cclm_to_cclm – in #12: CCLM Starter Package Support

in #12: CCLM Starter Package Support

I have no problems with ncdump on lffd1989010100c.nc, see the listing below.
I checked the file with ncks -m see below, which gives information about the format. It says “chunked? yes, compressed? yes” which means that the file is in netcdf4 with hdf/zip library applied. I guess this was performed in the gcmtoclm job in the post.tmpl (you should find a nccopy -d 1 or similar command there). It seems to me that you have problems with netcdf4 on your computer systems.
Please check whether the command “nccopy -k 1 lffd1989010100c.nc tmp.nc” works (this converts netcdf4 back to classical netCDF format). If it works check whether “ncdump -h tmp.nc” works. If so, replace lffd1989010100c.nc by tmp.nc and run the model again. Please provide the log file of that test. If it takes this hurdle and stops at the next boundary condition file you really have a problem with netCDF4.

ncks -m /Users/rockel/Downloads/new_to_clm/lffd1989010100c.nc 
FC: type NC_FLOAT, 3 dimensions, 5 attributes, chunked? yes, compressed? yes, packed? no


$ ncdump -h lffd1989010100c.nc
netcdf lffd1989010100c {
dimensions: time = UNLIMITED ; // (1 currently) bnds = 2 ; rlon = 70 ; rlat = 60 ; level = 40 ; level1 = 41 ;
variables: double time(time) ; time:standard_name = “time” ; time:long_name = “time” ; time:units = “seconds since 1989-01-01 00:00:00” ; time:calendar = “proleptic_gregorian” ; time:bounds = “time_bnds” ; double time_bnds(time, bnds) ; time_bnds:long_name = “time bounds” ; time_bnds:units = “seconds since 1989-01-01 00:00:00” ; char rotated_pole ; rotated_pole:long_name = “coordinates of the rotated North Pole” ; rotated_pole:grid_mapping_name = “rotated_latitude_longitude” ; rotated_pole:grid_north_pole_latitude = 55.f ; rotated_pole:grid_north_pole_longitude = -145.f ; float rlon(rlon) ; rlon:standard_name = “grid_longitude” ; rlon:long_name = “rotated longitude” ; rlon:units = “degrees” ; float rlat(rlat) ; rlat:standard_name = “grid_latitude” ; rlat:long_name = “rotated latitude” ; rlat:units = “degrees” ; float lon(rlat, rlon) ; lon:standard_name = “longitude” ; lon:long_name = “longitude” ; lon:units = “degrees_east” ; float lat(rlat, rlon) ; lat:standard_name = “latitude” ; lat:long_name = “latitude” ; lat:units = “degrees_north” ; float vcoord(level1) ; vcoord:long_name = “Height-based hybrid Gal-Chen coordinate” ; vcoord:units = “Pa” ; vcoord:ivctype = 2 ; vcoord:irefatm = 2 ; vcoord:p0sl = 100000. ; vcoord:t0sl = 288.149993896484 ; vcoord:dt0lp = 42. ; vcoord:vcflat = 11430. ; vcoord:delta_t = 75. ; vcoord:h_scal = 10000. ; float HHL ; HHL:standard_name = “altitude” ; HHL:long_name = “height” ; HHL:units = “m” ; HHL:grid_mapping = “rotated_pole” ; HHL:coordinates = “lon lat” ; HHL:positive = “up” ; float HSURF ; HSURF:standard_name = “surface_altitude” ; HSURF:long_name = “surface height” ; HSURF:units = “m” ; HSURF:grid_mapping = “rotated_pole” ; HSURF:coordinates = “lon lat” ; float FIS ; FIS:standard_name = “surface_geopotential” ; FIS:long_name = “surface geopotential” ; FIS:units = “m2 s-2” ; FIS:grid_mapping = “rotated_pole” ; FIS:coordinates = “lon lat” ; float FC(time, rlat, rlon) ; FC:standard_name = “coriolis_parameter” ; FC:long_name = “coriolis parameter” ; FC:units = “s-1” ; FC:grid_mapping = “rotated_pole” ; FC:coordinates = “lon lat” ; float RLAT ; RLAT:standard_name = “latitude” ; RLAT:long_name = “latitude” ; RLAT:units = “radian” ; RLAT:grid_mapping = “rotated_pole” ; RLAT:coordinates = “lon lat” ; float RLON ; RLON:standard_name = “longitude” ; RLON:long_name = “longitude” ; RLON:units = “radian” ; RLON:grid_mapping = “rotated_pole” ; RLON:coordinates = “lon lat” ; float FR_LAND(time, rlat, rlon) ; FR_LAND:standard_name = “land_area_fraction” ; FR_LAND:long_name = “land-sea fraction” ; FR_LAND:units = “1” ; FR_LAND:grid_mapping = “rotated_pole” ; FR_LAND:coordinates = “lon lat” ; float SOILTYP ; SOILTYP:standard_name = “soil_type” ; SOILTYP:long_name = “soil type” ; SOILTYP:units = “1” ; SOILTYP:grid_mapping = “rotated_pole” ; SOILTYP:coordinates = “lon lat” ; SOILTYP:flag_values = 1, 2, 3, 4, 5, 6, 7, 8, 9, 0 ; SOILTYP:flag_meanings = “ice rock sand sandy_loam loam clay_loam clay peat sea_water sea_ice” ; float FOR_E(time, rlat, rlon) ; FOR_E:long_name = “ground fraction covered by evergreen forest” ; FOR_E:units = “-” ; FOR_E:grid_mapping = “rotated_pole” ; FOR_E:coordinates = “lon lat” ; FOR_E:_FillValue = -1.e+20f ; float FOR_D(time, rlat, rlon) ; FOR_D:long_name = “ground fraction covered by deciduous forest” ; FOR_D:units = “-” ; FOR_D:grid_mapping = “rotated_pole” ; FOR_D:coordinates = “lon lat” ; FOR_D:_FillValue = -1.e+20f ; float SSO_STDH(time, rlat, rlon) ; SSO_STDH:long_name = “standard deviation of sub-grid scale orography” ; SSO_STDH:units = “m” ; SSO_STDH:grid_mapping = “rotated_pole” ; SSO_STDH:coordinates = “lon lat” ; SSO_STDH:_FillValue = -1.e+20f ; float SSO_GAMMA(time, rlat, rlon) ; SSO_GAMMA:long_name = “anisotropy of sub-grid scale orography” ; SSO_GAMMA:units = “-” ; SSO_GAMMA:grid_mapping = “rotated_pole” ; SSO_GAMMA:coordinates = “lon lat” ; SSO_GAMMA:_FillValue = -1.e+20f ; float SSO_THETA(time, rlat, rlon) ; SSO_THETA:long_name = “angle between principal axis of orography and east” ; SSO_THETA:units = “rad” ; SSO_THETA:grid_mapping = “rotated_pole” ; SSO_THETA:coordinates = “lon lat” ; SSO_THETA:_FillValue = -1.e+20f ; float SSO_SIGMA(time, rlat, rlon) ; SSO_SIGMA:long_name = “mean slope of sub-grid scale orography” ; SSO_SIGMA:units = “-” ; SSO_SIGMA:grid_mapping = “rotated_pole” ; SSO_SIGMA:coordinates = “lon lat” ; SSO_SIGMA:_FillValue = -1.e+20f ;

// global attributes: :title = “E.Med 0.44 Starter Package subchain” ; :institution = “-” ; :source = “cclm.exe” ; :project_id = “-” ; :experiment_id = “me001” ; :realization = 1 ; :Conventions = “CF-1.0” ; :conventionsURL = “http://www.unidata.ucar.edu/packages/netcdf/conventions.html” ; :contact = “-” ; :references = “http://www.clm-community.eu/” ; :creation_date = “2013-11-06 11:07:58” ;
}

  @burkhardtrockel in #a89907f

I have no problems with ncdump on lffd1989010100c.nc, see the listing below.
I checked the file with ncks -m see below, which gives information about the format. It says “chunked? yes, compressed? yes” which means that the file is in netcdf4 with hdf/zip library applied. I guess this was performed in the gcmtoclm job in the post.tmpl (you should find a nccopy -d 1 or similar command there). It seems to me that you have problems with netcdf4 on your computer systems.
Please check whether the command “nccopy -k 1 lffd1989010100c.nc tmp.nc” works (this converts netcdf4 back to classical netCDF format). If it works check whether “ncdump -h tmp.nc” works. If so, replace lffd1989010100c.nc by tmp.nc and run the model again. Please provide the log file of that test. If it takes this hurdle and stops at the next boundary condition file you really have a problem with netCDF4.

ncks -m /Users/rockel/Downloads/new_to_clm/lffd1989010100c.nc 
FC: type NC_FLOAT, 3 dimensions, 5 attributes, chunked? yes, compressed? yes, packed? no


$ ncdump -h lffd1989010100c.nc
netcdf lffd1989010100c {
dimensions: time = UNLIMITED ; // (1 currently) bnds = 2 ; rlon = 70 ; rlat = 60 ; level = 40 ; level1 = 41 ;
variables: double time(time) ; time:standard_name = “time” ; time:long_name = “time” ; time:units = “seconds since 1989-01-01 00:00:00” ; time:calendar = “proleptic_gregorian” ; time:bounds = “time_bnds” ; double time_bnds(time, bnds) ; time_bnds:long_name = “time bounds” ; time_bnds:units = “seconds since 1989-01-01 00:00:00” ; char rotated_pole ; rotated_pole:long_name = “coordinates of the rotated North Pole” ; rotated_pole:grid_mapping_name = “rotated_latitude_longitude” ; rotated_pole:grid_north_pole_latitude = 55.f ; rotated_pole:grid_north_pole_longitude = -145.f ; float rlon(rlon) ; rlon:standard_name = “grid_longitude” ; rlon:long_name = “rotated longitude” ; rlon:units = “degrees” ; float rlat(rlat) ; rlat:standard_name = “grid_latitude” ; rlat:long_name = “rotated latitude” ; rlat:units = “degrees” ; float lon(rlat, rlon) ; lon:standard_name = “longitude” ; lon:long_name = “longitude” ; lon:units = “degrees_east” ; float lat(rlat, rlon) ; lat:standard_name = “latitude” ; lat:long_name = “latitude” ; lat:units = “degrees_north” ; float vcoord(level1) ; vcoord:long_name = “Height-based hybrid Gal-Chen coordinate” ; vcoord:units = “Pa” ; vcoord:ivctype = 2 ; vcoord:irefatm = 2 ; vcoord:p0sl = 100000. ; vcoord:t0sl = 288.149993896484 ; vcoord:dt0lp = 42. ; vcoord:vcflat = 11430. ; vcoord:delta_t = 75. ; vcoord:h_scal = 10000. ; float HHL ; HHL:standard_name = “altitude” ; HHL:long_name = “height” ; HHL:units = “m” ; HHL:grid_mapping = “rotated_pole” ; HHL:coordinates = “lon lat” ; HHL:positive = “up” ; float HSURF ; HSURF:standard_name = “surface_altitude” ; HSURF:long_name = “surface height” ; HSURF:units = “m” ; HSURF:grid_mapping = “rotated_pole” ; HSURF:coordinates = “lon lat” ; float FIS ; FIS:standard_name = “surface_geopotential” ; FIS:long_name = “surface geopotential” ; FIS:units = “m2 s-2” ; FIS:grid_mapping = “rotated_pole” ; FIS:coordinates = “lon lat” ; float FC(time, rlat, rlon) ; FC:standard_name = “coriolis_parameter” ; FC:long_name = “coriolis parameter” ; FC:units = “s-1” ; FC:grid_mapping = “rotated_pole” ; FC:coordinates = “lon lat” ; float RLAT ; RLAT:standard_name = “latitude” ; RLAT:long_name = “latitude” ; RLAT:units = “radian” ; RLAT:grid_mapping = “rotated_pole” ; RLAT:coordinates = “lon lat” ; float RLON ; RLON:standard_name = “longitude” ; RLON:long_name = “longitude” ; RLON:units = “radian” ; RLON:grid_mapping = “rotated_pole” ; RLON:coordinates = “lon lat” ; float FR_LAND(time, rlat, rlon) ; FR_LAND:standard_name = “land_area_fraction” ; FR_LAND:long_name = “land-sea fraction” ; FR_LAND:units = “1” ; FR_LAND:grid_mapping = “rotated_pole” ; FR_LAND:coordinates = “lon lat” ; float SOILTYP ; SOILTYP:standard_name = “soil_type” ; SOILTYP:long_name = “soil type” ; SOILTYP:units = “1” ; SOILTYP:grid_mapping = “rotated_pole” ; SOILTYP:coordinates = “lon lat” ; SOILTYP:flag_values = 1, 2, 3, 4, 5, 6, 7, 8, 9, 0 ; SOILTYP:flag_meanings = “ice rock sand sandy_loam loam clay_loam clay peat sea_water sea_ice” ; float FOR_E(time, rlat, rlon) ; FOR_E:long_name = “ground fraction covered by evergreen forest” ; FOR_E:units = “-” ; FOR_E:grid_mapping = “rotated_pole” ; FOR_E:coordinates = “lon lat” ; FOR_E:_FillValue = -1.e+20f ; float FOR_D(time, rlat, rlon) ; FOR_D:long_name = “ground fraction covered by deciduous forest” ; FOR_D:units = “-” ; FOR_D:grid_mapping = “rotated_pole” ; FOR_D:coordinates = “lon lat” ; FOR_D:_FillValue = -1.e+20f ; float SSO_STDH(time, rlat, rlon) ; SSO_STDH:long_name = “standard deviation of sub-grid scale orography” ; SSO_STDH:units = “m” ; SSO_STDH:grid_mapping = “rotated_pole” ; SSO_STDH:coordinates = “lon lat” ; SSO_STDH:_FillValue = -1.e+20f ; float SSO_GAMMA(time, rlat, rlon) ; SSO_GAMMA:long_name = “anisotropy of sub-grid scale orography” ; SSO_GAMMA:units = “-” ; SSO_GAMMA:grid_mapping = “rotated_pole” ; SSO_GAMMA:coordinates = “lon lat” ; SSO_GAMMA:_FillValue = -1.e+20f ; float SSO_THETA(time, rlat, rlon) ; SSO_THETA:long_name = “angle between principal axis of orography and east” ; SSO_THETA:units = “rad” ; SSO_THETA:grid_mapping = “rotated_pole” ; SSO_THETA:coordinates = “lon lat” ; SSO_THETA:_FillValue = -1.e+20f ; float SSO_SIGMA(time, rlat, rlon) ; SSO_SIGMA:long_name = “mean slope of sub-grid scale orography” ; SSO_SIGMA:units = “-” ; SSO_SIGMA:grid_mapping = “rotated_pole” ; SSO_SIGMA:coordinates = “lon lat” ; SSO_SIGMA:_FillValue = -1.e+20f ;

// global attributes: :title = “E.Med 0.44 Starter Package subchain” ; :institution = “-” ; :source = “cclm.exe” ; :project_id = “-” ; :experiment_id = “me001” ; :realization = 1 ; :Conventions = “CF-1.0” ; :conventionsURL = “http://www.unidata.ucar.edu/packages/netcdf/conventions.html” ; :contact = “-” ; :references = “http://www.clm-community.eu/” ; :creation_date = “2013-11-06 11:07:58” ;
}

I have no problems with ncdump on lffd1989010100c.nc, see the listing below.
I checked the file with ncks -m see below, which gives information about the format. It says “chunked? yes, compressed? yes” which means that the file is in netcdf4 with hdf/zip library applied. I guess this was performed in the gcmtoclm job in the post.tmpl (you should find a nccopy -d 1 or similar command there). It seems to me that you have problems with netcdf4 on your computer systems.
Please check whether the command “nccopy -k 1 lffd1989010100c.nc tmp.nc” works (this converts netcdf4 back to classical netCDF format). If it works check whether “ncdump -h tmp.nc” works. If so, replace lffd1989010100c.nc by tmp.nc and run the model again. Please provide the log file of that test. If it takes this hurdle and stops at the next boundary condition file you really have a problem with netCDF4.

ncks -m /Users/rockel/Downloads/new_to_clm/lffd1989010100c.nc 
FC: type NC_FLOAT, 3 dimensions, 5 attributes, chunked? yes, compressed? yes, packed? no


$ ncdump -h lffd1989010100c.nc
netcdf lffd1989010100c {
dimensions: time = UNLIMITED ; // (1 currently) bnds = 2 ; rlon = 70 ; rlat = 60 ; level = 40 ; level1 = 41 ;
variables: double time(time) ; time:standard_name = “time” ; time:long_name = “time” ; time:units = “seconds since 1989-01-01 00:00:00” ; time:calendar = “proleptic_gregorian” ; time:bounds = “time_bnds” ; double time_bnds(time, bnds) ; time_bnds:long_name = “time bounds” ; time_bnds:units = “seconds since 1989-01-01 00:00:00” ; char rotated_pole ; rotated_pole:long_name = “coordinates of the rotated North Pole” ; rotated_pole:grid_mapping_name = “rotated_latitude_longitude” ; rotated_pole:grid_north_pole_latitude = 55.f ; rotated_pole:grid_north_pole_longitude = -145.f ; float rlon(rlon) ; rlon:standard_name = “grid_longitude” ; rlon:long_name = “rotated longitude” ; rlon:units = “degrees” ; float rlat(rlat) ; rlat:standard_name = “grid_latitude” ; rlat:long_name = “rotated latitude” ; rlat:units = “degrees” ; float lon(rlat, rlon) ; lon:standard_name = “longitude” ; lon:long_name = “longitude” ; lon:units = “degrees_east” ; float lat(rlat, rlon) ; lat:standard_name = “latitude” ; lat:long_name = “latitude” ; lat:units = “degrees_north” ; float vcoord(level1) ; vcoord:long_name = “Height-based hybrid Gal-Chen coordinate” ; vcoord:units = “Pa” ; vcoord:ivctype = 2 ; vcoord:irefatm = 2 ; vcoord:p0sl = 100000. ; vcoord:t0sl = 288.149993896484 ; vcoord:dt0lp = 42. ; vcoord:vcflat = 11430. ; vcoord:delta_t = 75. ; vcoord:h_scal = 10000. ; float HHL ; HHL:standard_name = “altitude” ; HHL:long_name = “height” ; HHL:units = “m” ; HHL:grid_mapping = “rotated_pole” ; HHL:coordinates = “lon lat” ; HHL:positive = “up” ; float HSURF ; HSURF:standard_name = “surface_altitude” ; HSURF:long_name = “surface height” ; HSURF:units = “m” ; HSURF:grid_mapping = “rotated_pole” ; HSURF:coordinates = “lon lat” ; float FIS ; FIS:standard_name = “surface_geopotential” ; FIS:long_name = “surface geopotential” ; FIS:units = “m2 s-2” ; FIS:grid_mapping = “rotated_pole” ; FIS:coordinates = “lon lat” ; float FC(time, rlat, rlon) ; FC:standard_name = “coriolis_parameter” ; FC:long_name = “coriolis parameter” ; FC:units = “s-1” ; FC:grid_mapping = “rotated_pole” ; FC:coordinates = “lon lat” ; float RLAT ; RLAT:standard_name = “latitude” ; RLAT:long_name = “latitude” ; RLAT:units = “radian” ; RLAT:grid_mapping = “rotated_pole” ; RLAT:coordinates = “lon lat” ; float RLON ; RLON:standard_name = “longitude” ; RLON:long_name = “longitude” ; RLON:units = “radian” ; RLON:grid_mapping = “rotated_pole” ; RLON:coordinates = “lon lat” ; float FR_LAND(time, rlat, rlon) ; FR_LAND:standard_name = “land_area_fraction” ; FR_LAND:long_name = “land-sea fraction” ; FR_LAND:units = “1” ; FR_LAND:grid_mapping = “rotated_pole” ; FR_LAND:coordinates = “lon lat” ; float SOILTYP ; SOILTYP:standard_name = “soil_type” ; SOILTYP:long_name = “soil type” ; SOILTYP:units = “1” ; SOILTYP:grid_mapping = “rotated_pole” ; SOILTYP:coordinates = “lon lat” ; SOILTYP:flag_values = 1, 2, 3, 4, 5, 6, 7, 8, 9, 0 ; SOILTYP:flag_meanings = “ice rock sand sandy_loam loam clay_loam clay peat sea_water sea_ice” ; float FOR_E(time, rlat, rlon) ; FOR_E:long_name = “ground fraction covered by evergreen forest” ; FOR_E:units = “-” ; FOR_E:grid_mapping = “rotated_pole” ; FOR_E:coordinates = “lon lat” ; FOR_E:_FillValue = -1.e+20f ; float FOR_D(time, rlat, rlon) ; FOR_D:long_name = “ground fraction covered by deciduous forest” ; FOR_D:units = “-” ; FOR_D:grid_mapping = “rotated_pole” ; FOR_D:coordinates = “lon lat” ; FOR_D:_FillValue = -1.e+20f ; float SSO_STDH(time, rlat, rlon) ; SSO_STDH:long_name = “standard deviation of sub-grid scale orography” ; SSO_STDH:units = “m” ; SSO_STDH:grid_mapping = “rotated_pole” ; SSO_STDH:coordinates = “lon lat” ; SSO_STDH:_FillValue = -1.e+20f ; float SSO_GAMMA(time, rlat, rlon) ; SSO_GAMMA:long_name = “anisotropy of sub-grid scale orography” ; SSO_GAMMA:units = “-” ; SSO_GAMMA:grid_mapping = “rotated_pole” ; SSO_GAMMA:coordinates = “lon lat” ; SSO_GAMMA:_FillValue = -1.e+20f ; float SSO_THETA(time, rlat, rlon) ; SSO_THETA:long_name = “angle between principal axis of orography and east” ; SSO_THETA:units = “rad” ; SSO_THETA:grid_mapping = “rotated_pole” ; SSO_THETA:coordinates = “lon lat” ; SSO_THETA:_FillValue = -1.e+20f ; float SSO_SIGMA(time, rlat, rlon) ; SSO_SIGMA:long_name = “mean slope of sub-grid scale orography” ; SSO_SIGMA:units = “-” ; SSO_SIGMA:grid_mapping = “rotated_pole” ; SSO_SIGMA:coordinates = “lon lat” ; SSO_SIGMA:_FillValue = -1.e+20f ;

// global attributes: :title = “E.Med 0.44 Starter Package subchain” ; :institution = “-” ; :source = “cclm.exe” ; :project_id = “-” ; :experiment_id = “me001” ; :realization = 1 ; :Conventions = “CF-1.0” ; :conventionsURL = “http://www.unidata.ucar.edu/packages/netcdf/conventions.html” ; :contact = “-” ; :references = “http://www.clm-community.eu/” ; :creation_date = “2013-11-06 11:07:58” ;
}