In [ ]:

    

from pylab import * 
import iris
import iris.plot as iplt
import cartopy.crs as ccrs
import netCDF4
import datetime as dt


    

In [22]:

    

year = 2005
start = dt.datetime(year,1,1,0,0,0)
stop = dt.datetime(year,12,31,18,0,0)
bbox = [-77.+360., -63.+360., 34., 46.]   # [lon_min lon_max lat_min lat_max]


    

In [3]:

    

# CFSR NOMADS OPeNDAP URL
url='http://nomads.ncdc.noaa.gov/thredds/dodsC/modeldata/cmd_ocnh/%4.4d/%4.4d01/%4.4d0101/ocnh01.gdas.%4.4d010100.grb2' % (year,year,year,year)
print url


    

    




http://nomads.ncdc.noaa.gov/thredds/dodsC/modeldata/cmd_ocnh/2005/200501/20050101/ocnh01.gdas.2005010100.grb2

In [4]:

    

# specify name of output file that will be created
ofile = '/usgs/data2/rsignell/models/ncep/CFSR/cfsr_%4.4d.nc' % year
print ofile


    

    




/usgs/data2/rsignell/models/ncep/CFSR/cfsr_2005.nc

In [5]:

    

cubes = iris.load(url)


    

In [6]:

    

print cubes


    

    




0: Temperature @ surface / (K)         (time: 1; latitude: 360; longitude: 720)
1: Tropical_Cyclone_Heat_Potential @ ocean_surface_and_26C_isothermal / (J m-2 K) (time: 1; latitude: 360; longitude: 720)
2: Evaporation_-_Precipitation @ surface / (cm/day) (time: 1; latitude: 360; longitude: 720)
3: Vertical_velocity_geometric @ depth_below_sea / (m s-1) (time: 1; Depth below sea level: 40; latitude: 360; longitude: 720)
4: Potential_temperature @ depth_below_sea / (K) (time: 1; Depth below sea level: 40; latitude: 360; longitude: 720)
5: Geometric_Depth_Below_Sea_Surface @ ocean_isotherm / (m) (time: 1; Ocean isotherm level: 1; latitude: 360; longitude: 720)
6: U-component_of_ice_drift @ surface / (m s-1) (time: 1; latitude: 360; longitude: 720)
7: Geometric_Depth_Below_Sea_Surface @ bottom_of_ocean_isothermal / (m) (time: 1; Bottom of ocean isothermal layer: 1; latitude: 360; longitude: 720)
8: U-component_of_current @ depth_below_sea / (m s-1) (time: 1; Depth below sea level: 40; latitude: 360; longitude: 720)
9: latLonCoordSys / (no_unit)          (*ANONYMOUS*: 64)
10: Sea_Surface_Height_Relative_to_Geoid @ surface / (m) (time: 1; latitude: 360; longitude: 720)
11: Ice_thickness @ surface / (m)       (time: 1; latitude: 360; longitude: 720)
12: V-component_of_current @ depth_below_sea / (m s-1) (time: 1; Depth below sea level: 40; latitude: 360; longitude: 720)
13: V-component_of_ice_drift @ surface / (m s-1) (time: 1; latitude: 360; longitude: 720)
14: Ice_cover_Proportion @ surface / (unknown) (time: 1; latitude: 360; longitude: 720)
15: Salinity @ depth_below_sea / (kg kg-1) (time: 1; Depth below sea level: 40; latitude: 360; longitude: 720)
16: Snow_depth @ surface / (m)          (time: 1; latitude: 360; longitude: 720)
17: Ocean_Heat_Content @ layer_between_two_depths_below_ocean / (J m-2) (time: 1; latitude: 360; longitude: 720)
18: Total_Downward_Heat_Flux_at_Surface @ surface / (W m-2) (time: 1; latitude: 360; longitude: 720)
19: Geometric_Depth_Below_Sea_Surface @ bottom_of_ocean_mixed / (m) (time: 1; Bottom of ocean mixed layer: 1; latitude: 360; longitude: 720)
20: Momentum_flux_u_component @ surface / (N m-2) (time: 1; latitude: 360; longitude: 720)
21: Momentum_flux_v_component @ surface / (N m-2) (time: 1; latitude: 360; longitude: 720)

In [7]:

    

var_name = 'Potential_temperature'
cube = cubes[where([cube.var_name==var_name for cube in cubes])[0]]
slice = cube.extract(iris.Constraint(longitude=lambda cell: bbox[0]+360. < cell < bbox[1]+360.,
                                     latitude=lambda cell: bbox[2] < cell < bbox[3]))
shape(slice)


    

    
Out[7]:





(1, 40, 24, 28)

In [8]:

    

# convert to degC
slice.convert_units('degC')


    

In [9]:

    

print slice


    

    




Potential_temperature @ depth_below_sea / (degC) (time: 1; Depth below sea level: 40; latitude: 24; longitude: 28)
     Dimension coordinates:
          time                                        x                         -             -              -
          Depth below sea level                       -                         x             -              -
          latitude                                    -                         -             x              -
          longitude                                   -                         -             -              x
     Attributes:
          Conventions: CF-1.0
          DODS.strlen: 0
          GRIB_VectorComponentFlag: easterlyNortherlyRelative
          GRIB_level_type: 160
          GRIB_param_category: Temperature
          GRIB_param_discipline: Meteorological_products
          GRIB_param_id: [2 0 0 2]
          GRIB_param_name: Potential_temperature
          GRIB_product_definition_type: Average, accumulation, extreme values or other statistically processed...
          Generating_Process_or_Model: Forecast
          Originating_center: US National Weather Service (NCEP) subcenter = 4
          Product_Status: Operational products
          Product_Type: Forecast products
          _CoordinateModelRunDate: 2005-01-01T00:00:00Z
          cdm_data_type: GRID
          creator_name: US National Weather Service (NCEP) subcenter = 4
          file_format: NETCDF3_CLASSIC
          history: Direct read of GRIB-2 into NetCDF-Java 4.0 API
          location: /modeldata/cmd_ocnh/2005/200501/20050101/ocnh01.gdas.2005010100.grb2

In [10]:

    

# select surface layer at 1st time step for a test plot
slice2d=slice[0,-1,:,:]
shape(slice2d)


    

    
Out[10]:





(24, 28)

In [11]:

    

figure(figsize=(12,8))

# set the projection
ax1 = plt.axes(projection=ccrs.Mercator())

# color filled contour plot
h = iplt.contourf(slice2d,64)

# add coastlines, colorbar and title
plt.gca().coastlines(resolution='10m')
colorbar(h,orientation='vertical');
title('Ocean Temperature');


    

In [12]:

    

iris.save(slice,ofile)


    

In [30]:

    

nci = netCDF4.Dataset(url)
lon = nci.variables['lon'][:]
lat = nci.variables['lat'][:]
bi=(lon>=bbox[0])&(lon<=bbox[1])
bj=(lat>=bbox[2])&(lat<=bbox[3])
nci.close()


    

In [31]:

    

origin = dt.datetime(1900,1,1,0,0,0)
nsteps = int((stop - start).total_seconds()/3600/6)  # 6 hour time steps
print nsteps

nc = netCDF4.Dataset(ofile,'r+')
nc.variables['time'].units = 'hours since 1900-01-01T00:00:00Z'

for i in range(nsteps):
    dtime = start + dt.timedelta(hours=(6*i))
    dhours=(dtime - origin).total_seconds()/3600.
    url='http://nomads.ncdc.noaa.gov/thredds/dodsC/modeldata/\
cmd_ocnh/%4.4d/%4.4d%2.2d/%4.4d%2.2d%2.2d/ocnh01.gdas.%4.4d%2.2d%2.2d%2.2d.grb2' \
    % (dtime.year,
       dtime.year,dtime.month,
       dtime.year,dtime.month,dtime.day,
       dtime.year,dtime.month,dtime.day,dtime.hour)
    print '%5.2f percent complete in %5.3f hours' % (i*100./nsteps, (time()-time0)/3600.)
    nci = netCDF4.Dataset(url)
    data = nci.variables[var_name][:,:,bj,bi]
    nci.close()
    # hack here to convert Kelvin to Celcius since we are using NetCDF4
    nc.variables[var_name][i,:,:,:]= data - 273.15
    nc.variables['time'][i] = int(dhours)


    

    




1459
http://nomads.ncdc.noaa.gov/thredds/dodsC/modeldata/cmd_ocnh/2005/200501/20050101/ocnh01.gdas.2005010100.grb2
http://nomads.ncdc.noaa.gov/thredds/dodsC/modeldata/cmd_ocnh/2005/200501/20050101/ocnh01.gdas.2005010106.grb2
http://nomads.ncdc.noaa.gov/thredds/dodsC/modeldata/cmd_ocnh/2005/200501/20050101/ocnh01.gdas.2005010112.grb2
http://nomads.ncdc.noaa.gov/thredds/dodsC/modeldata/cmd_ocnh/2005/200501/20050101/ocnh01.gdas.2005010118.grb2
http://nomads.ncdc.noaa.gov/thredds/dodsC/modeldata/cmd_ocnh/2005/200501/20050102/ocnh01.gdas.2005010200.grb2
http://nomads.ncdc.noaa.gov/thredds/dodsC/modeldata/cmd_ocnh/2005/200501/20050102/ocnh01.gdas.2005010206.grb2
http://nomads.ncdc.noaa.gov/thredds/dodsC/modeldata/cmd_ocnh/2005/200501/20050102/ocnh01.gdas.2005010212.grb2
http://nomads.ncdc.noaa.gov/thredds/dodsC/modeldata/cmd_ocnh/2005/200501/20050102/ocnh01.gdas.2005010218.grb2





    




---------------------------------------------------------------------------
KeyboardInterrupt                         Traceback (most recent call last)
<ipython-input-31-a4e65dda7025> in <module>()
     16 
     17     nci = netCDF4.Dataset(url)
---> 18     data = nci.variables[var_name][:,:,bj,bi]
     19     nci.close()
     20     # hack here to convert Kelvin to Celcius since we are using NetCDF4

/home/local/python27_epd/lib/python2.7/site-packages/netCDF4.so in netCDF4.Variable.__getitem__ (netCDF4.c:29289)()

/home/local/python27_epd/lib/python2.7/site-packages/netCDF4.so in netCDF4.Variable._get (netCDF4.c:35228)()

/home/local/python27_epd/lib/python2.7/site-packages/netCDF4.so in netCDF4.Variable.dimensions.__get__ (netCDF4.c:26029)()

/home/local/python27_epd/lib/python2.7/site-packages/netCDF4.so in netCDF4.Variable._getdims (netCDF4.c:25640)()

/home/local/python27_epd/lib/python2.7/encodings/utf_8.pyc in decode(input, errors)
     13 encode = codecs.utf_8_encode
     14 
---> 15 def decode(input, errors='strict'):
     16     return codecs.utf_8_decode(input, errors, True)
     17 

KeyboardInterrupt: 





    

In [ ]:

    

nc.close()


    

In [ ]:

    

# check file we created
cubes = iris.load(ofile)
print cubes[0]