def get_albedo_data(self, interval='season'):
"""
get albedo data for JSBACH
returns Data object
"""
if interval != 'season':
raise ValueError(
'Other temporal sampling than SEASON not supported yet for JSBACH BOT files, sorry'
)
v = 'var176'
filename = self.data_dir + 'data/model1/' + self.experiment + '_echam6_BOT_mm_1979-2006_albedo_yseasmean.nc'
ls_mask = get_T63_landseamask(self.shift_lon)
albedo = Data(filename,
v,
read=True,
label='MPI-ESM albedo ' + self.experiment,
unit='-',
lat_name='lat',
lon_name='lon',
shift_lon=self.shift_lon,
mask=ls_mask.data.data)
return albedo
def get_tree_fraction(self, interval='season'):
"""
todo implement this for data from a real run !!!
"""
if interval != 'season':
raise ValueError(
'Other temporal sampling than SEASON not supported yet for JSBACH BOT files, sorry'
)
ls_mask = get_T63_landseamask(self.shift_lon)
filename = '/home/m300028/shared/dev/svn/trstools-0.0.1/lib/python/pyCMBS/framework/external/vegetation_benchmarking/VEGETATION_COVER_BENCHMARKING/example/historical_r1i1p1-LR_1850-2005_forest_shrub.nc'
v = 'var12'
tree = Data(filename,
v,
read=True,
label='MPI-ESM tree fraction ' + self.experiment,
unit='-',
lat_name='lat',
lon_name='lon',
shift_lon=self.shift_lon,
mask=ls_mask.data.data,
start_time=pl.num2date(pl.datestr2num('2001-01-01')),
stop_time=pl.num2date(pl.datestr2num('2001-12-31')))
return tree
def get_albedo_data(self, interval='season', **kwargs):
"""
calculate albedo as ratio of upward and downwelling fluxes
first the monthly mean fluxes are used to calculate the albedo,
"""
force_calc = False
# read land-sea mask
ls_mask = get_T63_landseamask(self.shift_lon)
if self.start_time is None:
raise ValueError('Start time needs to be specified')
if self.stop_time is None:
raise ValueError('Stop time needs to be specified')
# get fluxes
Fu = self.get_surface_shortwave_radiation_up(interval=interval)
if Fu is None:
print 'File not existing for UPWARD flux!: ', self.name
return None
else:
Fu_i = Fu[0]
lab = Fu_i._get_label()
Fd = self.get_surface_shortwave_radiation_down(interval=interval, **{'CMIP5': {'valid_mask': 'land'}, 'CMIP5RAW': {'valid_mask': 'land'}, 'CMIP5RAWSINGLE': {'valid_mask': 'land'}}) # todo: take routine name from the configuration setup in JSON file !!!!
if Fd is None:
print 'File not existing for DOWNWARD flux!: ', self.name
return None
else:
Fd_i = Fd[0]
#albedo for chosen interval as caluclated as ratio of means of fluxes in that interval (e.g. season, months)
Fu_i.div(Fd_i, copy=False)
del Fd_i # Fu contains now the albedo
Fu_i._apply_mask(ls_mask.data)
#albedo for monthly data (needed for global mean plots )
Fu_m = Fu[1][2]
del Fu
Fd_m = Fd[1][2]
del Fd
Fu_m.div(Fd_m, copy=False)
del Fd_m
Fu_m._apply_mask(ls_mask.data)
Fu_m._set_valid_range(0., 1.)
Fu_m.label = lab + ' albedo'
Fu_i.label = lab + ' albedo'
Fu_m.unit = '-'
Fu_i.unit = '-'
# center dates of months
Fu_m.adjust_time(day=15)
Fu_i.adjust_time(day=15)
# return data as a tuple list
retval = (Fu_m.time, Fu_m.fldmean(), Fu_m)
return Fu_i, retval
def get_gpp_data(self, interval='season'):
"""
get surface GPP data for JSBACH
todo temporal aggregation of data --> or leave it to the user!
"""
cdo = Cdo()
v = 'var167'
y1 = str(self.start_time)[0:10]
y2 = str(self.stop_time)[0:10]
rawfilename = self.data_dir + 'data/model/' + self.experiment + '_' + y1[
0:4] + '-' + y2[0:4] + '.nc'
times_in_file = int(''.join(cdo.ntime(input=rawfilename)))
if interval == 'season':
if times_in_file != 4:
tmp_file = get_temporary_directory() + os.path.basename(
rawfilename)
cdo.yseasmean(options='-f nc -b 32 -r ',
input='-selvar,' + v + ' ' + rawfilename,
output=tmp_file[:-3] + '_yseasmean.nc')
rawfilename = tmp_file[:-3] + '_yseasmean.nc'
if interval == 'monthly':
if times_in_file != 12:
tmp_file = get_temporary_directory() + os.path.basename(
rawfilename)
cdo.ymonmean(options='-f nc -b 32 -r ',
input='-selvar,' + v + ' ' + rawfilename,
output=tmp_file[:-3] + '_ymonmean.nc')
rawfilename = tmp_file[:-3] + '_ymonmean.nc'
if not os.path.exists(rawfilename):
return None
filename = rawfilename
#--- read land-sea mask
ls_mask = get_T63_landseamask(self.shift_lon)
#--- read SW up data
gpp = Data4D(filename,
v,
read=True,
label=self.experiment + ' ' + v,
unit='gC m-2 a-1',
lat_name='lat',
lon_name='lon',
shift_lon=self.shift_lon,
mask=ls_mask.data.data,
scale_factor=3600. * 24. * 30. / 0.083)
return gpp.sum_data4D()
def get_rainfall_data(self, interval='season'):
"""
get rainfall data for JSBACH
returns Data object
"""
if interval == 'season':
pass
else:
raise ValueError('Invalid value for interval: %s' % interval)
#/// PREPROCESSING: seasonal means ///
s_start_time = str(self.start_time)[0:10]
s_stop_time = str(self.stop_time)[0:10]
filename1 = self.data_dir + self.experiment + '_echam6_BOT_mm_1980_sel.nc'
tmp = pyCDO(filename1, s_start_time, s_stop_time).seldate()
tmp1 = pyCDO(tmp, s_start_time, s_stop_time).seasmean()
filename = pyCDO(tmp1, s_start_time, s_stop_time).yseasmean()
#/// READ DATA ///
#1) land / sea mask
ls_mask = get_T63_landseamask(self.shift_lon)
#2) precipitation data
try:
v = 'var4'
rain = Data(filename,
v,
read=True,
scale_factor=86400.,
label='MPI-ESM ' + self.experiment,
unit='mm/day',
lat_name='lat',
lon_name='lon',
shift_lon=self.shift_lon,
mask=ls_mask.data.data)
except:
v = 'var142'
rain = Data(filename,
v,
read=True,
scale_factor=86400.,
label='MPI-ESM ' + self.experiment,
unit='mm/day',
lat_name='lat',
lon_name='lon',
shift_lon=self.shift_lon,
mask=ls_mask.data.data)
return rain
def get_surface_shortwave_radiation_down(self, interval='season'):
"""
get surface shortwave incoming radiation data for JSBACH
returns Data object
"""
if interval != 'season':
raise ValueError(
'Other temporal sampling than SEASON not supported yet for JSBACH BOT files, sorry'
)
v = 'var176'
y1 = '1979-01-01'
y2 = '2006-12-31'
rawfilename = self.data_dir + 'data/model/' + self.experiment + '_echam6_BOT_mm_1979-2006_srads.nc'
if not os.path.exists(rawfilename):
return None
#--- read data
cdo = pyCDO(rawfilename, y1, y2)
if interval == 'season':
seasfile = cdo.seasmean()
del cdo
print 'seasfile: ', seasfile
cdo = pyCDO(seasfile, y1, y2)
filename = cdo.yseasmean()
else:
raise ValueError('Invalid interval option %s ' % interval)
#--- read land-sea mask
ls_mask = get_T63_landseamask(self.shift_lon)
#--- read SIS data
sis = Data(
filename,
v,
read=True,
label='MPI-ESM SIS ' + self.experiment,
unit='-',
lat_name='lat',
lon_name='lon',
#shift_lon=shift_lon,
mask=ls_mask.data.data)
return sis
def get_grass_fraction(self, interval='season'):
"""
todo implement this for data from a real run !!!
"""
if interval != 'season':
raise ValueError('Other temporal sampling than SEASON not supported yet for JSBACH BOT files, sorry')
ls_mask = get_T63_landseamask(self.shift_lon)
filename = '/home/m300028/shared/dev/svn/trstools-0.0.1/lib/python/pyCMBS/framework/external/vegetation_benchmarking/VEGETATION_COVER_BENCHMARKING/example/historical_r1i1p1-LR_1850-2005_grass_crop_pasture_2001.nc'
v = 'var12'
grass = Data(filename, v, read=True,
label='MPI-ESM tree fraction ' + self.experiment, unit='-', lat_name='lat', lon_name='lon',
#shift_lon=shift_lon,
mask=ls_mask.data.data, start_time=pl.num2date(pl.datestr2num('2001-01-01')), stop_time=pl.num2date(pl.datestr2num('2001-12-31')), squeeze=True)
return grass
def get_gpp_data(self, interval='season'):
"""
get surface GPP data for JSBACH
todo temporal aggregation of data --> or leave it to the user!
"""
cdo = Cdo()
v = 'var167'
y1 = str(self.start_time)[0:10]
y2 = str(self.stop_time)[0:10]
rawfilename = self.data_dir + 'data/model/' + self.experiment + '_' + y1[0:4] + '-' + y2[0:4] + '.nc'
times_in_file = int(''.join(cdo.ntime(input=rawfilename)))
if interval == 'season':
if times_in_file != 4:
tmp_file = get_temporary_directory() + os.path.basename(rawfilename)
cdo.yseasmean(options='-f nc -b 32 -r ', input='-selvar,' + v + ' ' + rawfilename, output=tmp_file[:-3] + '_yseasmean.nc')
rawfilename = tmp_file[:-3] + '_yseasmean.nc'
if interval == 'monthly':
if times_in_file != 12:
tmp_file = get_temporary_directory() + os.path.basename(rawfilename)
cdo.ymonmean(options='-f nc -b 32 -r ', input='-selvar,' + v + ' ' + rawfilename, output=tmp_file[:-3] + '_ymonmean.nc')
rawfilename = tmp_file[:-3] + '_ymonmean.nc'
if not os.path.exists(rawfilename):
return None
filename = rawfilename
#--- read land-sea mask
ls_mask = get_T63_landseamask(self.shift_lon)
#--- read SW up data
gpp = Data4D(filename, v, read=True,
label=self.experiment + ' ' + v, unit='gC m-2 a-1', lat_name='lat', lon_name='lon',
shift_lon=self.shift_lon,
mask=ls_mask.data.data, scale_factor=3600. * 24. * 30. / 0.083
)
return gpp.sum_data4D()
def get_albedo_data(self, interval='season'):
"""
get albedo data for JSBACH
returns Data object
"""
if interval != 'season':
raise ValueError('Other temporal sampling than SEASON not supported yet for JSBACH BOT files, sorry')
v = 'var176'
filename = self.data_dir + 'data/model1/' + self.experiment + '_echam6_BOT_mm_1979-2006_albedo_yseasmean.nc'
ls_mask = get_T63_landseamask(self.shift_lon)
albedo = Data(filename, v, read=True,
label='MPI-ESM albedo ' + self.experiment, unit='-', lat_name='lat', lon_name='lon',
shift_lon=self.shift_lon,
mask=ls_mask.data.data)
return albedo
def get_surface_shortwave_radiation_down(self, interval='season'):
"""
get surface shortwave incoming radiation data for JSBACH
returns Data object
"""
if interval != 'season':
raise ValueError('Other temporal sampling than SEASON not supported yet for JSBACH BOT files, sorry')
v = 'var176'
y1 = '1979-01-01'
y2 = '2006-12-31'
rawfilename = self.data_dir + 'data/model/' + self.experiment + '_echam6_BOT_mm_1979-2006_srads.nc'
if not os.path.exists(rawfilename):
return None
#--- read data
cdo = pyCDO(rawfilename, y1, y2)
if interval == 'season':
seasfile = cdo.seasmean()
del cdo
print 'seasfile: ', seasfile
cdo = pyCDO(seasfile, y1, y2)
filename = cdo.yseasmean()
else:
raise ValueError('Invalid interval option %s ' % interval)
#--- read land-sea mask
ls_mask = get_T63_landseamask(self.shift_lon)
#--- read SIS data
sis = Data(filename, v, read=True,
label='MPI-ESM SIS ' + self.experiment, unit='-', lat_name='lat', lon_name='lon',
#shift_lon=shift_lon,
mask=ls_mask.data.data)
return sis
def get_rainfall_data(self, interval='season'):
"""
get rainfall data for JSBACH
returns Data object
"""
if interval == 'season':
pass
else:
raise ValueError('Invalid value for interval: %s' % interval)
#/// PREPROCESSING: seasonal means ///
s_start_time = str(self.start_time)[0:10]
s_stop_time = str(self.stop_time)[0:10]
filename1 = self.data_dir + self.experiment + '_echam6_BOT_mm_1980_sel.nc'
tmp = pyCDO(filename1, s_start_time, s_stop_time).seldate()
tmp1 = pyCDO(tmp, s_start_time, s_stop_time).seasmean()
filename = pyCDO(tmp1, s_start_time, s_stop_time).yseasmean()
#/// READ DATA ///
#1) land / sea mask
ls_mask = get_T63_landseamask(self.shift_lon)
#2) precipitation data
try:
v = 'var4'
rain = Data(filename, v, read=True, scale_factor=86400.,
label='MPI-ESM ' + self.experiment, unit='mm/day', lat_name='lat', lon_name='lon',
shift_lon=self.shift_lon,
mask=ls_mask.data.data)
except:
v = 'var142'
rain = Data(filename, v, read=True, scale_factor=86400.,
label='MPI-ESM ' + self.experiment, unit='mm/day', lat_name='lat', lon_name='lon',
shift_lon=self.shift_lon,
mask=ls_mask.data.data)
return rain
def _do_preprocessing(self, rawfile, varname, s_start_time, s_stop_time, interval='monthly', force_calc=False, valid_mask='global', target_grid='t63grid'):
"""
perform preprocessing
* selection of variable
* temporal subsetting
"""
cdo = Cdo()
if not os.path.exists(rawfile):
print('File not existing! %s ' % rawfile)
return None, None
# calculate monthly means
file_monthly = get_temporary_directory() + os.sep + os.path.basename(rawfile[:-3]) + '_' + varname + '_' + s_start_time + '_' + s_stop_time + '_mm.nc'
if (force_calc) or (not os.path.exists(file_monthly)):
cdo.monmean(options='-f nc', output=file_monthly, input='-seldate,' + s_start_time + ',' + s_stop_time + ' ' + '-selvar,' + varname + ' ' + rawfile, force=force_calc)
else:
pass
if not os.path.exists(file_monthly):
raise ValueError('Monthly preprocessing did not work! %s ' % file_monthly)
# calculate monthly or seasonal climatology
if interval == 'monthly':
mdata_clim_file = file_monthly[:-3] + '_ymonmean.nc'
mdata_sum_file = file_monthly[:-3] + '_ymonsum.nc'
mdata_N_file = file_monthly[:-3] + '_ymonN.nc'
mdata_clim_std_file = file_monthly[:-3] + '_ymonstd.nc'
cdo.ymonmean(options='-f nc -b 32', output=mdata_clim_file, input=file_monthly, force=force_calc)
cdo.ymonsum(options='-f nc -b 32', output=mdata_sum_file, input=file_monthly, force=force_calc)
cdo.ymonstd(options='-f nc -b 32', output=mdata_clim_std_file, input=file_monthly, force=force_calc)
cdo.div(options='-f nc', output=mdata_N_file, input=mdata_sum_file + ' ' + mdata_clim_file, force=force_calc) # number of samples
elif interval == 'season':
mdata_clim_file = file_monthly[:-3] + '_yseasmean.nc'
mdata_sum_file = file_monthly[:-3] + '_yseassum.nc'
mdata_N_file = file_monthly[:-3] + '_yseasN.nc'
mdata_clim_std_file = file_monthly[:-3] + '_yseasstd.nc'
cdo.yseasmean(options='-f nc -b 32', output=mdata_clim_file, input=file_monthly, force=force_calc)
cdo.yseassum(options='-f nc -b 32', output=mdata_sum_file, input=file_monthly, force=force_calc)
cdo.yseasstd(options='-f nc -b 32', output=mdata_clim_std_file, input=file_monthly, force=force_calc)
cdo.div(options='-f nc -b 32', output=mdata_N_file, input=mdata_sum_file + ' ' + mdata_clim_file, force=force_calc) # number of samples
else:
raise ValueError('Unknown temporal interval. Can not perform preprocessing!')
if not os.path.exists(mdata_clim_file):
return None
# read data
if interval == 'monthly':
thetime_cylce = 12
elif interval == 'season':
thetime_cylce = 4
else:
print interval
raise ValueError('Unsupported interval!')
mdata = Data(mdata_clim_file, varname, read=True, label=self.name, shift_lon=False, time_cycle=thetime_cylce, lat_name='lat', lon_name='lon')
mdata_std = Data(mdata_clim_std_file, varname, read=True, label=self.name + ' std', unit='-', shift_lon=False, time_cycle=thetime_cylce, lat_name='lat', lon_name='lon')
mdata.std = mdata_std.data.copy()
del mdata_std
mdata_N = Data(mdata_N_file, varname, read=True, label=self.name + ' std', shift_lon=False, lat_name='lat', lon_name='lon')
mdata.n = mdata_N.data.copy()
del mdata_N
# ensure that climatology always starts with January, therefore set date and then sort
mdata.adjust_time(year=1700, day=15) # set arbitrary time for climatology
mdata.timsort()
#4) read monthly data
mdata_all = Data(file_monthly, varname, read=True, label=self.name, shift_lon=False, time_cycle=12, lat_name='lat', lon_name='lon')
mdata_all.adjust_time(day=15)
#mask_antarctica masks everything below 60 degree S.
#here we only mask Antarctica, if only LAND points shall be used
if valid_mask == 'land':
mask_antarctica = True
elif valid_mask == 'ocean':
mask_antarctica = False
else:
mask_antarctica = False
if target_grid == 't63grid':
mdata._apply_mask(get_T63_landseamask(False, area=valid_mask, mask_antarctica=mask_antarctica))
mdata_all._apply_mask(get_T63_landseamask(False, area=valid_mask, mask_antarctica=mask_antarctica))
else:
tmpmsk = get_generic_landseamask(False, area=valid_mask, target_grid=target_grid, mask_antarctica=mask_antarctica)
mdata._apply_mask(tmpmsk)
mdata_all._apply_mask(tmpmsk)
del tmpmsk
mdata_mean = mdata_all.fldmean()
# return data as a tuple list
retval = (mdata_all.time, mdata_mean, mdata_all)
del mdata_all
return mdata, retval
def get_albedo_data(self, interval='monthly', **kwargs):
"""
calculate albedo as ratio of upward and downwelling fluxes
first the monthly mean fluxes are used to calculate the albedo,
"""
# read land-sea mask
ls_mask = get_T63_landseamask(self.shift_lon) # TODO make this more flexible
if self.start_time is None:
raise ValueError('Start time needs to be specified')
if self.stop_time is None:
raise ValueError('Stop time needs to be specified')
Fd = self.get_surface_shortwave_radiation_down(**kwargs)
Fu = self.get_surface_shortwave_radiation_up(**kwargs)
if Fu is None:
print 'File not existing for UPWARD flux!: ', self.name
return None
else:
Fu_i = Fu[0]
if Fu_i is None:
return None
if Fd is None:
print 'File not existing for DOWNWARD flux!: ', self.name
return None
else:
Fd_i = Fd[0]
if Fd_i is None:
return None
lab = Fu_i.label
# albedo for chosen interval as caluclated as ratio of means of fluxes in that interval (e.g. season, months)
Fu_i.div(Fd_i, copy=False)
del Fd_i # Fu contains now the albedo
Fu_i._apply_mask(ls_mask.data)
#albedo for monthly data (needed for global mean plots )
Fu_m = Fu[1][2]
del Fu
Fd_m = Fd[1][2]
del Fd
Fu_m.div(Fd_m, copy=False)
del Fd_m
Fu_m._apply_mask(ls_mask.data)
Fu_m._set_valid_range(0., 1.)
Fu_m.label = lab + ' albedo'
Fu_i.label = lab + ' albedo'
Fu_m.unit = '-'
Fu_i.unit = '-'
# center dates of months
Fu_m.adjust_time(day=15)
Fu_i.adjust_time(day=15)
# return data as a tuple list
retval = (Fu_m.time, Fu_m.fldmean(), Fu_m)
return Fu_i, retval
def get_model_data_generic(self, interval="season", **kwargs):
"""
unique parameters are:
filename - file basename
variable - name of the variable as the short_name in the netcdf file
kwargs is a dictionary with keys for each model. Then a dictionary with properties follows
"""
if not self.type in kwargs.keys():
print ""
print "WARNING: it is not possible to get data using generic function, as method missing: ", self.type, kwargs.keys()
assert False
locdict = kwargs[self.type]
# read settings and details from the keyword arguments
# no defaults; everything should be explicitely specified in either the config file or the dictionaries
varname = locdict.pop("variable", None)
# ~ print self.type
# ~ print locdict.keys()
assert varname is not None, "ERROR: provide varname!"
units = locdict.pop("unit", None)
assert units is not None, "ERROR: provide unit!"
lat_name = locdict.pop("lat_name", "lat")
lon_name = locdict.pop("lon_name", "lon")
model_suffix = locdict.pop("model_suffix", None)
model_prefix = locdict.pop("model_prefix", None)
file_format = locdict.pop("file_format")
scf = locdict.pop("scale_factor")
valid_mask = locdict.pop("valid_mask")
custom_path = locdict.pop("custom_path", None)
thelevel = locdict.pop("level", None)
target_grid = self._actplot_options["targetgrid"]
interpolation = self._actplot_options["interpolation"]
if custom_path is None:
filename1 = self.get_raw_filename(varname, **kwargs) # routine needs to be implemented by each subclass
else:
filename1 = custom_path + self.get_raw_filename(varname, **kwargs)
if filename1 is None:
print_log(WARNING, "No valid model input data")
return None
force_calc = False
if self.start_time is None:
raise ValueError("Start time needs to be specified")
if self.stop_time is None:
raise ValueError("Stop time needs to be specified")
# /// PREPROCESSING ///
cdo = Cdo()
s_start_time = str(self.start_time)[0:10]
s_stop_time = str(self.stop_time)[0:10]
# 1) select timeperiod and generate monthly mean file
if target_grid == "t63grid":
gridtok = "T63"
else:
gridtok = "SPECIAL_GRID"
file_monthly = (
filename1[:-3] + "_" + s_start_time + "_" + s_stop_time + "_" + gridtok + "_monmean.nc"
) # target filename
file_monthly = get_temporary_directory() + os.path.basename(file_monthly)
sys.stdout.write("\n *** Model file monthly: %s\n" % file_monthly)
if not os.path.exists(filename1):
print "WARNING: File not existing: " + filename1
return None
cdo.monmean(
options="-f nc",
output=file_monthly,
input="-"
+ interpolation
+ ","
+ target_grid
+ " -seldate,"
+ s_start_time
+ ","
+ s_stop_time
+ " "
+ filename1,
force=force_calc,
)
sys.stdout.write("\n *** Reading model data... \n")
sys.stdout.write(" Interval: " + interval + "\n")
# 2) calculate monthly or seasonal climatology
if interval == "monthly":
mdata_clim_file = file_monthly[:-3] + "_ymonmean.nc"
mdata_sum_file = file_monthly[:-3] + "_ymonsum.nc"
mdata_N_file = file_monthly[:-3] + "_ymonN.nc"
mdata_clim_std_file = file_monthly[:-3] + "_ymonstd.nc"
cdo.ymonmean(options="-f nc -b 32", output=mdata_clim_file, input=file_monthly, force=force_calc)
cdo.ymonsum(options="-f nc -b 32", output=mdata_sum_file, input=file_monthly, force=force_calc)
cdo.ymonstd(options="-f nc -b 32", output=mdata_clim_std_file, input=file_monthly, force=force_calc)
cdo.div(
options="-f nc", output=mdata_N_file, input=mdata_sum_file + " " + mdata_clim_file, force=force_calc
) # number of samples
elif interval == "season":
mdata_clim_file = file_monthly[:-3] + "_yseasmean.nc"
mdata_sum_file = file_monthly[:-3] + "_yseassum.nc"
mdata_N_file = file_monthly[:-3] + "_yseasN.nc"
mdata_clim_std_file = file_monthly[:-3] + "_yseasstd.nc"
cdo.yseasmean(options="-f nc -b 32", output=mdata_clim_file, input=file_monthly, force=force_calc)
cdo.yseassum(options="-f nc -b 32", output=mdata_sum_file, input=file_monthly, force=force_calc)
cdo.yseasstd(options="-f nc -b 32", output=mdata_clim_std_file, input=file_monthly, force=force_calc)
cdo.div(
options="-f nc -b 32",
output=mdata_N_file,
input=mdata_sum_file + " " + mdata_clim_file,
force=force_calc,
) # number of samples
else:
raise ValueError("Unknown temporal interval. Can not perform preprocessing!")
if not os.path.exists(mdata_clim_file):
return None
# 3) read data
if interval == "monthly":
thetime_cylce = 12
elif interval == "season":
thetime_cylce = 4
else:
print interval
raise ValueError("Unsupported interval!")
mdata = Data(
mdata_clim_file,
varname,
read=True,
label=self._unique_name,
unit=units,
lat_name=lat_name,
lon_name=lon_name,
shift_lon=False,
scale_factor=scf,
level=thelevel,
time_cycle=thetime_cylce,
)
mdata_std = Data(
mdata_clim_std_file,
varname,
read=True,
label=self._unique_name + " std",
unit="-",
lat_name=lat_name,
lon_name=lon_name,
shift_lon=False,
level=thelevel,
time_cycle=thetime_cylce,
)
mdata.std = mdata_std.data.copy()
del mdata_std
mdata_N = Data(
mdata_N_file,
varname,
read=True,
label=self._unique_name + " std",
unit="-",
lat_name=lat_name,
lon_name=lon_name,
shift_lon=False,
scale_factor=scf,
level=thelevel,
)
mdata.n = mdata_N.data.copy()
del mdata_N
# ensure that climatology always starts with January, therefore set date and then sort
mdata.adjust_time(year=1700, day=15) # set arbitrary time for climatology
mdata.timsort()
# 4) read monthly data
mdata_all = Data(
file_monthly,
varname,
read=True,
label=self._unique_name,
unit=units,
lat_name=lat_name,
lon_name=lon_name,
shift_lon=False,
time_cycle=12,
scale_factor=scf,
level=thelevel,
)
mdata_all.adjust_time(day=15)
# mask_antarctica masks everything below 60 degrees S.
# here we only mask Antarctica, if only LAND points shall be used
if valid_mask == "land":
mask_antarctica = True
elif valid_mask == "ocean":
mask_antarctica = False
else:
mask_antarctica = False
if target_grid == "t63grid":
mdata._apply_mask(get_T63_landseamask(False, area=valid_mask, mask_antarctica=mask_antarctica))
mdata_all._apply_mask(get_T63_landseamask(False, area=valid_mask, mask_antarctica=mask_antarctica))
else:
tmpmsk = get_generic_landseamask(
False, area=valid_mask, target_grid=target_grid, mask_antarctica=mask_antarctica
)
mdata._apply_mask(tmpmsk)
mdata_all._apply_mask(tmpmsk)
del tmpmsk
mdata_mean = mdata_all.fldmean()
mdata._raw_filename = filename1
mdata._monthly_filename = file_monthly
mdata._clim_filename = mdata_clim_file
mdata._varname = varname
# return data as a tuple list
retval = (mdata_all.time, mdata_mean, mdata_all)
del mdata_all
return mdata, retval
def _import_regional_file(self,
region_file,
varname,
targetgrid=None,
logfile=None):
"""
check if the regional file can be either imported or if
regions are provided as vector data. In the latter case
the regions are rasterized and results are stored in a netCDF
file
Parameters
----------
region_file : str
name of file defining the region. This is either a netCDF
file which contains the mask as different integer values
or it is a *.reg file which contains the regions as
vector data.
varname : str
name of variable in netCDF file
targetgrid : str
name of targetgrid; either 't63grid' or the name of a file
with a valid geometry
Returns
-------
region_filename, region_file_varname
"""
if not os.path.exists(region_file):
raise ValueError('ERROR: region file is not existing: ' +
region_file)
ext = os.path.splitext(region_file)[1]
if ext == '.nc':
# netCDF file was given. Try to read variable
if varname is None:
raise ValueError('ERROR: no variable name given!')
try:
tmp = Data(region_file, varname, read=True)
except:
raise ValueError(
'ERROR: the regional masking file can not be read!')
del tmp
# everything is fine
return region_file, varname
elif ext == '.reg':
# regions were given as vector files. Read it and
# rasterize the data and store results in a temporary
# file
import tempfile
if targetgrid is None:
raise ValueError(
'ERROR: targetgrid needs to be specified for vectorization of regions!'
)
if targetgrid == 't63grid':
ls_mask = get_T63_landseamask(True,
area='global',
mask_antarctica=False)
else:
ls_mask = get_generic_landseamask(True,
area='global',
target_grid=targetgrid,
mask_antarctica=False)
# temporary netCDF filename
region_file1 = tempfile.mktemp(prefix='region_mask_', suffix='.nc')
R = RegionParser(region_file) # read region vector data
M = Raster(ls_mask.lon, ls_mask.lat)
polylist = []
if logfile is not None:
logf = open(logfile, 'w')
else:
logf = None
id = 1
for k in R.regions.keys():
reg = R.regions[k]
polylist.append(pycmbsPolygon(id, zip(reg.lon, reg.lat)))
if logf is not None: # store mapping table
logf.write(k + '\t' + str(id) + '\n')
id += 1
M.rasterize_polygons(polylist)
if logf is not None:
logf.close()
# generate dummy output file
O = Data(None, None)
O.data = M.mask
O.lat = ls_mask.lat
O.lon = ls_mask.lon
varname = 'regions'
O.save(region_file1, varname=varname, format='nc', delete=True)
print('Regionfile was store in file: %s' % region_file1)
# check again that file is readable
try:
tmp = Data(region_file1, varname, read=True)
except:
print region_file1, varname
raise ValueError(
'ERROR: the generated region file is not readable!')
del tmp
return region_file1, varname
else:
raise ValueError('ERROR: unsupported file type')
def get_model_data_generic(self, interval='season', **kwargs):
"""
unique parameters are:
filename - file basename
variable - name of the variable as the short_name in the netcdf file
kwargs is a dictionary with keys for each model. Then a dictionary with properties follows
"""
if not self.type in kwargs.keys():
print ''
print 'WARNING: it is not possible to get data using generic function, as method missing: ', self.type, kwargs.keys(
)
assert False
locdict = kwargs[self.type]
# read settings and details from the keyword arguments
# no defaults; everything should be explicitely specified in either the config file or the dictionaries
varname = locdict.pop('variable', None)
#~ print self.type
#~ print locdict.keys()
assert varname is not None, 'ERROR: provide varname!'
units = locdict.pop('unit', None)
assert units is not None, 'ERROR: provide unit!'
lat_name = locdict.pop('lat_name', 'lat')
lon_name = locdict.pop('lon_name', 'lon')
model_suffix = locdict.pop('model_suffix', None)
model_prefix = locdict.pop('model_prefix', None)
file_format = locdict.pop('file_format')
scf = locdict.pop('scale_factor')
valid_mask = locdict.pop('valid_mask')
custom_path = locdict.pop('custom_path', None)
thelevel = locdict.pop('level', None)
target_grid = self._actplot_options['targetgrid']
interpolation = self._actplot_options['interpolation']
if custom_path is None:
filename1 = self.get_raw_filename(
varname,
**kwargs) # routine needs to be implemented by each subclass
else:
filename1 = custom_path + self.get_raw_filename(varname, **kwargs)
if filename1 is None:
print_log(WARNING, 'No valid model input data')
return None
force_calc = False
if self.start_time is None:
raise ValueError('Start time needs to be specified')
if self.stop_time is None:
raise ValueError('Stop time needs to be specified')
#/// PREPROCESSING ///
cdo = Cdo()
s_start_time = str(self.start_time)[0:10]
s_stop_time = str(self.stop_time)[0:10]
#1) select timeperiod and generate monthly mean file
if target_grid == 't63grid':
gridtok = 'T63'
else:
gridtok = 'SPECIAL_GRID'
file_monthly = filename1[:
-3] + '_' + s_start_time + '_' + s_stop_time + '_' + gridtok + '_monmean.nc' # target filename
file_monthly = get_temporary_directory() + os.path.basename(
file_monthly)
sys.stdout.write('\n *** Model file monthly: %s\n' % file_monthly)
if not os.path.exists(filename1):
print 'WARNING: File not existing: ' + filename1
return None
cdo.monmean(options='-f nc',
output=file_monthly,
input='-' + interpolation + ',' + target_grid +
' -seldate,' + s_start_time + ',' + s_stop_time + ' ' +
filename1,
force=force_calc)
sys.stdout.write('\n *** Reading model data... \n')
sys.stdout.write(' Interval: ' + interval + '\n')
#2) calculate monthly or seasonal climatology
if interval == 'monthly':
mdata_clim_file = file_monthly[:-3] + '_ymonmean.nc'
mdata_sum_file = file_monthly[:-3] + '_ymonsum.nc'
mdata_N_file = file_monthly[:-3] + '_ymonN.nc'
mdata_clim_std_file = file_monthly[:-3] + '_ymonstd.nc'
cdo.ymonmean(options='-f nc -b 32',
output=mdata_clim_file,
input=file_monthly,
force=force_calc)
cdo.ymonsum(options='-f nc -b 32',
output=mdata_sum_file,
input=file_monthly,
force=force_calc)
cdo.ymonstd(options='-f nc -b 32',
output=mdata_clim_std_file,
input=file_monthly,
force=force_calc)
cdo.div(options='-f nc',
output=mdata_N_file,
input=mdata_sum_file + ' ' + mdata_clim_file,
force=force_calc) # number of samples
elif interval == 'season':
mdata_clim_file = file_monthly[:-3] + '_yseasmean.nc'
mdata_sum_file = file_monthly[:-3] + '_yseassum.nc'
mdata_N_file = file_monthly[:-3] + '_yseasN.nc'
mdata_clim_std_file = file_monthly[:-3] + '_yseasstd.nc'
cdo.yseasmean(options='-f nc -b 32',
output=mdata_clim_file,
input=file_monthly,
force=force_calc)
cdo.yseassum(options='-f nc -b 32',
output=mdata_sum_file,
input=file_monthly,
force=force_calc)
cdo.yseasstd(options='-f nc -b 32',
output=mdata_clim_std_file,
input=file_monthly,
force=force_calc)
cdo.div(options='-f nc -b 32',
output=mdata_N_file,
input=mdata_sum_file + ' ' + mdata_clim_file,
force=force_calc) # number of samples
else:
raise ValueError(
'Unknown temporal interval. Can not perform preprocessing!')
if not os.path.exists(mdata_clim_file):
return None
#3) read data
if interval == 'monthly':
thetime_cylce = 12
elif interval == 'season':
thetime_cylce = 4
else:
print interval
raise ValueError('Unsupported interval!')
mdata = Data(mdata_clim_file,
varname,
read=True,
label=self._unique_name,
unit=units,
lat_name=lat_name,
lon_name=lon_name,
shift_lon=False,
scale_factor=scf,
level=thelevel,
time_cycle=thetime_cylce)
mdata_std = Data(mdata_clim_std_file,
varname,
read=True,
label=self._unique_name + ' std',
unit='-',
lat_name=lat_name,
lon_name=lon_name,
shift_lon=False,
level=thelevel,
time_cycle=thetime_cylce)
mdata.std = mdata_std.data.copy()
del mdata_std
mdata_N = Data(mdata_N_file,
varname,
read=True,
label=self._unique_name + ' std',
unit='-',
lat_name=lat_name,
lon_name=lon_name,
shift_lon=False,
scale_factor=scf,
level=thelevel)
mdata.n = mdata_N.data.copy()
del mdata_N
# ensure that climatology always starts with January, therefore set date and then sort
mdata.adjust_time(year=1700,
day=15) # set arbitrary time for climatology
mdata.timsort()
#4) read monthly data
mdata_all = Data(file_monthly,
varname,
read=True,
label=self._unique_name,
unit=units,
lat_name=lat_name,
lon_name=lon_name,
shift_lon=False,
time_cycle=12,
scale_factor=scf,
level=thelevel)
mdata_all.adjust_time(day=15)
#mask_antarctica masks everything below 60 degrees S.
#here we only mask Antarctica, if only LAND points shall be used
if valid_mask == 'land':
mask_antarctica = True
elif valid_mask == 'ocean':
mask_antarctica = False
else:
mask_antarctica = False
if target_grid == 't63grid':
mdata._apply_mask(
get_T63_landseamask(False,
area=valid_mask,
mask_antarctica=mask_antarctica))
mdata_all._apply_mask(
get_T63_landseamask(False,
area=valid_mask,
mask_antarctica=mask_antarctica))
else:
tmpmsk = get_generic_landseamask(False,
area=valid_mask,
target_grid=target_grid,
mask_antarctica=mask_antarctica)
mdata._apply_mask(tmpmsk)
mdata_all._apply_mask(tmpmsk)
del tmpmsk
mdata_mean = mdata_all.fldmean()
mdata._raw_filename = filename1
mdata._monthly_filename = file_monthly
mdata._clim_filename = mdata_clim_file
mdata._varname = varname
# return data as a tuple list
retval = (mdata_all.time, mdata_mean, mdata_all)
del mdata_all
return mdata, retval
def xxxxxxxxxxxxxxxxxxxget_surface_shortwave_radiation_down(self, interval='season', force_calc=False, **kwargs):
"""
return data object of
a) seasonal means for SIS
b) global mean timeseries for SIS at original temporal resolution
"""
the_variable = 'rsds'
locdict = kwargs[self.type]
valid_mask = locdict.pop('valid_mask')
if self.start_time is None:
raise ValueError('Start time needs to be specified')
if self.stop_time is None:
raise ValueError('Stop time needs to be specified')
s_start_time = str(self.start_time)[0:10]
s_stop_time = str(self.stop_time)[0:10]
if self.type == 'CMIP5':
filename1 = self.data_dir + 'rsds' + os.sep + self.experiment + '/ready/' + self.model + '/rsds_Amon_' + self.model + '_' + self.experiment + '_ensmean.nc'
elif self.type == 'CMIP5RAW': # raw CMIP5 data based on ensembles
filename1 = self._get_ensemble_filename(the_variable)
elif self.type == 'CMIP5RAWSINGLE':
filename1 = self.get_single_ensemble_file(the_variable, mip='Amon', realm='atmos', temporal_resolution='mon')
else:
raise ValueError('Unknown model type! not supported here!')
if not os.path.exists(filename1):
print ('WARNING file not existing: %s' % filename1)
return None
#/// PREPROCESSING ///
cdo = Cdo()
#1) select timeperiod and generatget_she monthly mean file
file_monthly = filename1[:-3] + '_' + s_start_time + '_' + s_stop_time + '_T63_monmean.nc'
file_monthly = get_temporary_directory() + os.path.basename(file_monthly)
print file_monthly
sys.stdout.write('\n *** Model file monthly: %s\n' % file_monthly)
cdo.monmean(options='-f nc', output=file_monthly, input='-remapcon,t63grid -seldate,' + s_start_time + ',' + s_stop_time + ' ' + filename1, force=force_calc)
sys.stdout.write('\n *** Reading model data... \n')
sys.stdout.write(' Interval: ' + interval + '\n')
#2) calculate monthly or seasonal climatology
if interval == 'monthly':
sis_clim_file = file_monthly[:-3] + '_ymonmean.nc'
sis_sum_file = file_monthly[:-3] + '_ymonsum.nc'
sis_N_file = file_monthly[:-3] + '_ymonN.nc'
sis_clim_std_file = file_monthly[:-3] + '_ymonstd.nc'
cdo.ymonmean(options='-f nc -b 32', output=sis_clim_file, input=file_monthly, force=force_calc)
cdo.ymonsum(options='-f nc -b 32', output=sis_sum_file, input=file_monthly, force=force_calc)
cdo.ymonstd(options='-f nc -b 32', output=sis_clim_std_file, input=file_monthly, force=force_calc)
cdo.div(options='-f nc', output=sis_N_file, input=sis_sum_file + ' ' + sis_clim_file, force=force_calc) # number of samples
elif interval == 'season':
sis_clim_file = file_monthly[:-3] + '_yseasmean.nc'
sis_sum_file = file_monthly[:-3] + '_yseassum.nc'
sis_N_file = file_monthly[:-3] + '_yseasN.nc'
sis_clim_std_file = file_monthly[:-3] + '_yseasstd.nc'
cdo.yseasmean(options='-f nc -b 32', output=sis_clim_file, input=file_monthly, force=force_calc)
cdo.yseassum(options='-f nc -b 32', output=sis_sum_file, input=file_monthly, force=force_calc)
cdo.yseasstd(options='-f nc -b 32', output=sis_clim_std_file, input=file_monthly, force=force_calc)
cdo.div(options='-f nc -b 32', output=sis_N_file, input=sis_sum_file + ' ' + sis_clim_file, force=force_calc) # number of samples
else:
print interval
raise ValueError('Unknown temporal interval. Can not perform preprocessing!')
if not os.path.exists(sis_clim_file):
return None
#3) read data
sis = Data(sis_clim_file, 'rsds', read=True, label=self._unique_name, unit='$W m^{-2}$', lat_name='lat', lon_name='lon', shift_lon=False)
sis_std = Data(sis_clim_std_file, 'rsds', read=True, label=self._unique_name + ' std', unit='-', lat_name='lat', lon_name='lon', shift_lon=False)
sis.std = sis_std.data.copy()
del sis_std
sis_N = Data(sis_N_file, 'rsds', read=True, label=self._unique_name + ' std', unit='-', lat_name='lat', lon_name='lon', shift_lon=False)
sis.n = sis_N.data.copy()
del sis_N
#ensure that climatology always starts with January, therefore set date and then sort
sis.adjust_time(year=1700, day=15) # set arbitrary time for climatology
sis.timsort()
#4) read monthly data
sisall = Data(file_monthly, 'rsds', read=True, label=self._unique_name, unit='W m^{-2}', lat_name='lat', lon_name='lon', shift_lon=False)
if not sisall._is_monthly():
raise ValueError('Timecycle of 12 expected here!')
sisall.adjust_time(day=15)
# land/sea masking ...
if valid_mask == 'land':
mask_antarctica = True
elif valid_mask == 'ocean':
mask_antarctica = False
else:
mask_antarctica = False
sis._apply_mask(get_T63_landseamask(False, mask_antarctica=mask_antarctica, area=valid_mask))
sisall._apply_mask(get_T63_landseamask(False, mask_antarctica=mask_antarctica, area=valid_mask))
sismean = sisall.fldmean()
# return data as a tuple list
retval = (sisall.time, sismean, sisall)
del sisall
# mask areas without radiation (set to invalid): all data < 1 W/m**2
sis.data = np.ma.array(sis.data, mask=sis.data < 1.)
return sis, retval
def get_jsbach_data_generic(self, interval='season', **kwargs):
"""
unique parameters are:
filename - file basename
variable - name of the variable as the short_name in the netcdf file
kwargs is a dictionary with keys for each model. Then a dictionary with properties follows
"""
if not self.type in kwargs.keys():
print 'WARNING: it is not possible to get data using generic function, as method missing: ', self.type, kwargs.keys()
return None
print self.type
print kwargs
locdict = kwargs[self.type]
# read settings and details from the keyword arguments
# no defaults; everything should be explicitely specified in either the config file or the dictionaries
varname = locdict.pop('variable')
units = locdict.pop('unit', 'Unit not specified')
lat_name = locdict.pop('lat_name', 'lat')
lon_name = locdict.pop('lon_name', 'lon')
#model_suffix = locdict.pop('model_suffix')
#model_prefix = locdict.pop('model_prefix')
file_format = locdict.pop('file_format')
scf = locdict.pop('scale_factor')
valid_mask = locdict.pop('valid_mask')
custom_path = locdict.pop('custom_path', None)
thelevel = locdict.pop('level', None)
target_grid = self._actplot_options['targetgrid']
interpolation = self._actplot_options['interpolation']
if self.type != 'JSBACH_RAW2':
print self.type
raise ValueError('Invalid data format here!')
# define from which stream of JSBACH data needs to be taken for specific variables
if varname in ['swdown_acc', 'swdown_reflect_acc']:
filename1 = self.files['jsbach']
elif varname in ['precip_acc']:
filename1 = self.files['land']
elif varname in ['temp2']:
filename1 = self.files['echam']
elif varname in ['var14']: # albedo vis
filename1 = self.files['albedo_vis']
elif varname in ['var15']: # albedo NIR
filename1 = self.files['albedo_nir']
else:
print varname
raise ValueError('Unknown variable type for JSBACH_RAW2 processing!')
force_calc = False
if self.start_time is None:
raise ValueError('Start time needs to be specified')
if self.stop_time is None:
raise ValueError('Stop time needs to be specified')
#/// PREPROCESSING ///
cdo = Cdo()
s_start_time = str(self.start_time)[0:10]
s_stop_time = str(self.stop_time)[0:10]
#1) select timeperiod and generate monthly mean file
if target_grid == 't63grid':
gridtok = 'T63'
else:
gridtok = 'SPECIAL_GRID'
file_monthly = filename1[:-3] + '_' + s_start_time + '_' + s_stop_time + '_' + gridtok + '_monmean.nc' # target filename
file_monthly = get_temporary_directory() + os.path.basename(file_monthly)
sys.stdout.write('\n *** Model file monthly: %s\n' % file_monthly)
if not os.path.exists(filename1):
print 'WARNING: File not existing: ' + filename1
return None
cdo.monmean(options='-f nc', output=file_monthly, input='-' + interpolation + ',' + target_grid + ' -seldate,' + s_start_time + ',' + s_stop_time + ' ' + filename1, force=force_calc)
sys.stdout.write('\n *** Reading model data... \n')
sys.stdout.write(' Interval: ' + interval + '\n')
#2) calculate monthly or seasonal climatology
if interval == 'monthly':
mdata_clim_file = file_monthly[:-3] + '_ymonmean.nc'
mdata_sum_file = file_monthly[:-3] + '_ymonsum.nc'
mdata_N_file = file_monthly[:-3] + '_ymonN.nc'
mdata_clim_std_file = file_monthly[:-3] + '_ymonstd.nc'
cdo.ymonmean(options='-f nc -b 32', output=mdata_clim_file, input=file_monthly, force=force_calc)
cdo.ymonsum(options='-f nc -b 32', output=mdata_sum_file, input=file_monthly, force=force_calc)
cdo.ymonstd(options='-f nc -b 32', output=mdata_clim_std_file, input=file_monthly, force=force_calc)
cdo.div(options='-f nc', output=mdata_N_file, input=mdata_sum_file + ' ' + mdata_clim_file, force=force_calc) # number of samples
elif interval == 'season':
mdata_clim_file = file_monthly[:-3] + '_yseasmean.nc'
mdata_sum_file = file_monthly[:-3] + '_yseassum.nc'
mdata_N_file = file_monthly[:-3] + '_yseasN.nc'
mdata_clim_std_file = file_monthly[:-3] + '_yseasstd.nc'
cdo.yseasmean(options='-f nc -b 32', output=mdata_clim_file, input=file_monthly, force=force_calc)
cdo.yseassum(options='-f nc -b 32', output=mdata_sum_file, input=file_monthly, force=force_calc)
cdo.yseasstd(options='-f nc -b 32', output=mdata_clim_std_file, input=file_monthly, force=force_calc)
cdo.div(options='-f nc -b 32', output=mdata_N_file, input=mdata_sum_file + ' ' + mdata_clim_file, force=force_calc) # number of samples
else:
raise ValueError('Unknown temporal interval. Can not perform preprocessing! ')
if not os.path.exists(mdata_clim_file):
return None
#3) read data
if interval == 'monthly':
thetime_cylce = 12
elif interval == 'season':
thetime_cylce = 4
else:
print interval
raise ValueError('Unsupported interval!')
mdata = Data(mdata_clim_file, varname, read=True, label=self.model, unit=units, lat_name=lat_name, lon_name=lon_name, shift_lon=False, scale_factor=scf, level=thelevel, time_cycle=thetime_cylce)
mdata_std = Data(mdata_clim_std_file, varname, read=True, label=self.model + ' std', unit='-', lat_name=lat_name, lon_name=lon_name, shift_lon=False, level=thelevel, time_cycle=thetime_cylce)
mdata.std = mdata_std.data.copy()
del mdata_std
mdata_N = Data(mdata_N_file, varname, read=True, label=self.model + ' std', unit='-', lat_name=lat_name, lon_name=lon_name, shift_lon=False, scale_factor=scf, level=thelevel)
mdata.n = mdata_N.data.copy()
del mdata_N
#ensure that climatology always starts with J anuary, therefore set date and then sort
mdata.adjust_time(year=1700, day=15) # set arbitrary time for climatology
mdata.timsort()
#4) read monthly data
mdata_all = Data(file_monthly, varname, read=True, label=self.model, unit=units, lat_name=lat_name, lon_name=lon_name, shift_lon=False, time_cycle=12, scale_factor=scf, level=thelevel)
mdata_all.adjust_time(day=15)
if target_grid == 't63grid':
mdata._apply_mask(get_T63_landseamask(False, area=valid_mask))
mdata_all._apply_mask(get_T63_landseamask(False, area=valid_mask))
else:
tmpmsk = get_generic_landseamask(False, area=valid_mask, target_grid=target_grid)
mdata._apply_mask(tmpmsk)
mdata_all._apply_mask(tmpmsk)
del tmpmsk
mdata_mean = mdata_all.fldmean()
# return data as a tuple list
retval = (mdata_all.time, mdata_mean, mdata_all)
del mdata_all
return mdata, retval
def get_model_data_generic(self, interval='season', **kwargs):
"""
unique parameters are:
filename - file basename
variable - name of the variable as the short_name in the netcdf file
kwargs is a dictionary with keys for each model. Then a dictionary with properties follows
"""
if not self.type in kwargs.keys():
print 'WARNING: it is not possible to get data using generic function, as method missing: ', self.type, kwargs.keys()
return None
locdict = kwargs[self.type]
# read settings and details from the keyword arguments
# no defaults; everything should be explicitely specified in either the config file or the dictionaries
varname = locdict.pop('variable')
units = locdict.pop('unit', 'Crazy Unit')
#interval = kwargs.pop('interval') #, 'season') #does not make sense to specifiy a default value as this option is specified by configuration file!
lat_name = locdict.pop('lat_name', 'lat')
lon_name = locdict.pop('lon_name', 'lon')
model_suffix = locdict.pop('model_suffix')
model_prefix = locdict.pop('model_prefix')
file_format = locdict.pop('file_format')
scf = locdict.pop('scale_factor')
valid_mask = locdict.pop('valid_mask')
custom_path = locdict.pop('custom_path', None)
thelevel = locdict.pop('level', None)
target_grid = self._actplot_options['targetgrid']
interpolation = self._actplot_options['interpolation']
if custom_path is None:
filename1 = ("%s%s/merged/%s_%s_%s_%s_%s.%s" %
(self.data_dir, varname, varname, model_prefix, self.model, self.experiment, model_suffix, file_format))
else:
if self.type == 'CMIP5':
filename1 = ("%s/%s_%s_%s_%s_%s.%s" %
(custom_path, varname, model_prefix, self.model, self.experiment, model_suffix, file_format))
elif self.type == 'CMIP5RAW':
filename1 = ("%s/%s_%s_%s_%s_%s.%s" %
(custom_path, varname, model_prefix, self.model, self.experiment, model_suffix, file_format))
elif self.type == 'CMIP5RAWSINGLE':
print 'todo needs implementation!'
assert False
elif self.type == 'CMIP3':
filename1 = ("%s/%s_%s_%s_%s.%s" %
(custom_path, self.experiment, self.model, varname, model_suffix, file_format))
else:
print self.type
raise ValueError('Can not generate filename: invalid model type! %s' % self.type)
force_calc = False
if self.start_time is None:
raise ValueError('Start time needs to be specified')
if self.stop_time is None:
raise ValueError('Stop time needs to be specified')
#/// PREPROCESSING ///
cdo = Cdo()
s_start_time = str(self.start_time)[0:10]
s_stop_time = str(self.stop_time)[0:10]
#1) select timeperiod and generate monthly mean file
if target_grid == 't63grid':
gridtok = 'T63'
else:
gridtok = 'SPECIAL_GRID'
file_monthly = filename1[:-3] + '_' + s_start_time + '_' + s_stop_time + '_' + gridtok + '_monmean.nc' # target filename
file_monthly = get_temporary_directory() + os.path.basename(file_monthly)
sys.stdout.write('\n *** Model file monthly: %s\n' % file_monthly)
if not os.path.exists(filename1):
print 'WARNING: File not existing: ' + filename1
return None
cdo.monmean(options='-f nc', output=file_monthly, input='-' + interpolation + ',' + target_grid + ' -seldate,' + s_start_time + ',' + s_stop_time + ' ' + filename1, force=force_calc)
sys.stdout.write('\n *** Reading model data... \n')
sys.stdout.write(' Interval: ' + interval + '\n')
#2) calculate monthly or seasonal climatology
if interval == 'monthly':
mdata_clim_file = file_monthly[:-3] + '_ymonmean.nc'
mdata_sum_file = file_monthly[:-3] + '_ymonsum.nc'
mdata_N_file = file_monthly[:-3] + '_ymonN.nc'
mdata_clim_std_file = file_monthly[:-3] + '_ymonstd.nc'
cdo.ymonmean(options='-f nc -b 32', output=mdata_clim_file, input=file_monthly, force=force_calc)
cdo.ymonsum(options='-f nc -b 32', output=mdata_sum_file, input=file_monthly, force=force_calc)
cdo.ymonstd(options='-f nc -b 32', output=mdata_clim_std_file, input=file_monthly, force=force_calc)
cdo.div(options='-f nc', output=mdata_N_file, input=mdata_sum_file + ' ' + mdata_clim_file, force=force_calc) # number of samples
elif interval == 'season':
mdata_clim_file = file_monthly[:-3] + '_yseasmean.nc'
mdata_sum_file = file_monthly[:-3] + '_yseassum.nc'
mdata_N_file = file_monthly[:-3] + '_yseasN.nc'
mdata_clim_std_file = file_monthly[:-3] + '_yseasstd.nc'
cdo.yseasmean(options='-f nc -b 32', output=mdata_clim_file, input=file_monthly, force=force_calc)
cdo.yseassum(options='-f nc -b 32', output=mdata_sum_file, input=file_monthly, force=force_calc)
cdo.yseasstd(options='-f nc -b 32', output=mdata_clim_std_file, input=file_monthly, force=force_calc)
cdo.div(options='-f nc -b 32', output=mdata_N_file, input=mdata_sum_file + ' ' + mdata_clim_file, force=force_calc) # number of samples
else:
raise ValueError('Unknown temporal interval. Can not perform preprocessing!')
if not os.path.exists(mdata_clim_file):
return None
#3) read data
if interval == 'monthly':
thetime_cylce = 12
elif interval == 'season':
thetime_cylce = 4
else:
print interval
raise ValueError('Unsupported interval!')
mdata = Data(mdata_clim_file, varname, read=True, label=self._unique_name, unit=units, lat_name=lat_name, lon_name=lon_name, shift_lon=False, scale_factor=scf, level=thelevel, time_cycle=thetime_cylce)
mdata_std = Data(mdata_clim_std_file, varname, read=True, label=self._unique_name + ' std', unit='-', lat_name=lat_name, lon_name=lon_name, shift_lon=False, level=thelevel, time_cycle=thetime_cylce)
mdata.std = mdata_std.data.copy()
del mdata_std
mdata_N = Data(mdata_N_file, varname, read=True, label=self._unique_name + ' std', unit='-', lat_name=lat_name, lon_name=lon_name, shift_lon=False, scale_factor=scf, level=thelevel)
mdata.n = mdata_N.data.copy()
del mdata_N
#ensure that climatology always starts with January, therefore set date and then sort
mdata.adjust_time(year=1700, day=15) # set arbitrary time for climatology
mdata.timsort()
#4) read monthly data
mdata_all = Data(file_monthly, varname, read=True, label=self._unique_name, unit=units, lat_name=lat_name, lon_name=lon_name, shift_lon=False, time_cycle=12, scale_factor=scf, level=thelevel)
mdata_all.adjust_time(day=15)
#mask_antarctica masks everything below 60 degrees S.
#here we only mask Antarctica, if only LAND points shall be used
if valid_mask == 'land':
mask_antarctica = True
elif valid_mask == 'ocean':
mask_antarctica = False
else:
mask_antarctica = False
if target_grid == 't63grid':
mdata._apply_mask(get_T63_landseamask(False, area=valid_mask, mask_antarctica=mask_antarctica))
mdata_all._apply_mask(get_T63_landseamask(False, area=valid_mask, mask_antarctica=mask_antarctica))
else:
tmpmsk = get_generic_landseamask(False, area=valid_mask, target_grid=target_grid, mask_antarctica=mask_antarctica)
mdata._apply_mask(tmpmsk)
mdata_all._apply_mask(tmpmsk)
del tmpmsk
mdata_mean = mdata_all.fldmean()
# return data as a tuple list
retval = (mdata_all.time, mdata_mean, mdata_all)
del mdata_all
return mdata, retval
def _import_regional_file(self, region_file, varname, targetgrid=None, logfile=None):
"""
check if the regional file can be either imported or if
regions are provided as vector data. In the latter case
the regions are rasterized and results are stored in a netCDF
file
Parameters
----------
region_file : str
name of file defining the region. This is either a netCDF
file which contains the mask as different integer values
or it is a *.reg file which contains the regions as
vector data.
varname : str
name of variable in netCDF file
targetgrid : str
name of targetgrid; either 't63grid' or the name of a file
with a valid geometry
Returns
-------
region_filename, region_file_varname
"""
if not os.path.exists(region_file):
raise ValueError('ERROR: region file is not existing: ' + region_file)
ext = os.path.splitext(region_file)[1]
if ext == '.nc':
# netCDF file was given. Try to read variable
if varname is None:
raise ValueError('ERROR: no variable name given!')
try:
tmp = Data(region_file, varname, read=True)
except:
raise ValueError('ERROR: the regional masking file can not be read!')
del tmp
# everything is fine
return region_file, varname
elif ext == '.reg':
# regions were given as vector files. Read it and
# rasterize the data and store results in a temporary
# file
import tempfile
if targetgrid is None:
raise ValueError('ERROR: targetgrid needs to be specified for vectorization of regions!')
if targetgrid == 't63grid':
ls_mask = get_T63_landseamask(True, area='global', mask_antarctica=False)
else:
ls_mask = get_generic_landseamask(True, area='global', target_grid=targetgrid,
mask_antarctica=False)
# temporary netCDF filename
region_file1 = tempfile.mktemp(prefix='region_mask_', suffix='.nc')
R = RegionParser(region_file) # read region vector data
M = Raster(ls_mask.lon, ls_mask.lat)
polylist = []
if logfile is not None:
logf = open(logfile, 'w')
else:
logf = None
id = 1
for k in R.regions.keys():
reg = R.regions[k]
polylist.append(pycmbsPolygon(id, zip(reg.lon, reg.lat)))
if logf is not None: # store mapping table
logf.write(k + '\t' + str(id) + '\n')
id += 1
M.rasterize_polygons(polylist)
if logf is not None:
logf.close()
# generate dummy output file
O = Data(None, None)
O.data = M.mask
O.lat = ls_mask.lat
O.lon = ls_mask.lon
varname = 'regions'
O.save(region_file1, varname=varname, format='nc', delete=True)
print('Regionfile was store in file: %s' % region_file1)
# check again that file is readable
try:
tmp = Data(region_file1, varname, read=True)
except:
print region_file1, varname
raise ValueError('ERROR: the generated region file is not readable!')
del tmp
return region_file1, varname
else:
raise ValueError('ERROR: unsupported file type')