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PROGRAM rebuild_nemo
#define key_netcdf4
!!=========================================================================
!! *** rebuild_nemo ***
!!=========================================================================
!!
!! A routine to rebuild NEMO files from multiple processors into one file.
!! This routine is designed to be much quicker than the old IOIPSL rebuild
!! but at the cost of an increased memory usage.
!!
!! NEMO rebuild has the following features:
!! * dynamically works out what variables require rebuilding
!! * does not copy subdomain halo regions
!! * works for 1,2,3 and 4d arrays or types for all valid NetCDF types
!! * utilises OMP shared memory parallelisation where applicable
!! * time 'slicing' for lower memory use
!! (only for 4D vars with unlimited dimension)
!!
!! Ed Blockley - August 2011
!! (based on original code by Matt Martin)
!! Julien Palmieri and Andrew Coward - September 2018 (add compression and chunking)
!!
!!-------------------------------------------------------------------------
!!
!! The code reads the filestem and number of subdomains from the namelist file nam_rebuild.
!!
!! The 1st subdomain file is used to determine the dimensions and variables in all the input files.
!! It is also used to find which dimensions (and hence which variables) require rebuilding
!! as well as information about the global domain.
!!
!! It then opens all the input files (unbuffered) and creates an array of netcdf identifiers
!! before looping through all the variables and updating the rebuilt output file (either by direct
!! copying or looping over the number of domains and rebuilding as appropriate).
!!
!! The code looks more complicated than it is because it has lots of case statements to deal with all
!! the various NetCDF data types and with various data dimensions (up to 4d).
!!
!! Diagnostic output is written to numout (default 6 - stdout)
!! and errors are written to numerr (default 0 - stderr).
!!
!! If time slicing is specified the code will use less memory but take a little longer.
!! It does this by breaking down the 4D input variables over their 4th dimension
!! (generally time) by way of a while loop.
!!
!!-------------------------------------------------------------------------------
USE netcdf
!$ USE omp_lib ! Note OpenMP sentinel
IMPLICIT NONE
! kind specifications
INTEGER,PARAMETER :: i1=SELECTED_INT_KIND(2) ! NF90_BYTE
INTEGER,PARAMETER :: i2=SELECTED_INT_KIND(4) ! NF90_SHORT
INTEGER,PARAMETER :: i4=SELECTED_INT_KIND(9) ! NF90_INT
INTEGER,PARAMETER :: sp=SELECTED_REAL_KIND(6,37) ! NF90_FLOAT
INTEGER,PARAMETER :: dp=SELECTED_REAL_KIND(12,307) ! NF90_DOUBLE
INTEGER,PARAMETER :: numnam = 11
INTEGER,PARAMETER :: numout = 6
INTEGER,PARAMETER :: numerr = 0
LOGICAL, PARAMETER :: l_verbose = .true.
CHARACTER(LEN=nf90_max_name) :: filebase, suffix, attname, dimname, varname, time, date, zone, timestamp
CHARACTER(LEN=nf90_max_name), ALLOCATABLE :: filenames(:), indimnames(:)
CHARACTER(LEN=nf90_max_name), DIMENSION(2) :: dims
CHARACTER(LEN=256) :: cnampath, cdimlst, cdim
CHARACTER(LEN=50) :: clibnc ! netcdf library version
INTEGER :: ndomain, ifile, ndomain_file, nslicesize, deflate_level
INTEGER :: ncid, outid, idim, istop
INTEGER :: natts, attid, xtype, varid, rbdims
INTEGER :: jv, ndims, nvars, dimlen, dimids(5)
INTEGER :: dimid, unlimitedDimId, di, dj, dr
INTEGER :: nmax_unlimited, nt, ntslice
INTEGER :: fchunksize = 32000000 ! NetCDF global file chunk cache size
INTEGER :: patchchunk ! NetCDF processor-domain file chunk cache size
INTEGER :: nthreads = 1
INTEGER :: chunkalg = 0 ! NetCDF4 variable chunking algorithm
! Default variable chunksizes (typical ORCA025
! recommendations which can be adjusted via namelist
! or will be bounded if too large for domain.)
INTEGER :: nc4_xchunk = 206 ! Default x (longitude) variable chunk size
INTEGER :: nc4_ychunk = 135 ! Default y (latitude) variable chunk size
INTEGER :: nc4_zchunk = 1 ! Default z (depth) variable chunk size (almost always 1)
INTEGER :: nc4_tchunk = 1 ! Default t (time) variable chunk size (almost always 1)
INTEGER, ALLOCATABLE :: outdimids(:), outdimlens(:), indimlens(:), inncids(:)
INTEGER, ALLOCATABLE :: chunksizes(:)
INTEGER, ALLOCATABLE :: global_sizes(:), rebuild_dims(:)
INTEGER, DIMENSION(2) :: halo_start, halo_end, local_sizes
INTEGER, DIMENSION(2) :: idomain, jdomain, rdomain, start_pos
INTEGER :: ji, jj, jk, jl, jr
INTEGER :: nargs ! number of arguments
INTEGER, EXTERNAL :: iargc
REAL(sp) :: ValMin, ValMax, InMin, InMax, rmdi
REAL(dp), ALLOCATABLE :: mdiVals(:)
! NF90_BYTE local data arrays
INTEGER(i1), ALLOCATABLE, SAVE, DIMENSION(:) :: localdata_1d_i1
INTEGER(i1), ALLOCATABLE, SAVE, DIMENSION(:,:) :: localdata_2d_i1
INTEGER(i1), ALLOCATABLE, SAVE, DIMENSION(:,:,:) :: localdata_3d_i1
INTEGER(i1), ALLOCATABLE, SAVE, DIMENSION(:,:,:,:) :: localdata_4d_i1
INTEGER(i1), ALLOCATABLE, SAVE, DIMENSION(:,:,:,:,:) :: localdata_5d_i1
! NF90_SHORT local data arrays
INTEGER(i2), ALLOCATABLE, SAVE, DIMENSION(:) :: localdata_1d_i2
INTEGER(i2), ALLOCATABLE, SAVE, DIMENSION(:,:) :: localdata_2d_i2
INTEGER(i2), ALLOCATABLE, SAVE, DIMENSION(:,:,:) :: localdata_3d_i2
INTEGER(i2), ALLOCATABLE, SAVE, DIMENSION(:,:,:,:) :: localdata_4d_i2
INTEGER(i2), ALLOCATABLE, SAVE, DIMENSION(:,:,:,:,:) :: localdata_5d_i2
! NF90_INT local data arrays
INTEGER(i4), ALLOCATABLE, SAVE, DIMENSION(:) :: localdata_1d_i4
INTEGER(i4), ALLOCATABLE, SAVE, DIMENSION(:,:) :: localdata_2d_i4
INTEGER(i4), ALLOCATABLE, SAVE, DIMENSION(:,:,:) :: localdata_3d_i4
INTEGER(i4), ALLOCATABLE, SAVE, DIMENSION(:,:,:,:) :: localdata_4d_i4
INTEGER(i4), ALLOCATABLE, SAVE, DIMENSION(:,:,:,:,:) :: localdata_5d_i4
! NF90_FLOAT local data arrays
REAL(sp), ALLOCATABLE, SAVE, DIMENSION(:) :: localdata_1d_sp
REAL(sp), ALLOCATABLE, SAVE, DIMENSION(:,:) :: localdata_2d_sp
REAL(sp), ALLOCATABLE, SAVE, DIMENSION(:,:,:) :: localdata_3d_sp
REAL(sp), ALLOCATABLE, SAVE, DIMENSION(:,:,:,:) :: localdata_4d_sp
REAL(sp), ALLOCATABLE, SAVE, DIMENSION(:,:,:,:,:) :: localdata_5d_sp
! NF90_DOUBLE local data arrays
REAL(dp), ALLOCATABLE, SAVE, DIMENSION(:) :: localdata_1d_dp
REAL(dp), ALLOCATABLE, SAVE, DIMENSION(:,:) :: localdata_2d_dp
REAL(dp), ALLOCATABLE, SAVE, DIMENSION(:,:,:) :: localdata_3d_dp
REAL(dp), ALLOCATABLE, SAVE, DIMENSION(:,:,:,:) :: localdata_4d_dp
REAL(sp), ALLOCATABLE, SAVE, DIMENSION(:,:,:,:,:) :: localdata_5d_dp
! NF90_BYTE global data arrays
INTEGER(i1) :: globaldata_0d_i1
INTEGER(i1), ALLOCATABLE, DIMENSION(:) :: globaldata_1d_i1
INTEGER(i1), ALLOCATABLE, DIMENSION(:,:) :: globaldata_2d_i1
INTEGER(i1), ALLOCATABLE, DIMENSION(:,:,:) :: globaldata_3d_i1
INTEGER(i1), ALLOCATABLE, DIMENSION(:,:,:,:) :: globaldata_4d_i1
INTEGER(i1), ALLOCATABLE, DIMENSION(:,:,:,:,:) :: globaldata_5d_i1
! NF90_SHORT global data arrays
INTEGER(i2) :: globaldata_0d_i2
INTEGER(i2), ALLOCATABLE, DIMENSION(:) :: globaldata_1d_i2
INTEGER(i2), ALLOCATABLE, DIMENSION(:,:) :: globaldata_2d_i2
INTEGER(i2), ALLOCATABLE, DIMENSION(:,:,:) :: globaldata_3d_i2
INTEGER(i2), ALLOCATABLE, DIMENSION(:,:,:,:) :: globaldata_4d_i2
INTEGER(i2), ALLOCATABLE, DIMENSION(:,:,:,:,:) :: globaldata_5d_i2
! NF90_INT global data arrays
INTEGER(i4) :: globaldata_0d_i4
INTEGER(i4), ALLOCATABLE, DIMENSION(:) :: globaldata_1d_i4
INTEGER(i4), ALLOCATABLE, DIMENSION(:,:) :: globaldata_2d_i4
INTEGER(i4), ALLOCATABLE, DIMENSION(:,:,:) :: globaldata_3d_i4
INTEGER(i4), ALLOCATABLE, DIMENSION(:,:,:,:) :: globaldata_4d_i4
INTEGER(i4), ALLOCATABLE, DIMENSION(:,:,:,:,:) :: globaldata_5d_i4
! NF90_FLOAT global data arrays
REAL(sp) :: globaldata_0d_sp
REAL(sp), ALLOCATABLE, DIMENSION(:) :: globaldata_1d_sp
REAL(sp), ALLOCATABLE, DIMENSION(:,:) :: globaldata_2d_sp
REAL(sp), ALLOCATABLE, DIMENSION(:,:,:) :: globaldata_3d_sp
REAL(sp), ALLOCATABLE, DIMENSION(:,:,:,:) :: globaldata_4d_sp
REAL(sp), ALLOCATABLE, DIMENSION(:,:,:,:,:) :: globaldata_5d_sp
! NF90_DOUBLE global data arrays
REAL(dp) :: globaldata_0d_dp
REAL(dp), ALLOCATABLE, DIMENSION(:) :: globaldata_1d_dp
REAL(dp), ALLOCATABLE, DIMENSION(:,:) :: globaldata_2d_dp
REAL(dp), ALLOCATABLE, DIMENSION(:,:,:) :: globaldata_3d_dp
REAL(dp), ALLOCATABLE, DIMENSION(:,:,:,:) :: globaldata_4d_dp
REAL(dp), ALLOCATABLE, DIMENSION(:,:,:,:,:) :: globaldata_5d_dp
LOGICAL :: l_valid = .false.
LOGICAL :: l_noRebuild = .false.
LOGICAL :: l_findDims = .true.
LOGICAL :: l_maskout = .false.
LOGICAL :: l_namexist = .false.
NAMELIST/nam_rebuild/ filebase, ndomain, dims, nslicesize, l_maskout, deflate_level, &
& nc4_xchunk, nc4_ychunk, nc4_zchunk, nc4_tchunk, fchunksize
!external :: getarg
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!End of definitions
!--------------------------------------------------------------------------------
!0. OMP setup
!$OMP PARALLEL DEFAULT(NONE) SHARED(nthreads)
!$OMP MASTER
!$ nthreads = omp_get_num_threads()
!$ WRITE(numout,*) 'Running OMP with ',nthreads,' thread(s).'
!$OMP END MASTER
!$OMP END PARALLEL
!--------------------------------------------------------------------------------
!1.0 Check netcdf version for warning
clibnc = TRIM(nf90_inq_libvers())
IF (ICHAR(clibnc(1:1)) <= 3) THEN
PRINT *, '=========================================================='
PRINT *, 'You are using old netcdf library (',TRIM(clibnc),').'
PRINT *, 'REBUILD_NEMO support of old netcdf library will end soon'
PRINT *, 'please consider moving to netcdf 4 or higher'
PRINT *, '=========================================================='
END IF
!1.1 Get the namelist path
!Determine the number of arguments on the command line
nargs=COMMAND_ARGUMENT_COUNT()
!Check that the required argument is present, if it is not then set it to the default value: nam_rebuild
IF (nargs == 0) THEN
WRITE(numout,*)
WRITE(numout,*) 'W A R N I N G : Namelist path not supplied as command line argument. Using default, nam_rebuild.'
cnampath='nam_rebuild'
ELSE IF (nargs == 1) THEN
CALL GET_COMMAND_ARGUMENT(1, cnampath)
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ELSE
WRITE(numerr,*) 'E R R O R ! : Incorrect number of command line arguments. Please supply only'
WRITE(numerr,*) ' the path to the namelist file, or no arguments to use default value'
STOP 1
END IF
! check presence of namelist
INQUIRE(FILE=cnampath, EXIST=l_namexist)
IF (.NOT. l_namexist) THEN
WRITE(numout,*)
WRITE(numout,*) 'E R R O R : Namelist '//TRIM(cnampath)//' not present.'
STOP 42
END IF
!1.2 Read in the namelist
dims(:) = ""
nslicesize = 0
deflate_level = 0
OPEN( UNIT=numnam, FILE=TRIM(cnampath), FORM='FORMATTED', STATUS='OLD' )
READ( numnam, nam_rebuild )
CLOSE( numnam )
IF( .NOT. ALL(dims(:) == "") ) l_findDims = .false.
!1.3 Set up the filenames and fileids
ALLOCATE(filenames(ndomain))
IF (l_verbose) WRITE(numout,*) 'Rebuilding the following files:'
DO ifile = 1, ndomain
WRITE(suffix,'(i4.4)') ifile-1
filenames(ifile) = TRIM(filebase)//'_'//TRIM(suffix)//'.nc'
IF (l_verbose) WRITE(numout,*) TRIM(filenames(ifile))
END DO
ALLOCATE(inncids(ndomain))
!---------------------------------------------------------------------------
!2. Read in the global dimensions from the first input file and set up the output file
CALL check_nf90( nf90_open( TRIM(filenames(1)), nf90_share, ncid ) )
CALL check_nf90( nf90_inquire( ncid, ndims, nvars, natts ) )
!2.0 Read in the total number of processors the file is expecting and check it's correct
CALL check_nf90( nf90_get_att( ncid, nf90_global, 'DOMAIN_number_total', ndomain_file ) )
IF( ndomain /= ndomain_file ) THEN
WRITE(numerr,*) 'ERROR! : number of files to rebuild in file does not agree with namelist'
WRITE(numerr,*) 'Attribute DOMAIN_number_total is : ', ndomain_file
WRITE(numerr,*) 'Number of files specified in namelist is: ', ndomain
STOP 2
ENDIF
!2.1 Set up the output file
#if defined key_netcdf4
CALL check_nf90( nf90_create( TRIM(filebase)//'.nc', nf90_netcdf4, outid, chunksize=fchunksize ) )
#else
CALL check_nf90( nf90_create( TRIM(filebase)//'.nc', nf90_64bit_offset, outid, chunksize=fchunksize ) )
#endif
!2.2 Set up dimensions in output file
!2.2.0 Find out how many dimensions are required to be rebuilt and which ones they are
CALL check_nf90( nf90_inquire_attribute( ncid, nf90_global, 'DOMAIN_dimensions_ids', xtype, rbdims, attid ) )
ALLOCATE(rebuild_dims(rbdims))
CALL check_nf90( nf90_get_att( ncid, nf90_global, 'DOMAIN_dimensions_ids', rebuild_dims ) )
ALLOCATE(global_sizes(rbdims))
CALL check_nf90( nf90_get_att( ncid, nf90_global, 'DOMAIN_size_global', global_sizes ) )
IF (l_verbose) WRITE(numout,*) 'Size of global arrays: ', global_sizes
!2.2.1 Copy the dimensions into the output file apart from rebuild_dims() which are dimensioned globally
ALLOCATE(indimlens(ndims), indimnames(ndims), outdimlens(ndims))
CALL check_nf90( nf90_inquire( ncid, unlimitedDimId = unlimitedDimId ) )
istop = 0
DO idim = 1, ndims
CALL check_nf90( nf90_inquire_dimension( ncid, idim, dimname, dimlen ) )
CALL check_nf90( nf90_get_att( ncid, nf90_global, 'DOMAIN_size_local', local_sizes ) )
indimlens(idim) = dimlen
indimnames(idim) = dimname
IF (l_findDims) THEN
IF( idim == rebuild_dims(1) ) THEN
IF( dimlen == local_sizes(1) ) THEN
dimlen = global_sizes(1)
dims(1) = trim(dimname)
ELSE
istop = 1
ENDIF
ENDIF
IF( rbdims > 1 .AND. idim == rebuild_dims(2) ) THEN
IF( dimlen == local_sizes(2) ) THEN
dimlen = global_sizes(2)
dims(2) = trim(dimname)
ELSE
istop = 1
ENDIF
ENDIF
ELSE ! l_findDims = false
IF( TRIM(dimname) == TRIM(dims(1))) THEN
dimlen = global_sizes(1)
rebuild_dims(1) = idim
ENDIF
IF( rbdims > 1 .AND. TRIM(dimname) == TRIM(dims(2))) THEN
dimlen = global_sizes(2)
rebuild_dims(2) = idim
ENDIF
ENDIF
IF( idim == unlimitedDimId ) THEN
CALL check_nf90( nf90_def_dim( outid, dimname, nf90_unlimited, dimid) )
nmax_unlimited = dimlen
ELSE
CALL check_nf90( nf90_def_dim( outid, dimname, dimlen, dimid) )
ENDIF
outdimlens(idim) = dimlen
END DO
! nmax_unlimited is only used for time-slicing so we set it to be at least 1 to
! account for files with no record dimension or zero length record dimension(!)
nmax_unlimited = max(nmax_unlimited,1)
IF( istop == 1 ) THEN
WRITE(numerr,*) 'ERROR! : DOMAIN_local_sizes attribute does not match rebuild dimension lengths in the first file'
WRITE(numerr,*) 'Attribute DOMAIN_local_sizes is : ', local_sizes
WRITE(numerr,*) 'Dimensions to be rebuilt are of size : ', outdimlens(rebuild_dims(1)), outdimlens(rebuild_dims(2))
STOP 3
ENDIF
IF (l_findDims) THEN
IF (l_verbose) WRITE(numout,*) 'Finding rebuild dimensions from the first file...'
ELSE
IF (l_verbose) WRITE(numout,*) 'Using rebuild dimensions given in namelist...'
ENDIF
IF( rbdims > 1 ) THEN
IF (l_verbose) WRITE(numout,*) 'Rebuilding across dimensions '//TRIM(indimnames(rebuild_dims(1)))// &
& ' and '//TRIM(indimnames(rebuild_dims(2)))
ELSE
IF (l_verbose) WRITE(numout,*) 'Rebuilding across dimension '//TRIM(indimnames(rebuild_dims(1)))
ENDIF
!2.2.2 Copy the global attributes into the output file, apart from those beginning with DOMAIN_
! Also need to change the file_name attribute and the TimeStamp attribute.
DO attid = 1, natts
CALL check_nf90( nf90_inq_attname( ncid, nf90_global, attid, attname ) )
IF( INDEX( attname, "DOMAIN_" ) == 1 ) CYCLE
IF( INDEX( attname, "file_name") == 1 ) CYCLE
IF( INDEX( attname, "associate_file") == 1 ) CYCLE
IF (l_verbose) WRITE(numout,*) 'Copying attribute '//TRIM(attname)//' into destination file...'
CALL check_nf90( nf90_copy_att( ncid, nf90_global, attname, outid, nf90_global ) )
END DO
CALL check_nf90( nf90_put_att( outid, nf90_global, "file_name", TRIM(filebase)//'.nc') )
IF (l_verbose) WRITE(numout,*) 'Writing new file_name attribute'
CALL DATE_AND_TIME ( date=date, time=time, zone=zone )
timestamp = date(7:8) // "/" // date(5:6) // "/" // date(1:4) // " " // &
time(1:2) // ":" // time(3:4) // ":" // time(5:6) // " " // &
zone
CALL check_nf90( nf90_put_att( outid, nf90_global, "TimeStamp", timestamp ) )
IF (l_verbose) WRITE(numout,*) 'Writing new TimeStamp attribute'
!2.2.3 Copy the variable definitions and attributes into the output file.
ALLOCATE(mdiVals(nvars))
mdiVals(:)=0
DO jv = 1, nvars
CALL check_nf90( nf90_inquire_variable( ncid, jv, varname, xtype, ndims, dimids, natts ) )
ALLOCATE(outdimids(ndims))
ALLOCATE(chunksizes(ndims))
IF( ndims > 0 ) then
DO idim = 1, ndims
outdimids(idim) = dimids(idim)
chunksizes(idim) = outdimlens(dimids(idim))
cdim='|'//TRIM(indimnames(dimids(idim)))//'|'
! trick to find var in a list of suggestion (var0 and var1 : INDEX(|var0|var1|,|var|)
cdimlst='|x|x_grid_T|x_grid_U|x_grid_V|x_grid_W|'
if( INDEX(TRIM(cdimlst),TRIM(cdim)) > 0 ) &
& chunksizes(idim) = min(outdimlens(dimids(idim)), max(nc4_xchunk,1))
cdimlst='|y|y_grid_T|y_grid_U|y_grid_V|y_grid_W|'
if( INDEX(TRIM(cdimlst),TRIM(cdim)) > 0 ) &
& chunksizes(idim) = min(outdimlens(dimids(idim)), max(nc4_ychunk,1))
cdimlst='|z|deptht|depthu|depthv|depthw|depth|nav_lev|basin|'
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if( INDEX(TRIM(cdimlst),TRIM(cdim)) > 0 ) &
& chunksizes(idim) = min(outdimlens(dimids(idim)), max(nc4_zchunk,1))
cdimlst='|t|time|time_counter|'
if( INDEX(TRIM(cdimlst),TRIM(cdim)) > 0 ) &
& chunksizes(idim) = min(outdimlens(dimids(idim)), max(nc4_tchunk,1))
END DO
#if defined key_netcdf4
CALL check_nf90( nf90_def_var( outid, varname, xtype, outdimids, varid, &
deflate_level=deflate_level ) )
IF (l_verbose) WRITE(numout,*) 'Dims : ',ndims, outdimids(1:ndims)
IF (l_verbose) WRITE(numout,*) 'names : ',(TRIM(indimnames(dimids(idim)))//' ',idim=1,ndims)
IF (l_verbose) WRITE(numout,*) 'lens : ',(outdimlens(dimids(idim)),idim=1,ndims)
IF (l_verbose) WRITE(numout,*) 'Chunking: ',chunksizes
IF (l_verbose) WRITE(numout,*) 'Deflation : ',deflate_level
IF (l_verbose) WRITE(numout,*) 'Chunk algo: ',chunkalg
CALL check_nf90( nf90_def_var_chunking( outid, varid, chunkalg, &
& chunksizes ) )
ELSE
CALL check_nf90( nf90_def_var( outid, varname, xtype, outdimids, varid ) )
#else
CALL check_nf90( nf90_def_var( outid, varname, xtype, outdimids, varid ) )
#endif
ENDIF
DEALLOCATE(outdimids)
DEALLOCATE(chunksizes)
IF (l_verbose) WRITE(numout,*) 'Defining variable '//TRIM(varname)//'...'
IF( natts > 0 ) THEN
DO attid = 1, natts
CALL check_nf90( nf90_inq_attname( ncid, varid, attid, attname ) )
IF ( attname == "_FillValue" ) THEN
CALL check_nf90( nf90_get_att( ncid, varid, attname, rmdi ) )
mdiVals(jv)=rmdi
ENDIF
CALL check_nf90( nf90_copy_att( ncid, varid, attname, outid, varid ) )
END DO
ENDIF
END DO
!2.3 End definitions in output file and copy 1st file ncid to the inncids array
CALL check_nf90( nf90_enddef( outid ) )
inncids(1) = ncid
IF (l_verbose) WRITE(numout,*) 'Finished defining output file.'
!---------------------------------------------------------------------------
!3. Read in data from each file for each variable
!3.1 Open each file and store the ncid in inncids array
IF (l_verbose) WRITE(numout,*) 'Opening input files...'
! Set a file chunk cache size for the processor-domain files that scales with the number of processors
patchchunk = max(8192, fchunksize/ndomain)
! open files
DO ifile = 2, ndomain
CALL check_nf90( nf90_open( TRIM(filenames(ifile)), nf90_share, ncid, chunksize=patchchunk ) )
inncids(ifile) = ncid
END DO
IF (l_verbose) WRITE(numout,*) 'All input files open.'
DO jv = 1, nvars
ValMin = 1.e10
ValMax = -1.e10
l_valid = .false.
istop = nf90_noerr
nt = 1
ntslice = nmax_unlimited
IF( nslicesize == 0 ) nslicesize = nmax_unlimited
!3.2 Inquire variable to find out name and how many dimensions it has
! and importantly whether it contains the dimensions in rebuild_dims()
ncid = inncids(1)
CALL check_nf90( nf90_inquire_variable( ncid, jv, varname, xtype, ndims, dimids, natts ) )
l_noRebuild = .true.
IF( ANY( dimids(1:ndims) == rebuild_dims(1) )) l_noRebuild = .false.
IF( rbdims > 1 ) THEN
IF( ANY( dimids(1:ndims) == rebuild_dims(2) )) l_noRebuild = .false.
ENDIF
!3.2.0 start while loop for time slicing
DO WHILE( nt <= nmax_unlimited )
IF( ndims > 3 ) THEN
ntslice = MIN( nslicesize, nmax_unlimited + 1 - nt )
ENDIF
IF (l_noRebuild) THEN
IF( nslicesize == nmax_unlimited .OR. ndims <= 3 ) THEN
IF (l_verbose) WRITE(numout,*) 'Copying data from variable '//TRIM(varname)//'...'
ELSE
IF (l_verbose) WRITE(numout,'(A,I3,A,I3,A)') ' Copying data from variable ' &
& //TRIM(varname)//' for slices ',nt,' to ',nt+ntslice-1,' ...'
ENDIF
!3.2.1 If rebuilding not required then just need to read in variable
! for copying direct into output file after the OMP (files) loop.
IF( ndims == 0 ) THEN
SELECT CASE( xtype )
CASE( NF90_BYTE )
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_0d_i1 ) )
CASE( NF90_SHORT )
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_0d_i2 ) )
CASE( NF90_INT )
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_0d_i4 ) )
CASE( NF90_FLOAT )
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_0d_sp ) )
CASE( NF90_DOUBLE )
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_0d_dp ) )
CASE DEFAULT
WRITE(numerr,*) 'Unknown nf90 type: ', xtype
STOP 4
END SELECT
ELSEIF( ndims == 1 ) THEN
SELECT CASE( xtype )
CASE( NF90_BYTE )
ALLOCATE(globaldata_1d_i1(indimlens(dimids(1))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_1d_i1 ) )
CASE( NF90_SHORT )
ALLOCATE(globaldata_1d_i2(indimlens(dimids(1))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_1d_i2 ) )
CASE( NF90_INT )
ALLOCATE(globaldata_1d_i4(indimlens(dimids(1))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_1d_i4 ) )
CASE( NF90_FLOAT )
ALLOCATE(globaldata_1d_sp(indimlens(dimids(1))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_1d_sp ) )
CASE( NF90_DOUBLE )
ALLOCATE(globaldata_1d_dp(indimlens(dimids(1))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_1d_dp ) )
CASE DEFAULT
WRITE(numerr,*) 'Unknown nf90 type: ', xtype
STOP 4
END SELECT
ELSEIF( ndims == 2 ) THEN
SELECT CASE( xtype )
CASE( NF90_BYTE )
ALLOCATE(globaldata_2d_i1(indimlens(dimids(1)),indimlens(dimids(2))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_2d_i1 ) )
CASE( NF90_SHORT )
ALLOCATE(globaldata_2d_i2(indimlens(dimids(1)),indimlens(dimids(2))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_2d_i2 ) )
CASE( NF90_INT )
ALLOCATE(globaldata_2d_i4(indimlens(dimids(1)),indimlens(dimids(2))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_2d_i4 ) )
CASE( NF90_FLOAT )
ALLOCATE(globaldata_2d_sp(indimlens(dimids(1)),indimlens(dimids(2))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_2d_sp ) )
CASE( NF90_DOUBLE )
ALLOCATE(globaldata_2d_dp(indimlens(dimids(1)),indimlens(dimids(2))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_2d_dp ) )
CASE DEFAULT
WRITE(numerr,*) 'Unknown nf90 type: ', xtype
STOP 4
END SELECT
ELSEIF( ndims == 3 ) THEN
SELECT CASE( xtype )
CASE( NF90_BYTE )
ALLOCATE(globaldata_3d_i1(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_3d_i1 ) )
CASE( NF90_SHORT )
ALLOCATE(globaldata_3d_i2(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_3d_i2 ) )
CASE( NF90_INT )
ALLOCATE(globaldata_3d_i4(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_3d_i4 ) )
CASE( NF90_FLOAT )
ALLOCATE(globaldata_3d_sp(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_3d_sp ) )
CASE( NF90_DOUBLE )
ALLOCATE(globaldata_3d_dp(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3))))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_3d_dp ) )
CASE DEFAULT
WRITE(numerr,*) 'Unknown nf90 type: ', xtype
STOP 4
END SELECT
ELSEIF( ndims == 4 ) THEN
SELECT CASE( xtype )
CASE( NF90_BYTE )
ALLOCATE(globaldata_4d_i1(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3)),ntslice))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_4d_i1, start=(/1,1,1,nt/) ) )
CASE( NF90_SHORT )
ALLOCATE(globaldata_4d_i2(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3)),ntslice))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_4d_i2, start=(/1,1,1,nt/) ) )
CASE( NF90_INT )
ALLOCATE(globaldata_4d_i4(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3)),ntslice))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_4d_i4, start=(/1,1,1,nt/) ) )
CASE( NF90_FLOAT )
ALLOCATE(globaldata_4d_sp(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3)),ntslice))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_4d_sp, start=(/1,1,1,nt/) ) )
CASE( NF90_DOUBLE )
ALLOCATE(globaldata_4d_dp(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3)),ntslice))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_4d_dp, start=(/1,1,1,nt/) ) )
CASE DEFAULT
WRITE(numerr,*) 'Unknown nf90 type: ', xtype
STOP 4
END SELECT
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652
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654
ELSEIF( ndims == 5 ) THEN
SELECT CASE( xtype )
CASE( NF90_BYTE )
ALLOCATE(globaldata_5d_i1(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3)),indimlens(dimids(4)),ntslice))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_5d_i1, start=(/1,1,1,1,nt/) ) )
CASE( NF90_SHORT )
ALLOCATE(globaldata_5d_i2(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3)),indimlens(dimids(4)),ntslice))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_5d_i2, start=(/1,1,1,1,nt/) ) )
CASE( NF90_INT )
ALLOCATE(globaldata_5d_i4(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3)),indimlens(dimids(4)),ntslice))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_5d_i4, start=(/1,1,1,1,nt/) ) )
CASE( NF90_FLOAT )
ALLOCATE(globaldata_5d_sp(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3)),indimlens(dimids(4)),ntslice))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_5d_sp, start=(/1,1,1,1,nt/) ) )
CASE( NF90_DOUBLE )
ALLOCATE(globaldata_5d_dp(indimlens(dimids(1)),indimlens(dimids(2)), &
& indimlens(dimids(3)),indimlens(dimids(4)),ntslice))
CALL check_nf90( nf90_get_var( ncid, jv, globaldata_5d_dp, start=(/1,1,1,1,nt/) ) )
CASE DEFAULT
WRITE(numerr,*) 'Unknown nf90 type: ', xtype
STOP 4
END SELECT
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ENDIF
ELSE ! l_noRebuild = .false.
!3.2.2 For variables that require rebuilding we need to read in from all ndomain files
! Here we allocate global variables ahead of looping over files
IF( nslicesize == nmax_unlimited .OR. ndims <= 3 ) THEN
IF (l_verbose) WRITE(numout,*) 'Rebuilding data from variable '//TRIM(varname)//'...'
ELSE
IF (l_verbose) WRITE(numout,'(A,I3,A,I3,A)') ' Rebuilding data from variable ' &
& //TRIM(varname)//' for slices ',nt,' to ',nt+ntslice-1,' ...'
ENDIF
IF( ndims == 1 ) THEN
SELECT CASE( xtype )
CASE( NF90_BYTE )
ALLOCATE(globaldata_1d_i1(outdimlens(dimids(1))))
IF (l_maskout) globaldata_1d_i1(:)=mdiVals(jv)
CASE( NF90_SHORT )
ALLOCATE(globaldata_1d_i2(outdimlens(dimids(1))))
IF (l_maskout) globaldata_1d_i2(:)=mdiVals(jv)
CASE( NF90_INT )
ALLOCATE(globaldata_1d_i4(outdimlens(dimids(1))))
IF (l_maskout) globaldata_1d_i4(:)=mdiVals(jv)
CASE( NF90_FLOAT )
ALLOCATE(globaldata_1d_sp(outdimlens(dimids(1))))
IF (l_maskout) globaldata_1d_sp(:)=mdiVals(jv)
CASE( NF90_DOUBLE )
ALLOCATE(globaldata_1d_dp(outdimlens(dimids(1))))
IF (l_maskout) globaldata_1d_dp(:)=mdiVals(jv)
CASE DEFAULT
WRITE(numerr,*) '1d alloc unknown nf90 type: ', xtype
STOP 4
END SELECT
ELSEIF( ndims == 2 ) THEN
SELECT CASE( xtype )
CASE( NF90_BYTE )
ALLOCATE(globaldata_2d_i1(outdimlens(dimids(1)),outdimlens(dimids(2))))
IF (l_maskout) globaldata_2d_i1(:,:)=mdiVals(jv)
CASE( NF90_SHORT )
ALLOCATE(globaldata_2d_i2(outdimlens(dimids(1)),outdimlens(dimids(2))))
IF (l_maskout) globaldata_2d_i2(:,:)=mdiVals(jv)
CASE( NF90_INT )
ALLOCATE(globaldata_2d_i4(outdimlens(dimids(1)),outdimlens(dimids(2))))
IF (l_maskout) globaldata_2d_i4(:,:)=mdiVals(jv)
CASE( NF90_FLOAT )
ALLOCATE(globaldata_2d_sp(outdimlens(dimids(1)),outdimlens(dimids(2))))
IF (l_maskout) globaldata_2d_sp(:,:)=mdiVals(jv)
CASE( NF90_DOUBLE )
ALLOCATE(globaldata_2d_dp(outdimlens(dimids(1)),outdimlens(dimids(2))))
IF (l_maskout) globaldata_2d_dp(:,:)=mdiVals(jv)
CASE DEFAULT
WRITE(numerr,*) '2d alloc unknown nf90 type: ', xtype
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STOP 4
END SELECT
ELSEIF( ndims == 3 ) THEN
SELECT CASE( xtype )
CASE( NF90_BYTE )
ALLOCATE(globaldata_3d_i1(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3))))
IF (l_maskout) globaldata_3d_i1(:,:,:)=mdiVals(jv)
CASE( NF90_SHORT )
ALLOCATE(globaldata_3d_i2(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3))))
IF (l_maskout) globaldata_3d_i2(:,:,:)=mdiVals(jv)
CASE( NF90_INT )
ALLOCATE(globaldata_3d_i4(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3))))
IF (l_maskout) globaldata_3d_i4(:,:,:)=mdiVals(jv)
CASE( NF90_FLOAT )
ALLOCATE(globaldata_3d_sp(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3))))
IF (l_maskout) globaldata_3d_sp(:,:,:)=mdiVals(jv)
CASE( NF90_DOUBLE )
ALLOCATE(globaldata_3d_dp(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3))))
IF (l_maskout) globaldata_3d_dp(:,:,:)=mdiVals(jv)
CASE DEFAULT
WRITE(numerr,*) '3d alloc unknown nf90 type: ', xtype
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STOP 4
END SELECT
ELSEIF( ndims == 4 ) THEN
SELECT CASE( xtype )
CASE( NF90_BYTE )
ALLOCATE(globaldata_4d_i1(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3)),ntslice))
IF (l_maskout) globaldata_4d_i1(:,:,:,:)=mdiVals(jv)
CASE( NF90_SHORT )
ALLOCATE(globaldata_4d_i2(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3)),ntslice))
IF (l_maskout) globaldata_4d_i2(:,:,:,:)=mdiVals(jv)
CASE( NF90_INT )
ALLOCATE(globaldata_4d_i4(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3)),ntslice))
IF (l_maskout) globaldata_4d_i4(:,:,:,:)=mdiVals(jv)
CASE( NF90_FLOAT )
ALLOCATE(globaldata_4d_sp(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3)),ntslice))
IF (l_maskout) globaldata_4d_sp(:,:,:,:)=mdiVals(jv)
CASE( NF90_DOUBLE )
ALLOCATE(globaldata_4d_dp(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3)),ntslice))
IF (l_maskout) globaldata_4d_dp(:,:,:,:)=mdiVals(jv)
CASE DEFAULT
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WRITE(numerr,*) '4d alloc unknown nf90 type: ', xtype
STOP 4
END SELECT
ELSEIF( ndims == 5 ) THEN
SELECT CASE( xtype )
CASE( NF90_BYTE )
ALLOCATE(globaldata_5d_i1(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3)),outdimlens(dimids(4)),ntslice))
IF (l_maskout) globaldata_5d_i1(:,:,:,:,:)=mdiVals(jv)
CASE( NF90_SHORT )
ALLOCATE(globaldata_5d_i2(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3)),outdimlens(dimids(4)),ntslice))
IF (l_maskout) globaldata_5d_i2(:,:,:,:,:)=mdiVals(jv)
CASE( NF90_INT )
ALLOCATE(globaldata_5d_i4(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3)),outdimlens(dimids(4)),ntslice))
IF (l_maskout) globaldata_5d_i4(:,:,:,:,:)=mdiVals(jv)
CASE( NF90_FLOAT )
ALLOCATE(globaldata_5d_sp(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3)),outdimlens(dimids(4)),ntslice))
IF (l_maskout) globaldata_5d_sp(:,:,:,:,:)=mdiVals(jv)
CASE( NF90_DOUBLE )
ALLOCATE(globaldata_5d_dp(outdimlens(dimids(1)),outdimlens(dimids(2)), &
& outdimlens(dimids(3)),outdimlens(dimids(4)),ntslice))
IF (l_maskout) globaldata_5d_dp(:,:,:,:,:)=mdiVals(jv)
CASE DEFAULT
WRITE(numerr,*) '5d alloc unknown nf90 type: ', xtype
WRITE(numerr,*) 'ERROR! : A netcdf variable has more than 5 dimensions which is not taken into account'
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STOP 4
ENDIF
!$OMP PARALLEL DO DEFAULT(NONE) &
!$OMP& PRIVATE(ifile,ncid,xtype,start_pos,local_sizes,InMin,InMax,natts, &
!$OMP& ndims,attid,attname,dimids,idim,dimname,dimlen,unlimitedDimId, &
!$OMP& halo_start,halo_end,idomain,jdomain,rdomain,di,dj,dr, &
!$OMP& localdata_1d_i2,localdata_1d_i4,localdata_1d_sp,localdata_1d_dp, &
!$OMP& localdata_2d_i2,localdata_2d_i4,localdata_2d_sp,localdata_2d_dp, &
!$OMP& localdata_3d_i2,localdata_3d_i4,localdata_3d_sp,localdata_3d_dp, &
!$OMP& localdata_4d_i2,localdata_4d_i4,localdata_4d_sp,localdata_4d_dp, &
!$OMP& localdata_1d_i1,localdata_2d_i1,localdata_3d_i1,localdata_4d_i1) &
!$OMP& SHARED(jv,nvars,varname,filenames,ValMin,ValMax,indimlens,outdimlens,rbdims, &
!$OMP& ndomain,outid,fchunksize,istop,l_valid,nthreads,inncids,rebuild_dims, &
!$OMP& globaldata_1d_i2,globaldata_1d_i4,globaldata_1d_sp,globaldata_1d_dp, &
!$OMP& globaldata_2d_i2,globaldata_2d_i4,globaldata_2d_sp,globaldata_2d_dp, &
!$OMP& globaldata_3d_i2,globaldata_3d_i4,globaldata_3d_sp,globaldata_3d_dp, &
!$OMP& globaldata_4d_i2,globaldata_4d_i4,globaldata_4d_sp,globaldata_4d_dp, &
!$OMP& globaldata_1d_i1,globaldata_2d_i1,globaldata_3d_i1,globaldata_4d_i1, &
!$OMP& ntslice,nt,nmax_unlimited,indimnames,dims,patchchunk)
DO ifile = 1, ndomain
ncid = inncids(ifile)
!$OMP CRITICAL
CALL check_nf90( nf90_get_att( ncid, nf90_global, 'DOMAIN_size_local', local_sizes ), istop )
CALL check_nf90( nf90_get_att( ncid, nf90_global, 'DOMAIN_position_first', start_pos ), istop )
CALL check_nf90( nf90_get_att( ncid, nf90_global, 'DOMAIN_halo_size_start', halo_start ), istop )
CALL check_nf90( nf90_get_att( ncid, nf90_global, 'DOMAIN_halo_size_end', halo_end ), istop )
CALL check_nf90( nf90_inquire_variable( ncid, jv, varname, xtype, ndims, dimids, natts ), istop )
CALL check_nf90( nf90_inquire( ncid, unlimitedDimId = unlimitedDimId ), istop )
!$OMP END CRITICAL
! set defaults for rebuilding so that i is 1st, j 2nd
di=1
dj=2
IF( rbdims == 1 ) THEN
! override defaults above and set other variables
start_pos(2) = 1
local_sizes(2) = outdimlens(3-dimids(2))
halo_end(2) = 0
halo_start(2) = 0
di=rebuild_dims(1)
dj=3-di
ENDIF
!3.3.1 Generate local domain interior sizes from local_sizes and halo sizes
! idomain defines the 1st and last interior points in the i direction and
! jdomain defines the 1st and last interior points in the j direction
idomain(1) = 1 + halo_start(di)
idomain(2) = local_sizes(di) - halo_end(di)
jdomain(1) = 1 + halo_start(dj)
jdomain(2) = local_sizes(dj) - halo_end(dj)
!3.3.2 For rbdims or more dimensions put the data array from this input file into the correct
! part of the output data array. Assume the first dimensions are those to be rebuilt.
IF( ndims == 1 ) THEN
IF( rebuild_dims(1) == 1 ) THEN
dr = di
rdomain = idomain
ELSE
dr = dj
rdomain = jdomain
ENDIF
SELECT CASE( xtype )
CASE( NF90_BYTE )
ALLOCATE(localdata_1d_i1(local_sizes(dr)))
CALL check_nf90( nf90_get_var( ncid, jv, localdata_1d_i1 ), istop )
DO jr = rdomain(1), rdomain(2)
globaldata_1d_i1(start_pos(dr) + jr - 1) = localdata_1d_i1(jr)
END DO
DEALLOCATE(localdata_1d_i1)
CASE( NF90_SHORT )
ALLOCATE(localdata_1d_i2(local_sizes(dr)))
CALL check_nf90( nf90_get_var( ncid, jv, localdata_1d_i2 ), istop )
DO jr = rdomain(1), rdomain(2)
globaldata_1d_i2(start_pos(dr) + jr - 1) = localdata_1d_i2(jr)
END DO
DEALLOCATE(localdata_1d_i2)
CASE( NF90_INT )
ALLOCATE(localdata_1d_i4(local_sizes(dr)))
CALL check_nf90( nf90_get_var( ncid, jv, localdata_1d_i4 ), istop )
DO jr = rdomain(1), rdomain(2)
globaldata_1d_i4(start_pos(dr) + jr - 1) = localdata_1d_i4(jr)
END DO
DEALLOCATE(localdata_1d_i4)
CASE( NF90_FLOAT )
ALLOCATE(localdata_1d_sp(local_sizes(dr)))
CALL check_nf90( nf90_get_var( ncid, jv, localdata_1d_sp ), istop )
DO jr = rdomain(1), rdomain(2)
globaldata_1d_sp(start_pos(dr) + jr - 1) = localdata_1d_sp(jr)
END DO
DEALLOCATE(localdata_1d_sp)
CASE( NF90_DOUBLE )
ALLOCATE(localdata_1d_dp(local_sizes(dr)))
CALL check_nf90( nf90_get_var( ncid, jv, localdata_1d_dp ), istop )
DO jr = rdomain(1), rdomain(2)
globaldata_1d_dp(start_pos(dr) + jr - 1) = localdata_1d_dp(jr)
END DO
DEALLOCATE(localdata_1d_dp)
CASE DEFAULT
WRITE(numerr,*) '1d mapping unknown nf90 type: ', xtype
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istop = istop + 1
END SELECT
ELSEIF( ndims == 2 ) THEN
SELECT CASE( xtype )
CASE( NF90_BYTE )
ALLOCATE(localdata_2d_i1(local_sizes(di),local_sizes(dj)))
CALL check_nf90( nf90_get_var( ncid, jv, localdata_2d_i1 ), istop )
DO jj = jdomain(1), jdomain(2)
DO ji = idomain(1), idomain(2)
globaldata_2d_i1(start_pos(di) + ji - 1, start_pos(dj) + jj - 1) = localdata_2d_i1(ji,jj)
END DO
END DO
DEALLOCATE(localdata_2d_i1)
CASE( NF90_SHORT )
ALLOCATE(localdata_2d_i2(local_sizes(di),local_sizes(dj)))
CALL check_nf90( nf90_get_var( ncid, jv, localdata_2d_i2 ), istop )
DO jj = jdomain(1), jdomain(2)
DO ji = idomain(1), idomain(2)
globaldata_2d_i2(start_pos(di) + ji - 1, start_pos(dj) + jj - 1) = localdata_2d_i2(ji,jj)
END DO
END DO
DEALLOCATE(localdata_2d_i2)
CASE( NF90_INT )
ALLOCATE(localdata_2d_i4(local_sizes(di),local_sizes(dj)))
CALL check_nf90( nf90_get_var( ncid, jv, localdata_2d_i4 ), istop )
DO jj = jdomain(1), jdomain(2)
DO ji = idomain(1), idomain(2)
globaldata_2d_i4(start_pos(di) + ji - 1, start_pos(dj) + jj - 1) = localdata_2d_i4(ji,jj)
END DO
END DO
DEALLOCATE(localdata_2d_i4)
CASE( NF90_FLOAT )
ALLOCATE(localdata_2d_sp(local_sizes(di),local_sizes(dj)))
CALL check_nf90( nf90_get_var( ncid, jv, localdata_2d_sp ), istop )
DO jj = jdomain(1), jdomain(2)
DO ji = idomain(1), idomain(2)
globaldata_2d_sp(start_pos(di) + ji - 1, start_pos(dj) + jj - 1) = localdata_2d_sp(ji,jj)
END DO
END DO
DEALLOCATE(localdata_2d_sp)
CASE( NF90_DOUBLE )
ALLOCATE(localdata_2d_dp(local_sizes(di),local_sizes(dj)))
CALL check_nf90( nf90_get_var( ncid, jv, localdata_2d_dp ), istop )
DO jj = jdomain(1), jdomain(2)
DO ji = idomain(1), idomain(2)
globaldata_2d_dp(start_pos(di) + ji - 1, start_pos(dj) + jj - 1) = localdata_2d_dp(ji,jj)
END DO
END DO
DEALLOCATE(localdata_2d_dp)
CASE DEFAULT
WRITE(numerr,*) '2d mapping unknown nf90 type: ', xtype
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istop = istop + 1
END SELECT
ELSEIF( ndims == 3 ) THEN
SELECT CASE( xtype )
CASE( NF90_BYTE )
ALLOCATE(localdata_3d_i1(local_sizes(di),local_sizes(dj),indimlens(dimids(3))))
CALL check_nf90( nf90_get_var( ncid, jv, localdata_3d_i1 ), istop )
!$OMP PARALLEL DO DEFAULT(NONE) PRIVATE(ji,jj,jk) &
!$OMP& SHARED(idomain,jdomain,indimlens,dimids,start_pos,globaldata_3d_i1,localdata_3d_i1,di,dj)
DO jk = 1, indimlens(dimids(3))
DO jj = jdomain(1), jdomain(2)
DO ji = idomain(1), idomain(2)
globaldata_3d_i1(start_pos(di) + ji - 1, start_pos(dj) + jj - 1, jk) = localdata_3d_i1(ji,jj,jk)
END DO
END DO
END DO
!$OMP END PARALLEL DO
DEALLOCATE(localdata_3d_i1)
CASE( NF90_SHORT )
ALLOCATE(localdata_3d_i2(local_sizes(di),local_sizes(dj),indimlens(dimids(3))))
CALL check_nf90( nf90_get_var( ncid, jv, localdata_3d_i2 ), istop )
!$OMP PARALLEL DO DEFAULT(NONE) PRIVATE(ji,jj,jk) &
!$OMP& SHARED(idomain,jdomain,indimlens,dimids,start_pos,globaldata_3d_i2,localdata_3d_i2,di,dj)
DO jk = 1, indimlens(dimids(3))
DO jj = jdomain(1), jdomain(2)
DO ji = idomain(1), idomain(2)
globaldata_3d_i2(start_pos(di) + ji - 1, start_pos(dj) + jj - 1, jk) = localdata_3d_i2(ji,jj,jk)
END DO
END DO
END DO
!$OMP END PARALLEL DO
DEALLOCATE(localdata_3d_i2)
CASE( NF90_INT )
ALLOCATE(localdata_3d_i4(local_sizes(di),local_sizes(dj),indimlens(dimids(3))))
CALL check_nf90( nf90_get_var( ncid, jv, localdata_3d_i4 ), istop )
!$OMP PARALLEL DO DEFAULT(NONE) PRIVATE(ji,jj,jk) &
!$OMP& SHARED(idomain,jdomain,indimlens,dimids,start_pos,globaldata_3d_i4,localdata_3d_i4,di,dj)
DO jk = 1, indimlens(dimids(3))
DO jj = jdomain(1), jdomain(2)
DO ji = idomain(1), idomain(2)