_array_double_h5()' ! !------------------------------------------------------------------------------- ! ! open the dataset ! call h5dopen_f(gid, name, did, iret) ! check if the dataset has been opened successfuly ! if (iret < 0) then ! print error about the problem with opening the data space ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot open dataset: " // trim(name) ! quit the subroutine ! return end if ! read dataset data ! call h5dread_f(did, H5T_NATIVE_DOUBLE, var(:,:,:,:,:), dm(1:5), iret) ! check if the dataset has been read successfuly ! if (iret > 0) then ! print error about the problem with reading the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot read dataset: " // trim(name) end if ! close the dataset ! call h5dclose_f(did, iret) ! check if the dataset has been closed successfuly ! if (iret > 0) then ! print error about the problem with closing the dataset ! write(error_unit,"('[',a,']: ',a)") trim(loc) & , "Cannot close dataset: " // trim(name) end if !------------------------------------------------------------------------------- ! end subroutine read_5d_array_double_h5 ! !=============================================================================== ! ! subroutine WRITE_SNAPSHOT_XDMF: ! ------------------------------ ! ! Subroutine writes an XDMF file per snapshot per MPI process. ! XDMF file is just a wrapper which helps to load data in a visualization ! tools like Paraview or Visit. ! ! Based on the subroutine by Pierre Kestener ! (see https://bitbucket.org/pkestene/amun-code). ! ! !=============================================================================== ! subroutine write_snapshot_xdmf() ! import procedures and variables from other modules ! use blocks , only : block_data, list_data use blocks , only : get_dblocks use equations , only : nv, pvars use mpitools , only : nproc use coordinates , only : ni => ncells, ng => nghosts use coordinates , only : adx, ady, adz use evolution , only : time ! local variables are not implicit by default ! implicit none ! local pointers ! type(block_data), pointer :: pdata ! local variables ! character(len=64) :: fname, hname character(len=128) :: stmp, ttmp, sdim, bdim, pdim integer(kind=4) :: l, p integer(kind=4) :: ip, jp, kp ! local arrays ! integer, dimension(12) :: slab ! local parameters ! integer, parameter :: xdmf = 101 ! !------------------------------------------------------------------------------- ! ! prepare the XDMF and HDF5 file names write(fname, "(a1,i6.6,'_',i5.5,'.xdmf')") ftype, isnap, nproc write(hname, "(a1,i6.6,'_',i5.5,'.h5' )") ftype, isnap, nproc ! open the XDMF file ! open (unit = xdmf, file = fname, status = 'replace') ! write the header ! write(xdmf, "(a)") '' write(xdmf, "(a)") '' write(xdmf, "(a)") ' ' write(stmp, "(1i16)") nproc write(xdmf, "(a)") ' ' write(stmp, "(1g15.8)") time write(xdmf, "(a)") ' ' write(xdmf, "(a)") ' ' write(xdmf, "(a)") '' ! close the XDMF file ! close(xdmf) !------------------------------------------------------------------------------- ! end subroutine write_snapshot_xdmf ! !=============================================================================== ! ! subroutine WRITE_SNAPSHOT_XDMF_MASTER: ! ------------------------------------- ! ! Subroutine writes one XDMF file per snapshot in root MPI process to gather ! all MPI subdomains. ! ! Based on the subroutine by Pierre Kestener ! (see https://bitbucket.org/pkestene/amun-code). ! ! !=============================================================================== ! subroutine write_snapshot_xdmf_master() ! import procedures and variables from other modules ! use mpitools , only : npmax ! local variables are not implicit by default ! implicit none ! local variables ! character(len=64) :: fname, pname integer(kind=4) :: np ! local parameters ! integer, parameter :: xdmf = 102 ! !------------------------------------------------------------------------------- ! ! prepare the XDMF and HDF5 file names write(fname, "(a1,i6.6,'.xdmf')") ftype, isnap ! open the XDMF file ! open (unit = xdmf, file = fname, status = 'replace') ! write the header ! write(xdmf, "(a)") '' write(xdmf, "(a)") '' write(xdmf, "(a)") ' ' write(xdmf, "(a)") ' ' ! write references to MPI subdomain files ! do np = 0, npmax write(pname, "(a1,i6.6,'_',i5.5,'.xdmf')") ftype, isnap, np write(xdmf, "(a)") ' ' end do ! close the XDMF structures ! write(xdmf, "(a)") ' ' write(xdmf, "(a)") ' ' write(xdmf, "(a)") '' ! close the XDMF file ! close(xdmf) !------------------------------------------------------------------------------- ! end subroutine write_snapshot_xdmf_master #endif /* HDF5 */ !=============================================================================== ! end module