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!!$pgf90 -I/work/NetCDF/5.1/include -L/work/NetCDF/5.1/lib -l netcdf -L. -l cmor Test/test_dimensionless.f90 -IModules -o cmor_test
!!$pgf90 -g -I/pcmdi/charles_work/NetCDF/include -L/pcmdi/charles_work/NetCDF/lib -lnetcdf -module Modules -IModules -L. -lcmor -I/pcmdi/charles_work/Unidata/include -L/pcmdi/charles_work/Unidata/lib -ludunits Test/test_dimensionless.f90 -o cmor_test
MODULE local_subs
USE cmor_users_functions
PRIVATE
PUBLIC read_coords, read_time, read_3d_input_files, read_2d_input_files
CONTAINS
SUBROUTINE read_coords(alats, alons, plevs, bnds_lat, bnds_lon)
IMPLICIT NONE
DOUBLE PRECISION, INTENT(OUT), DIMENSION(:) :: alats
DOUBLE PRECISION, INTENT(OUT), DIMENSION(:) :: alons
DOUBLE PRECISION, INTENT(OUT), DIMENSION(:) :: plevs
DOUBLE PRECISION, INTENT(OUT), DIMENSION(:,:) :: bnds_lat
DOUBLE PRECISION, INTENT(OUT), DIMENSION(:,:) :: bnds_lon
INTEGER :: i
! data passed to CMOR is stored in an array with longitude varying from -180 to 180
! CMOR will subsequently rearrange the dimension order (and the ordering of the data),
! consistent with the CMIP6 specs.
DO i = 1, SIZE(alons)
alons(i) = (i-0.5)*360./SIZE(alons) - 180.
bnds_lon(1,i) = (i - 1)*360./SIZE(alons) - 180.
bnds_lon(2,i) = i*360./SIZE(alons) - 180.
END DO
DO i = 1, SIZE(alats)
alats(i) = -90. + (i-0.5)*180./SIZE(alats)
bnds_lat(1,i) = -90. + (i-1)*180./SIZE(alats)
bnds_lat(2,i) = -90. + i*180./SIZE(alats)
END DO
! data passed to CMOR is stored in an array with plev varying from 1 to 1000
! CMOR will subsequently reverse the order and scale dimension to store in “Pa”,
! consistent with the CMIP6 specs. CMOR also rearranges the data to make
! consistent.
plevs = (/1., 5., 10., 20., 30., 50., 70., 100., 150., 200., &
250., 300., 400., 500., 600., 700., 850., 925., 1000. /)
RETURN
END SUBROUTINE read_coords
SUBROUTINE read_time(it, time, time_bnds)
IMPLICIT NONE
INTEGER, INTENT(IN) :: it
DOUBLE PRECISION, INTENT(OUT) :: time
DOUBLE PRECISION, INTENT(OUT), DIMENSION(2,1) :: time_bnds
DOUBLE PRECISION :: time0, monthdays, yeardays
! For this example, the calendar is specified as 360_day in the CMOR_input_example.json file
! so time bounds are based on that. Note: CMOR will check and correct any time values that
! do not lie mid-way between the bounds.
monthdays = 30.d0
yeardays = 360.d0
time0 = (2015. - 1850.) * yeardays
time = time0 + (it-0.5)*monthdays
time_bnds(1,1) = time0 + (it-1)*monthdays
time_bnds(2,1) = time0 + it*monthdays
RETURN
END SUBROUTINE read_time
SUBROUTINE read_3d_input_files(it, varname, field)
IMPLICIT NONE
INTEGER, INTENT(IN) :: it
CHARACTER(len=*), INTENT(IN) :: varname
REAL, INTENT(OUT), DIMENSION(:,:,:) :: field
INTEGER :: i, j, k
REAL :: factor, offset
CHARACTER(len=LEN(varname)) :: tmp
tmp = TRIM(ADJUSTL(varname))
SELECT CASE (tmp)
CASE ('CLOUD')
factor = 2.0
offset = 0.
CASE ('U')
factor = 1.0
offset = -40.
CASE ('T')
factor = 1.0
offset = 220.
END SELECT
! it: time (1-2) k: lev (1-19 or 1-5) j: latitude (1-3) i: longitude (1-4)
! before scaling and offset:
! values of longitude differ by 4 or 3
! values of latitude differ by 16
! values for successive times differ by 1.
! smallest value = 0.0
! largest value = 91. (or 49. for cloud)
DO k=1,SIZE(field, 3)
DO j=1,SIZE(field, 2)
field(1,j,k) = ((k-1)*3 + (j-1)*16 + it-1)*factor + offset + 0.225
field(2,j,k) = ((k-1)*3 + (j-1)*16 + it+3)*factor + offset + 0.315
field(3,j,k) = ((k-1)*3 + (j-1)*16 + it+7)*factor + offset + 0.045
field(4,j,k) = ((k-1)*3 + (j-1)*16 + it+10)*factor + offset + 0.135
END DO
END DO
END SUBROUTINE read_3d_input_files
SUBROUTINE read_2d_input_files(it, varname, field)
IMPLICIT NONE
INTEGER, INTENT(IN) :: it
CHARACTER(len=*), INTENT(IN) :: varname
REAL, INTENT(OUT), DIMENSION(:,:) :: field
INTEGER :: i, j
REAL :: factor, offset, scale
CHARACTER(len=LEN(varname)) :: tmp
tmp = TRIM(ADJUSTL(varname))
SELECT CASE (tmp)
CASE ('LATENT')
factor = 4.
offset = 0.
CASE ('TSURF')
factor = 1.0
offset = -15.
CASE ('SOIL_WET')
factor = 2.
offset = 0.
CASE ('PSURF')
factor = 3.
offset = 900.
END SELECT
! For it: time (1-2) j: latitude (1-3) i: longitude (1-4)
! before scaling and offset:
! values of longitude differ by 4
! values of latitude differ by 16
! values for successive times differ by 1.
! smallest value = 0.0
! largest value = 45.0
DO j=1,SIZE(field, 2)
field(1,j) =((j-1)*16 + it-1)*factor + offset + 0.225
field(2,j) =((j-1)*16 + it+3)*factor + offset + 0.315
field(3,j) =((j-1)*16 + it+7)*factor + offset + 0.045
field(4,j) =((j-1)*16 + it+11)*factor + offset + 0.135
END DO
END SUBROUTINE read_2d_input_files
END MODULE local_subs
PROGRAM CMIP6_sample_CMOR_driver
!
! Purpose: To serve as a generic example of an application that
! uses the "Climate Model Output Rewriter" (CMOR)
! CMOR writes CF-compliant netCDF files.
! Its use is strongly encouraged, as it facilitates satisfying
! model output specifications for CMIP6.
!
! Background information for this sample code:
!
! This file should execute as a demonstration.
! The user will need to adapt this example, by replacing the sections that
! extract the 3-d and 2-d fields from his monthly mean "history"
! files (which usually contain many variables but only a single time
! slice). The CMOR code will write each field in a separate file, but
! many monthly mean time-samples will be stored together. These
! constraints partially determine the structure of the code.
!
!
! Record of revisions:
! Date Programmer(s) Description of change
! ==== ========== =====================
! 10/22/03 Rusty Koder Original code
! 3/1/18 Les R. Koder Revised to be consistent
! with CMIP6
! include module that contains the user-accessible cmor functions.
USE cmor_users_functions
USE local_subs
IMPLICIT NONE
! dimension parameters:
! ---------------------------------
INTEGER, PARAMETER :: ntimes = 2 ! number of time samples to process
INTEGER, PARAMETER :: lon = 4 ! number of longitude grid cells
INTEGER, PARAMETER :: lat = 3 ! number of latitude grid cells
INTEGER, PARAMETER :: plev = 19 ! number of standard pressure levels
INTEGER, PARAMETER :: lev = 5 ! number of model levels
INTEGER, PARAMETER :: n2d = 4 ! number of 2-d fields to be treated
INTEGER, PARAMETER :: n3d = 3 ! number of 3-d fields to be treated
! Tables associating the user's variables with CMIP6 standard output
! variables. The user may choose to make this association in a
! different way (e.g., by defining values of pointers that allow him
! to directly retrieve data from a data record containing many
! different variables), but in some way the user will need to map his
! model output onto the Tables specifying the MIP standard output.
! ----------------------------------
! notes:
! The units specified below apply to the user’s data. If these units are
! not the same as required by the CMIP6 data request, CMOR will convert
! the fields to correct units (as in the case of tas (TSURF), which will get
! converted from Celsius to kelvins, and ps (PSURF), which will get converted
! from hPa to Pa).
!
! For hfs (Latent), the “down” entry blow for positive2d , indicates that downward
! fluxes are positive for the users input to CMOR. The data request
! adopts the opposite convention, so CMOR will change the sign of these fluxes.
!
! Both was (TSURF) and mrsos (SOIL_WET) are listed as 2-d fields even though
! each of these has a singleton vertical coordinate. CMOR automatically adds
! this coordinate and will automatically assign it a default value (2 m for was
! and 0.05 m for mrsos, with bounds specified as 0 to 0.1 m). In this example
! the default is overridden below by defining in a call to cmor_axis height2m
! and assigning it a value of 1.5 m.
! My 2-d variable names
CHARACTER (LEN=8), DIMENSION(n2d) :: &
varin2d=(/ 'LATENT ', 'TSURF ', 'SOIL_WET', 'PSURF ' /)
! Units of 2-d data provided to CMOR
CHARACTER (LEN=7), DIMENSION(n2d) :: &
units2d=(/ 'W m-2 ', 'Celsius', 'kg m-2 ', 'hPa ' /)
! positive direction convention for input data
CHARACTER (LEN=4), DIMENSION(n2d) :: &
positive2d= (/ 'down', ' ', ' ', ' ' /)
! CMOR table entry labels for 2-d variables
! note that in CMIP, the height of the surface air temperature
! measurement (was) is defined is defined using a scalar vertical
! coordinate specified in the CMIP_coordinates.json file.
CHARACTER (LEN=5), DIMENSION(n2d) :: &
entry2d = (/ 'hfls ', 'tas ', 'mrsos', 'ps ' /)
! My 3-d variable names
CHARACTER (LEN=5), DIMENSION(n3d) :: &
varin3d=(/'CLOUD', 'U ', 'T '/)
! Units of 3-d data provided to CMOR
CHARACTER (LEN=5), DIMENSION(n3d) :: &
units3d=(/ '% ', 'm s-1', 'K ' /)
! CMOR table entry labels for 3-d variables
! note that cl is cloud fraction, which is reported on model levels,
! while the other variables are reported on standard pressure levels
CHARACTER (LEN=2), DIMENSION(n3d) :: entry3d = (/ 'cl', 'ua', 'ta' /)
! define tables where 2-d variables can be found
CHARACTER (LEN=4), DIMENSION(n2d) :: tables2d = (/ 'Amon', 'Amon', 'Lmon', 'Amon' /)
! uninitialized variables used in interactions with CMOR:
! ---------------------------------------------------------
INTEGER :: error_flag
INTEGER :: zfactor_id
INTEGER, DIMENSION(n2d) :: var2d_ids
INTEGER, DIMENSION(n3d) :: var3d_ids
REAL, DIMENSION(lon,lat) :: data2d
REAL, DIMENSION(lon,lat,plev) :: data3dplev
REAL, DIMENSION(lon,lat,lev) :: data3dlev
DOUBLE PRECISION, DIMENSION(lat) :: alats
DOUBLE PRECISION, DIMENSION(lon) :: alons
DOUBLE PRECISION, DIMENSION(plev) :: plevs
DOUBLE PRECISION, DIMENSION(1) :: time
DOUBLE PRECISION, DIMENSION(2,1):: bnds_time
DOUBLE PRECISION, DIMENSION(2,lat) :: bnds_lat
DOUBLE PRECISION, DIMENSION(2,lon) :: bnds_lon
DOUBLE PRECISION, DIMENSION(lev) :: zlevs
DOUBLE PRECISION, DIMENSION(lev+1) :: zlev_bnds
REAL, DIMENSION(lev) :: a_coeff
REAL, DIMENSION(lev) :: b_coeff
REAL :: p0
REAL, DIMENSION(lev+1) :: a_coeff_bnds
REAL, DIMENSION(lev+1) :: b_coeff_bnds
INTEGER :: ilonA, ilonL, ilatA, ilatL, ipres, ilev, itimA, itimL, iz
! Other local variables:
! ---------------------
INTEGER :: it, m
! ================================
! Execution begins here:
! ================================
! Read coordinate information from model into arrays that will be passed
! to CMOR.
! Read latitude, longitude, and pressure coordinate values into
! alats, alons, and plevs, respectively. Also generate latitude and
! longitude bounds, and store in bnds_lat and bnds_lon, respectively.
! When adapting this code for actual application, the user must
! replace the subroutine that fills the coordinate arrays
! and their bounds with data obtained from their model history files.
! *** possible user-written call ***
CALL read_coords(alats, alons, plevs, bnds_lat, bnds_lon)
! Specify path where tables can be found and indicate that existing
! netCDF files should not be overwritten.
error_flag = cmor_setup(inpath='Test', netcdf_file_action='replace')!,logfile='CMIP6_sample_CMOR_driver.log')
! Define dataset and populate with global attributes (which will be written
! to all files created by this code. The input file contains
! much of the metadata needed to satisfy CMIP6 requirements.
! The path provided in the next statement can be relative or full
error_flag = cmor_dataset_json('CMOR_input_example.json')
! =====================================================
! Define all axes that will be needed:
! =====================================================
! note that hfls, tas, and ps from CMIP6_Amon and mrsos from CMIP6_Lmon
! need latitude, longitude, and time axes using their respective tables.
ilatA = cmor_axis( &
table='Tables/CMIP6_Amon.json', &
table_entry='latitude', &
units='degrees_north', &
length=lat, &
coord_vals=alats, &
cell_bounds=bnds_lat)
ilatL = cmor_axis( &
table='Tables/CMIP6_Lmon.json', &
table_entry='latitude', &
units='degrees_north', &
length=lat, &
coord_vals=alats, &
cell_bounds=bnds_lat)
! note that in this example, the users input fields are stored such
! that longitudes are in the range -180 to 180. The longitude axis
! contains the longitude values (and bounds) ordered the same as the
! user’s data. CMOR will reorder these and also reorder the variable
! fields to be consistent with the CMIP6 output requirements in which
! longitudes are in the range 0 to 360.
ilonA = cmor_axis( &
table='Tables/CMIP6_Amon.json', &
table_entry='longitude', &
length=lon, &
units='degrees_east', &
coord_vals=alons, &
cell_bounds=bnds_lon)
ilonL = cmor_axis( &
table='Tables/CMIP6_Lmon.json', &
table_entry='longitude', &
length=lon, &
units='degrees_east', &
coord_vals=alons, &
cell_bounds=bnds_lon)
! note that in this example, the users input fields are stored with
! pressure levels ordered from the top of the atmosphere to the surface.
! The plev axis defined here there fore stores values from 1. to 1000. hPa
! for consistency with the data. CMOR will reorder these and also reorder
! the variable fields to be consistent with the CMIP6 requirements in which
! the vertical coordinate is stored from the surface to the top of the atmosphere.
! Note also that the pressure level units will be converted from hPa to Pa
! to make them consistent with the data request.
ipres = cmor_axis( &
table='Tables/CMIP6_Amon.json', &
table_entry='plev19', &
units='hPa', &
length=plev, &
coord_vals=plevs)
! note that the time axis is defined next, but the time coordinate
! values and bounds will be passed to cmor through function
! cmor_write (later, below).
itimA = cmor_axis( &
table='Tables/CMIP6_Amon.json', &
table_entry='time', &
units='days since 1850-1-1', &
length=ntimes)
itimL = cmor_axis( &
table='Tables/CMIP6_Lmon.json', &
table_entry='time', &
units='days since 1850-1-1', &
length=ntimes)
! define model eta levels (although these must be provided, CMOR will
! replace them with a+b before writing the netCDF file; this is done
! for consistency with the CF conventions)
zlevs = (/ 0.1, 0.3, 0.55, 0.7, 0.9 /)
zlev_bnds=(/ 0.,.2, .42, .62, .8, 1. /)
ilev = cmor_axis( &
table='Tables/CMIP6_Amon.json', &
table_entry='standard_hybrid_sigma', &
length=lev, &
units = '1', &
coord_vals=zlevs, &
cell_bounds=zlev_bnds)
! The height2m single-valued coordinate axis only needs to be defined if you
! want to override the default coordinate value of 2.0 m (as we do in
! this example). This axis does not need to be explicitly associated with
! any (via function cmor_variable) because the information is automatically
! provided by CMOR based on table information.
! Note: each of the external CMOR tables, when imported, gets amended with
! the addition of the coordinate information included in
! CMIP6_coordinate.json and CMIP6_formula_terms.json, which is why
! the coord_vals can be overridden via this call accessing
! CMIP6_Amon.json.
iz = cmor_axis( &
table='Tables/CMIP6_Amon.json', &
table_entry='height2m', &
units='m', &
length=1, &
coord_vals=(/ 1.5 /) )
! =====================================================
! Define all z-factors needed to transform from model level to
! pressure (except surface pressure, ps):
! =====================================================
p0 = 1.e3
a_coeff = (/ 0.1, 0.2, 0.3, 0.22, 0.1 /)
b_coeff = (/ 0.0, 0.1, 0.2, 0.5, 0.8 /)
a_coeff_bnds=(/0.,.15, .25, .25, .16, 0./)
b_coeff_bnds=(/0.,.05, .15, .35, .65, 1./)
error_flag = cmor_zfactor( &
zaxis_id=ilev, &
zfactor_name='p0', &
units='hPa', &
zfactor_values = p0)
error_flag = cmor_zfactor( &
zaxis_id=ilev, &
zfactor_name='b', &
axis_ids= (/ ilev /), &
zfactor_values = b_coeff, &
zfactor_bounds = b_coeff_bnds )
error_flag = cmor_zfactor( &
zaxis_id=ilev, &
zfactor_name='a', &
axis_ids= (/ ilev /), &
zfactor_values = a_coeff, &
zfactor_bounds = a_coeff_bnds )
zfactor_id = cmor_zfactor( &
zaxis_id=ilev, &
zfactor_name='ps', &
axis_ids=(/ ilonA, ilatA, itimA /), &
units='hPa' )
! =====================================================
! Define 2-d variables (including one which has an additional
! scalar coordinate)
! =====================================================
DO m=1,n2d
! Use the Lmon axes for mrsos (m==3)
! Otherwise, use Amon axes
IF (m==3) THEN
var2d_ids(m) = cmor_variable( &
table='Tables/CMIP6_'//tables2d(m)//'.json', &
table_entry=entry2d(m), &
units=units2d(m), &
axis_ids=(/ ilonL, ilatL, itimL /), &
missing_value=1.0e28, &
positive=positive2d(m), &
original_name=varin2d(m))
ELSE
var2d_ids(m) = cmor_variable( &
table='Tables/CMIP6_'//tables2d(m)//'.json', &
table_entry=entry2d(m), &
units=units2d(m), &
axis_ids=(/ ilonA, ilatA, itimA /), &
missing_value=1.0e28, &
positive=positive2d(m), &
original_name=varin2d(m))
END IF
ENDDO
! =====================================================
! Define 3-d variables
! =====================================================
! Define the only field to be written by this code that is a function
! of model level
var3d_ids(1) = cmor_variable( &
table='Tables/CMIP6_Amon.json', &
table_entry=entry3d(1), &
units=units3d(1), &
axis_ids=(/ ilonA, ilatA, ilev, itimA /), &
missing_value=1.0e28, &
original_name=varin3d(1))
! Define variables that are a function of pressure
! (3-d variables)
DO m=2,n3d
var3d_ids(m) = cmor_variable( &
table='Tables/CMIP6_Amon.json', &
table_entry=entry3d(m), &
units=units3d(m), &
axis_ids=(/ ilonA, ilatA, ipres, itimA /), &
missing_value=1.0e28, &
original_name=varin3d(m))
ENDDO
PRINT*, ' '
PRINT*, 'completed everything up to writing output fields '
PRINT*, ' '
! =====================================================
! Loop through model’s history files (each containing several different fields,
! but only a single month of data, averaged over the month). Then
! extract fields of interest and write these to netCDF files (with
! one field per file, but all months included in the loop).
! =====================================================
time_loop: DO it=1, ntimes
! In the following code to write out 3d and 2d fields, the
! subroutines (read_3d_input_files and read_2d_input_files) retrieve
! the requested fields and store them in
! data3d and data2d, respectively. In addition
! (read_time) retrieves the time and time-bounds associated with the
! time sample (in units of 'days since 1850-1-1’, consistent with the
! axis definitions above). The bounds are set to the beginning and
! the end of the month retrieved, indicating the averaging period.
! For application to real model output, user must write a code
! to obtain the times and time-bounds for the time slice.
! The following line is simply a place-holder for
! the user's code, which should replace it.
CALL read_time(it, time(1), bnds_time)
! Cycle through the 2-d fields, retrieve the requested variable and
! append each to the appropriate netCDF file.
! =====================================================
! Write 1 time-slice of each 2-d field
! =====================================================
DO m=1,n2d
! The user must write the code that fills the arrays of data
! that will be passed to CMOR. The following line is simply a
! a place-holder for the user's code, which should replace it.
call read_2d_input_files(it, varin2d(m), data2d)
! append a single time sample of data for a single field to
! the appropriate netCDF file.
error_flag = cmor_write( &
var_id = var2d_ids(m), &
data = data2d, &
ntimes_passed = 1, &
time_vals = time, &
time_bnds = bnds_time )
IF (error_flag < 0) THEN
! write diagnostic messages to standard output device
write(*,*) ' Error encountered writing field ', entry2d(m), &
' which was originally named ', varin2d(m)
write(*,*) ' Was processing time sample: ', time
END IF
END DO
! =====================================================
! Write 1 time-slice of each 3-d field
! =====================================================
! Now treat a single 3-d field that is a reported on model levels.
! Then loop through other 3-d fields (reported on pressure levels)
! The user must write the code that fills the arrays of data
! that will be passed to CMOR. The following line is simply a
! a place-holder for the user's code, which should replace it.
CALL read_3d_input_files(it, varin3d(1), data3dlev)
! The following writes cloud fraction (cl), which is the only
! 3-d field that is on model levels (rather than pressure levels)
error_flag = cmor_write( &
var_id = var3d_ids(1), &
data = data3dlev, &
ntimes_passed = 1, &
time_vals = time, &
time_bnds = bnds_time )
! This model uses eta-coordinates, which needs surface pressure
! to generate pressure levels, so retrieve and write ps now:
CALL read_2d_input_files(it, varin2d(4), data2d)
error_flag = cmor_write( &
var_id = zfactor_id, &
data = data2d, &
ntimes_passed = 1, &
time_vals = time, &
time_bnds = bnds_time, &
store_with = var3d_ids(1) )
! Cycle through the other 3-d fields (i.e., those stored on pressure
! levels), and retrieve the requested variable and append each to the
! appropriate netCDF file.
DO m=2,n3d
call read_3d_input_files(it, varin3d(m), data3dplev)
! append a single time sample of data for a single field to
! the appropriate netCDF file.
error_flag = cmor_write( &
var_id = var3d_ids(m), &
data = data3dplev, &
ntimes_passed = 1, &
time_vals = time, &
time_bnds = bnds_time )
IF (error_flag < 0) THEN
! write diagnostic messages to standard output device
write(*,*) ' Error encountered writing field ', entry3d(m), &
' which was originally named ', varin3d(m)
write(*,*) ' Was processing time sample: ', time
END IF
END DO
ENDDO time_loop
! =====================================================
! Close all files opened by CMOR.
! =====================================================
error_flag = cmor_close()
print*, ' '
print*, '******************************'
print*, ' '
print*, 'CMIP6_sample_CMOR_driver code executed to completion '
print*, ' '
print*, '******************************'
END PROGRAM CMIP6_sample_CMOR_driver
! Need to CHECK “CMOR_input_example.json” file:
! 4) parent_mip_era = “CMIP6” or “no parent”? not “N/A” why PrePARE missed this?
! 5) parent_experiment wrong Why not caught by PrePARE? not even in the CV
! 8) check “source” isn’t this gotten from CV?
|