Unable to convert to GRIB2
Added by Oriol Ciurana about 6 years ago
I'm trying to convert a netcdf file from CMEMS (Marine Copernicus) to GRIB2 format without success. I have been able to convert other CMEMS netcdf files to GRIB2 without any problem so I suspect than this netcdf file (I attach it) has some kind of peculiarity that I'm missing out.
Previous to the conversion, I filter the desired variable (thetao) and vertical level (depth) with NCKS:
ncks -O -h -v thetao -d depth,0,0 metoffice_foam1_amm15_NWS_TMB_TEM_b20190212_hi20190212.nc filtered.nc
The resulted file "filtered.nc":
netcdf filtered {
dimensions:
depth = 1 ;
lat = 1240 ;
lon = 958 ;
time = UNLIMITED ; // (24 currently)
variables:
float depth(depth) ;
depth:units = "1" ;
depth:positive = "down" ;
depth:standard_name = "ocean_s_coordinate" ;
depth:long_name = "Model levels at surface, mid water column and near bed" ;
depth:axis = "Z" ;
float lat(lat) ;
lat:nav_model = "grid_T" ;
lat:long_name = "latitude" ;
lat:standard_name = "latitude" ;
lat:cell_methods = "longitude: mean" ;
lat:units = "degrees_north" ;
lat:axis = "Y" ;
float lon(lon) ;
lon:nav_model = "grid_T" ;
lon:long_name = "longitude" ;
lon:standard_name = "longitude" ;
lon:cell_methods = "latitude: mean" ;
lon:units = "degrees_east" ;
lon:axis = "X" ;
short thetao(time, depth, lat, lon) ;
thetao:_FillValue = -32768s ;
thetao:long_name = "Sea Water Potential Temperature" ;
thetao:standard_name = "sea_water_potential_temperature" ;
thetao:scale_factor = 0.001 ;
thetao:units = "degrees_C" ;
thetao:missing_value = -32768s ;
thetao:valid_max = 30000s ;
thetao:valid_min = -30000s ;
thetao:add_offset = 25. ;
double time(time) ;
time:units = "seconds since 2019-02-10 00:00:00" ;
time:long_name = "Validity time" ;
time:standard_name = "time" ;
time:calendar = "Gregorian" ;
time:axis = "T" ;
// global attributes:
:grid_resolution = "Lat-lon 1.5 km" ;
:stop_time = "23:59Z" ;
:title = "hourly-instantaneous potential temperature " ;
:model_version = "AMM15v1" ;
:file_quality_index = "0s" ;
:start_time = "00:00Z" ;
:product_version = "1.0" ;
:Conventions = "CF-1.0" ;
:source = "UK Met Office Operational Suite, Atlantic Margin Model FOAM 1.5 km (tidal) run 2019-02-12" ;
:contact = "servicedesk.cmems@mercator-ocean.eu" ;
:netcdf-version-id = "netCDF-4" ;
:start_date = "2019-02-12" ;
:stop_date = "2019-02-12" ;
:references = "http://marine.copernicus.eu/" ;
:creation_date = "2019-02-12 00:00Z" ;
:institution = "UK Met Office" ;
:history = "See source and creation_date attributes" ;
}
And then, I do the conversion to GRIB2 with CDO with apparently no errors:
cdo -f grb2 -setparam,0.3.10 -setltype,1 -setlevel,0 filtered.nc filtered.grb2 cdo setparam: Started child process "setltype,1 -setlevel,0 filtered.nc (pipe1.1)". cdo(2) setltype: Started child process "setlevel,0 filtered.nc (pipe2.1)". cdo(3) setlevel: Processed 28510080 values from 1 variable over 24 timesteps ( 0.89s ) cdo(2) setltype: Processed 28510080 values from 1 variable over 24 timesteps ( 0.89s ) cdo setparam: Processed 28510080 values from 1 variable over 24 timesteps ( 0.89s 70MB )
The resulted GRIB2 file:
cdo sinfo filtered.grb2
File format : GRIB2
-1 : Institut Source T Steptype Levels Num Points Num Dtype : Parameter ID
1 : unknown unknown v instant 1 1 1187920 1 P16 : 0.3.10
Grid coordinates :
1 : lonlat : points=1187920 (958x1240)
lon : 344 to 373 by 0.030303 degrees_east
lat : 46 to 62.74385 by 0.013514 degrees_north
Vertical coordinates :
1 : surface : levels=1
Time coordinate : unlimited steps
RefTime = 2019-02-10 00:00:00 Units = seconds Calendar = proleptic_gregorian
YYYY-MM-DD hh:mm:ss YYYY-MM-DD hh:mm:ss YYYY-MM-DD hh:mm:ss YYYY-MM-DD hh:mm:ss
2019-02-12 00:30:00 2019-02-12 01:30:00 2019-02-12 02:30:00 2019-02-12 03:30:00
2019-02-12 04:30:00 2019-02-12 05:30:00 2019-02-12 06:30:00 2019-02-12 07:30:00
2019-02-12 08:30:00 2019-02-12 09:30:00 2019-02-12 10:30:00 2019-02-12 11:30:00
2019-02-12 12:30:00 2019-02-12 13:30:00 2019-02-12 14:30:00 2019-02-12 15:30:00
2019-02-12 16:30:00 2019-02-12 17:30:00 2019-02-12 18:30:00 2019-02-12 19:30:00
2019-02-12 20:30:00 2019-02-12 21:30:00 2019-02-12 22:30:00 2019-02-12 23:30:00
cdo sinfo: Processed 1 variable over 24 timesteps ( 0.04s 21MB )
cdo info filtered.grb2
-1 : Date Time Level Gridsize Miss : Minimum Mean Maximum : Parameter ID
1 : 2019-02-12 00:30:00 0 1187920 1187920 : nan : 0.3.10
2 : 2019-02-12 01:30:00 0 1187920 1187920 : nan : 0.3.10
3 : 2019-02-12 02:30:00 0 1187920 1187920 : nan : 0.3.10
4 : 2019-02-12 03:30:00 0 1187920 1187920 : nan : 0.3.10
5 : 2019-02-12 04:30:00 0 1187920 1187920 : nan : 0.3.10
6 : 2019-02-12 05:30:00 0 1187920 1187920 : nan : 0.3.10
7 : 2019-02-12 06:30:00 0 1187920 1187920 : nan : 0.3.10
8 : 2019-02-12 07:30:00 0 1187920 1187920 : nan : 0.3.10
9 : 2019-02-12 08:30:00 0 1187920 1187920 : nan : 0.3.10
10 : 2019-02-12 09:30:00 0 1187920 1187920 : nan : 0.3.10
11 : 2019-02-12 10:30:00 0 1187920 1187920 : nan : 0.3.10
12 : 2019-02-12 11:30:00 0 1187920 1187920 : nan : 0.3.10
13 : 2019-02-12 12:30:00 0 1187920 1187920 : nan : 0.3.10
14 : 2019-02-12 13:30:00 0 1187920 1187920 : nan : 0.3.10
15 : 2019-02-12 14:30:00 0 1187920 1187920 : nan : 0.3.10
16 : 2019-02-12 15:30:00 0 1187920 1187920 : nan : 0.3.10
17 : 2019-02-12 16:30:00 0 1187920 1187920 : nan : 0.3.10
18 : 2019-02-12 17:30:00 0 1187920 1187920 : nan : 0.3.10
19 : 2019-02-12 18:30:00 0 1187920 1187920 : nan : 0.3.10
20 : 2019-02-12 19:30:00 0 1187920 1187920 : nan : 0.3.10
21 : 2019-02-12 20:30:00 0 1187920 1187920 : nan : 0.3.10
22 : 2019-02-12 21:30:00 0 1187920 1187920 : nan : 0.3.10
23 : 2019-02-12 22:30:00 0 1187920 1187920 : nan : 0.3.10
24 : 2019-02-12 23:30:00 0 1187920 1187920 : nan : 0.3.10
cdo info: Processed 28510080 values from 1 variable over 24 timesteps ( 0.15s 31MB )
When I inspect the resulted GRIB2 file, all values appear as missing, but file has 3.5MB size so it seems to have the data.
What's happening?
Thanks in advance,
Oriol
Replies (3)
RE: Unable to convert to GRIB2 - Added by Karin Meier-Fleischer about 6 years ago
Hi Oriol,
I can't reproduce the output results above. Which version of CDO do you use? I used version 1.9.5.
You don't have to use ncks first because CDO can do it at once:
cdo -f grb2 -setparam,0.3.10 -setltype,1 -sellevel,0 metoffice_foam1_amm15_NWS_TMB_TEM_b20190212_hi20190212.nc filtered.grb2
The only warning I've got due to your parameter setting is
gribapiEncode : *** GRIB2 shortName does not correspond to chosen variable name: "sst" ("thetao").
cdo infon filtered.grb2
-1 : Date Time Level Gridsize Miss : Minimum Mean Maximum : Parameter name
1 : 2019-02-12 00:30:00 0 1187920 469720 : 0.0030000 8.8154 13.481 : sst
2 : 2019-02-12 01:30:00 0 1187920 469720 : 0.0080000 8.8146 13.476 : sst
3 : 2019-02-12 02:30:00 0 1187920 469720 : 0.014000 8.8130 13.473 : sst
4 : 2019-02-12 03:30:00 0 1187920 469720 : 0.020000 8.8111 13.469 : sst
5 : 2019-02-12 04:30:00 0 1187920 469720 : 0.026000 8.8091 13.462 : sst
6 : 2019-02-12 05:30:00 0 1187920 469720 : 0.034000 8.8072 13.452 : sst
7 : 2019-02-12 06:30:00 0 1187920 469720 : 0.041000 8.8061 13.449 : sst
8 : 2019-02-12 07:30:00 0 1187920 469720 : 0.050000 8.8061 13.446 : sst
9 : 2019-02-12 08:30:00 0 1187920 469720 : 0.053000 8.8085 13.446 : sst
10 : 2019-02-12 09:30:00 0 1187920 469720 : 0.062000 8.8130 13.447 : sst
11 : 2019-02-12 10:30:00 0 1187920 469720 : 0.073000 8.8196 13.449 : sst
12 : 2019-02-12 11:30:00 0 1187920 469720 : 0.087000 8.8264 13.452 : sst
13 : 2019-02-12 12:30:00 0 1187920 469720 : 0.099000 8.8332 13.456 : sst
14 : 2019-02-12 13:30:00 0 1187920 469720 : 0.11300 8.8393 13.459 : sst
15 : 2019-02-12 14:30:00 0 1187920 469720 : 0.11900 8.8416 13.462 : sst
16 : 2019-02-12 15:30:00 0 1187920 469720 : 0.12400 8.8408 13.468 : sst
17 : 2019-02-12 16:30:00 0 1187920 469720 : 0.12400 8.8379 13.469 : sst
18 : 2019-02-12 17:30:00 0 1187920 469720 : 0.12700 8.8343 13.469 : sst
19 : 2019-02-12 18:30:00 0 1187920 469720 : 0.12500 8.8305 13.468 : sst
20 : 2019-02-12 19:30:00 0 1187920 469720 : 0.083000 8.8270 13.467 : sst
21 : 2019-02-12 20:30:00 0 1187920 469720 : 0.018000 8.8243 13.467 : sst
22 : 2019-02-12 21:30:00 0 1187920 469720 : -0.017000 8.8223 13.467 : sst
23 : 2019-02-12 22:30:00 0 1187920 469720 : -0.027000 8.8212 13.465 : sst
24 : 2019-02-12 23:30:00 0 1187920 469720 : -0.042000 8.8209 13.457 : sst
cdo infon: Processed 28510080 values from 1 variable over 24 timesteps [0.39s 47MB]
-KarinRE: Unable to convert to GRIB2 - Added by Oriol Ciurana about 6 years ago
I'm using cdo 1.9.2.
I'm gonna try it with the last cdo version and I will give you feedback.
Thank you!
RE: Unable to convert to GRIB2 - Added by Oriol Ciurana about 6 years ago
Hi Karin,
In cdo 1.9.5 the conversion works as expected, so it seems to be a problem of the version 1.9.2.
Thank you for your time,
Oriol