def merge_first_year_to_historic(future_fname):
'''
Read last year of real sea-ice data, and first year of new data
Merge them over the first month
'''
dir_in_hist = '/group_workspaces/jasmin2/primavera1/WP6/forcing/HadISST2_submit/v1.2/'
fice = 'siconc_input4MIPs_SSTsAndSeaIce_HighResMIP_MOHC-HadISST-2-2-0-0-0_gn_' + str(
FIRST_FUTURE_YEAR - 1) + '0101-' + str(FIRST_FUTURE_YEAR -
1) + '1231.nc'
sic = iris.load_cube(dir_in_hist + fice)
icc.add_month_number(sic, 'time', name='month')
month_constraint_dec = iris.Constraint(
coord_values={'month': lambda l: l == 12})
month_constraint_jan = iris.Constraint(
coord_values={'month': lambda l: l == 1})
sic_hist = sic.extract(month_constraint_dec)
sic_future = iris.load_cube(future_fname)
sic_future_month = sic_future.extract(month_constraint_jan)
ndays = sic_future_month.shape[0]
for iday in range(0, ndays):
weight = float(iday) / float(ndays - 1)
sic_future.data[iday, :, :] = sic_hist.data[-1, :, :] * (
1.0 - weight) + sic_future_month.data[iday, :, :] * weight
iris.save(sic_future, future_fname[:-3] + '_merged.nc')
cmd = 'mv ' + future_fname + ' ' + future_fname[:-3] + '_unmerged.nc'
os.system(cmd)
cmd = 'mv ' + future_fname[:-3] + '_merged.nc' + ' ' + future_fname
os.system(cmd)
def add_extra_time_coords(cube):
"""
Adds new coordinate for indexing a given simulation based on model and
ensemble and adds additional time coordinates for unit manipulation
"""
if not cube.coords('year'):
icc.add_year(cube, 'time')
if not cube.coords('month'):
icc.add_month(cube, 'time')
if not cube.coords('month_number'):
icc.add_month_number(cube, 'time')
if not cube.coords('day_of_month'):
icc.add_day_of_month(cube, 'time')
if not cube.coords('hour'):
icc.add_hour(cube, 'time')
return cube
def select_certain_months(cubes, lbmon):
"""
Select data from CubeList that matches the specified months.
:param CubeList cubes: Iris CubeList.
:param list lbmon: List with month numbers, e.g. lbmon=[5,6,7] for Mai,
June, and July.
:returns: CubeList with Cubes containing only data for the specified mnth.
:rtype: CubeList
:raises: `AssertionError` if `cubes` is not an `iris.cube.CubeList`.
"""
# add 'month number' coordinate
add_time_coord = {
'monthly':
lambda cube: coord_cat.add_month_number(
cube, 'time', name='month_number'),
'seasonal':
lambda cube: coord_cat.add_season(cube, 'time', name='clim_season'),
'annual':
lambda cube: coord_cat.add_season_year(
cube, 'time', name='season_year')
}
assert isinstance(cubes, iris.cube.CubeList)
for cube in cubes:
add_time_coord['monthly'](cube)
# filter by month number
month_constraint = iris.Constraint(month_number=lbmon)
return cubes.extract(
month_constraint) # CubeList.extract returns always CubeList
def test_basic(self):
cube = self.cube
time_coord = self.time_coord
ccat.add_year(cube, time_coord, 'my_year')
ccat.add_day_of_month(cube, time_coord, 'my_day_of_month')
ccat.add_day_of_year(cube, time_coord, 'my_day_of_year')
ccat.add_month(cube, time_coord, 'my_month')
with warnings.catch_warnings(record=True):
ccat.add_month_shortname(cube, time_coord, 'my_month_shortname')
ccat.add_month_fullname(cube, time_coord, 'my_month_fullname')
ccat.add_month_number(cube, time_coord, 'my_month_number')
ccat.add_weekday(cube, time_coord, 'my_weekday')
ccat.add_weekday_number(cube, time_coord, 'my_weekday_number')
with warnings.catch_warnings(record=True):
ccat.add_weekday_shortname(cube, time_coord,
'my_weekday_shortname')
ccat.add_weekday_fullname(cube, time_coord, 'my_weekday_fullname')
ccat.add_season(cube, time_coord, 'my_season')
ccat.add_season_number(cube, time_coord, 'my_season_number')
with warnings.catch_warnings(record=True):
ccat.add_season_month_initials(cube, time_coord,
'my_season_month_initials')
ccat.add_season_year(cube, time_coord, 'my_season_year')
# also test 'generic' categorisation interface
def _month_in_quarter(coord, pt_value):
date = coord.units.num2date(pt_value)
return (date.month - 1) % 3
ccat.add_categorised_coord(cube,
'my_month_in_quarter',
time_coord,
_month_in_quarter)
# To ensure consistent results between 32-bit and 64-bit
# platforms, ensure all the numeric categorisation coordinates
# are always stored as int64.
for coord in cube.coords():
if coord.long_name is not None and coord.points.dtype.kind == 'i':
coord.points = coord.points.astype(np.int64)
# check values
self.assertCML(cube, ('categorisation', 'quickcheck.cml'))
def reinit_broken_time(cube_anom, cube_clim, climstart, climend):
""" the time coordinates are a big mess (given as floats in years A.D.)
best to reinitialize them from scratch
"""
logger.info("Reinitializing broken time coordinate")
time_raw = cube_anom.coord('time')
n_years, n_add_mon = len(time_raw.points) // 12, len(time_raw.points) % 12
start_year = int(time_raw.points[0])
n_days = (n_years + n_add_mon / 12) * 365.25 + 50 # have some extra length
climcenter = (climend - climstart) // 2
times = iris.coords.DimCoord(
np.arange(int(n_days), dtype=float),
var_name='time',
standard_name='time',
long_name='time',
units=cf_units.Unit('days since {}-01-01 00:00:00'.format(start_year),
calendar=cf_units.CALENDAR_STANDARD))
# init a dummy cube to enable coord_categorisation
dummycube = iris.cube.Cube(np.zeros(int(n_days), np.int),
dim_coords_and_dims=[(times, 0)])
coord_categorisation.add_year(dummycube, 'time', name='year')
coord_categorisation.add_month_number(dummycube, 'time', name='month')
# build timecoord for the anomaly cube
dummycube = dummycube.aggregated_by(['year', 'month'], iris.analysis.MEAN)
dummycube = dummycube[:(n_years * 12 + n_add_mon)]
timecoord_anom = dummycube.coord('time')
# build timecoord for the climatology cube
dummycube_clim = dummycube.extract(
iris.Constraint(year=lambda cell: cell == climstart + climcenter))
timecoord_clim = dummycube_clim.coord('time')
# change to the new time coordinates
cube_anom.remove_coord('time')
cube_anom.add_dim_coord(timecoord_anom, 0)
cube_clim.add_dim_coord(timecoord_clim, 0)
# convert time units to standard
utils.convert_timeunits(cube_anom, 1950)
utils.convert_timeunits(cube_clim, 1950)
return (cube_anom, cube_clim)
def hovmoller(target_dir):
fname = os.path.join(DATA_ZOO, 'PP', 'ostia', 'ostia_sst_200604_201009_N216.pp')
cube = iris.load_cube(fname, iris.Constraint('surface_temperature', latitude=lambda v: -5 < v < 5))
iris_cat.add_month_number(cube, cube.coord('time'), 'month')
iris_cat.add_year(cube, cube.coord('time'), 'year')
monthly_mean = cube.aggregated_by(['year', 'month'], iris.analysis.MEAN)
monthly_mean.remove_coord('month')
monthly_mean.remove_coord('year')
# make time the dimension coordinate (wont be needed once Bill has #22)
t = monthly_mean.coord('time')
monthly_mean.remove_coord(t)
monthly_mean.add_dim_coord(t, 0)
iris.save(monthly_mean, os.path.join(target_dir, 'ostia_monthly.nc'))
def climatology(cube, kind='month'):
"""Calculate a climatology for a cube. Can do monthly or yearly.
Args:
cube (iris.cube.Cube)
kind (Optional[str]): 'month' or 'year'
Returns:
iris.cube.Cube
"""
aux_coords = [aux_coord.name() for aux_coord in cube.aux_coords]
if 'year' not in aux_coords:
cat.add_year(cube, 'time')
if 'month' not in aux_coords:
cat.add_month(cube, 'time')
cat.add_month_number(cube, 'time')
out = cube.aggregated_by(kind, iris.analysis.MEAN)
# If the data don't start in January the time coordinate will no longer
# be monotonic. Fix this.
if (kind == 'month') and (not out.coord('time').is_monotonic()):
# Reorder the data so January is first.
jan_index = np.where(out.coord('month').points == 'Jan')[0][0]
ntim = 12
sort_indices = range(jan_index, ntim) + range(0, jan_index)
out = out[sort_indices]
# Create a new time coordinate which is monotonic.
startyear = int(out.coord('time').units.num2date(0).year)
newtime_points = [
netcdftime.datetime(startyear + (m / 12), (m % 12) + 1, 1)
for m in out.coord('month_number').points.astype(int) - 1
]
time_units = out.coord('time').units
newtime_points = time_units.date2num(newtime_points)
newtime = iris.coords.DimCoord(newtime_points,
units=time_units,
standard_name='time')
data_dim = out.coord_dims('time')[0]
out.remove_coord('time')
out.add_dim_coord(newtime, data_dim)
return out
def test_basic(self):
cube = self.cube
time_coord = self.time_coord
ccat.add_year(cube, time_coord, 'my_year')
ccat.add_day_of_month(cube, time_coord, 'my_day_of_month')
ccat.add_day_of_year(cube, time_coord, 'my_day_of_year')
ccat.add_month(cube, time_coord, 'my_month')
with warnings.catch_warnings(record=True):
ccat.add_month_shortname(cube, time_coord, 'my_month_shortname')
ccat.add_month_fullname(cube, time_coord, 'my_month_fullname')
ccat.add_month_number(cube, time_coord, 'my_month_number')
ccat.add_weekday(cube, time_coord, 'my_weekday')
ccat.add_weekday_number(cube, time_coord, 'my_weekday_number')
with warnings.catch_warnings(record=True):
ccat.add_weekday_shortname(cube, time_coord,
'my_weekday_shortname')
ccat.add_weekday_fullname(cube, time_coord, 'my_weekday_fullname')
ccat.add_season(cube, time_coord, 'my_season')
ccat.add_season_number(cube, time_coord, 'my_season_number')
with warnings.catch_warnings(record=True):
ccat.add_season_month_initials(cube, time_coord,
'my_season_month_initials')
ccat.add_season_year(cube, time_coord, 'my_season_year')
# also test 'generic' categorisation interface
def _month_in_quarter(coord, pt_value):
date = coord.units.num2date(pt_value)
return (date.month - 1) % 3
ccat.add_categorised_coord(cube, 'my_month_in_quarter', time_coord,
_month_in_quarter)
# To ensure consistent results between 32-bit and 64-bit
# platforms, ensure all the numeric categorisation coordinates
# are always stored as int64.
for coord in cube.coords():
if coord.long_name is not None and coord.points.dtype.kind == 'i':
coord.points = coord.points.astype(np.int64)
# check values
self.assertCML(cube, ('categorisation', 'quickcheck.cml'))
def add_time_names(cube, year=False, month_number=False, day_of_year=False):
'''
Add additional coordiate names to time dimension
'''
if year:
icc.add_year(cube, 'time', name='year')
if month_number:
try:
icc.add_month_number(cube, 'time', name='month')
except:
pass
if day_of_year:
try:
icc.add_day_of_year(cube, 'time', name='day_of_year')
except:
pass
def test_basic(self):
#make a series of 'day numbers' for the time, that slide across month boundaries
day_numbers = np.arange(0, 600, 27, dtype=np.int32)
cube = iris.cube.Cube(day_numbers, long_name='test cube', units='metres')
#use day numbers as data values also (don't actually use this for anything)
cube.data = day_numbers
time_coord = iris.coords.DimCoord(
day_numbers, standard_name='time', units=iris.unit.Unit('days since epoch', 'gregorian'))
cube.add_dim_coord(time_coord, 0)
#add test coordinates for examples wanted
ccat.add_year(cube, time_coord)
ccat.add_day_of_month(cube, 'time') #NB test passing coord-name instead of coord itself
ccat.add_month(cube, time_coord)
ccat.add_month_shortname(cube, time_coord, name='month_short')
ccat.add_month_fullname(cube, time_coord, name='month_full')
ccat.add_month_number(cube, time_coord, name='month_number')
ccat.add_weekday(cube, time_coord)
ccat.add_weekday_number(cube, time_coord, name='weekday_number')
ccat.add_weekday_shortname(cube, time_coord, name='weekday_short')
ccat.add_weekday_fullname(cube, time_coord, name='weekday_full')
ccat.add_season(cube, time_coord)
ccat.add_season_number(cube, time_coord, name='season_number')
ccat.add_season_month_initials(cube, time_coord, name='season_months')
ccat.add_season_year(cube, time_coord, name='year_ofseason')
#also test 'generic' categorisation interface
def _month_in_quarter(coord, pt_value):
date = coord.units.num2date(pt_value)
return (date.month - 1) % 3
ccat.add_categorised_coord(cube, 'month_in_quarter', time_coord, _month_in_quarter)
for coord_name in ['month_number', 'month_in_quarter', 'weekday_number', 'season_number', 'year_ofseason', 'year', 'day']:
cube.coord(coord_name).points = cube.coord(coord_name).points.astype(np.int64)
#check values
self.assertCML(cube, ('categorisation', 'quickcheck.cml'))
def climatology(cube, kind='month'):
"""Calculate a climatology for a cube. Can do monthly or yearly.
Args:
cube (iris.cube.Cube)
kind (Optional[str]): 'month' or 'year'
Returns:
iris.cube.Cube
"""
aux_coords = [aux_coord.name() for aux_coord in cube.aux_coords]
if 'year' not in aux_coords:
cat.add_year(cube, 'time')
if 'month' not in aux_coords:
cat.add_month(cube, 'time')
cat.add_month_number(cube, 'time')
out = cube.aggregated_by(kind, iris.analysis.MEAN)
# If the data don't start in January the time coordinate will no longer
# be monotonic. Fix this.
if (kind == 'month') and (not out.coord('time').is_monotonic()):
# Reorder the data so January is first.
jan_index = np.where(out.coord('month').points == 'Jan')[0][0]
ntim = 12
sort_indices = range(jan_index, ntim) + range(0, jan_index)
out = out[sort_indices]
# Create a new time coordinate which is monotonic.
startyear = int(out.coord('time').units.num2date(0).year)
newtime_points = [netcdftime.datetime(startyear + (m / 12), (m % 12) + 1, 1)
for m in out.coord('month_number').points.astype(int)-1]
time_units = out.coord('time').units
newtime_points = time_units.date2num(newtime_points)
newtime = iris.coords.DimCoord(newtime_points, units=time_units,
standard_name='time')
data_dim = out.coord_dims('time')[0]
out.remove_coord('time')
out.add_dim_coord(newtime, data_dim)
return out
def hovmoller(target_dir):
fname = os.path.join(DATA_ZOO, 'PP', 'ostia',
'ostia_sst_200604_201009_N216.pp')
cube = iris.load_cube(
fname,
iris.Constraint('surface_temperature', latitude=lambda v: -5 < v < 5))
iris_cat.add_month_number(cube, cube.coord('time'), 'month')
iris_cat.add_year(cube, cube.coord('time'), 'year')
monthly_mean = cube.aggregated_by(['year', 'month'], iris.analysis.MEAN)
monthly_mean.remove_coord('month')
monthly_mean.remove_coord('year')
# make time the dimension coordinate (wont be needed once Bill has #22)
t = monthly_mean.coord('time')
monthly_mean.remove_coord(t)
monthly_mean.add_dim_coord(t, 0)
iris.save(monthly_mean, os.path.join(target_dir, 'ostia_monthly.nc'))
def add_future_time_info(start_cube):
'''
Fix calendar so that future_cube has dates starting from start_cube+1
'''
future_cube = start_cube.copy()
for coord in ['year', 'month']:
try:
future_cube.remove_coord(coord)
except:
pass
print 'start future year ', future_cube.coord('time').points[0:50]
print 'start future year ', future_cube.coord('time').points[-50:]
# transform time dimension to make this go from Jan onwards
start_period2 = start_cube.coord('year').points[-1] + 1
start_period1 = start_cube.coord('year').points[0]
print 'start period 1,2 ', start_period1, start_period2
# find difference between date wanted and date have
time_delta = datetime.date(start_period2, 1, 1) - datetime.date(
start_period1, 1, 1)
print 'time delta ', time_delta
time_units = start_cube.coord('time').units
print 'time_units ', time_units
if 'hours' in str(time_units):
time_delta_unit = 24.
else:
time_delta_unit = 1.
# add this delta on to time coordinate
future_cube.coord('time').points = future_cube.coord(
'time').points + time_delta.days * time_delta_unit
icc.add_year(future_cube, 'time', name='year')
icc.add_month_number(future_cube, 'time', name='month')
print 'end future year ', future_cube.coord('time').points[0:50]
print 'end future year ', future_cube.coord('year').points[0:50]
return future_cube
def monthly_running_mean(infile):
'''
Try removing mean seasonal cycle from all data
Then perhaps filtering the rest (or else extracting the trend for each month
'''
file_runningmean = infile[:-3] + '_running_monthlymean.nc'
if os.path.exists(file_runningmean):
return file_runningmean
c = iris.load_cube(infile)
icc.add_month_number(c, 'time', name='month')
icc.add_year(c, 'time', name='year')
#cube_anomaly = sst_future.remove_monthly_mean_time_avg(c)
cube_mean = sst_future.monthly_mean_running_time_avg(c)
#iris.save(cube_anomaly, infile[:-3]+'_remove_monthlymean.nc', unlimited_dimensions = ['time'], fill_value = 1.0e20)
iris.save(cube_mean,
file_runningmean,
unlimited_dimensions=['time'],
fill_value=1.0e20)
return file_runningmean
def test_basic(self):
cube = self.cube
time_coord = self.time_coord
ccat.add_year(cube, time_coord, "my_year")
ccat.add_day_of_month(cube, time_coord, "my_day_of_month")
ccat.add_day_of_year(cube, time_coord, "my_day_of_year")
ccat.add_month(cube, time_coord, "my_month")
ccat.add_month_fullname(cube, time_coord, "my_month_fullname")
ccat.add_month_number(cube, time_coord, "my_month_number")
ccat.add_weekday(cube, time_coord, "my_weekday")
ccat.add_weekday_number(cube, time_coord, "my_weekday_number")
ccat.add_weekday_fullname(cube, time_coord, "my_weekday_fullname")
ccat.add_season(cube, time_coord, "my_season")
ccat.add_season_number(cube, time_coord, "my_season_number")
ccat.add_season_year(cube, time_coord, "my_season_year")
# also test 'generic' categorisation interface
def _month_in_quarter(coord, pt_value):
date = coord.units.num2date(pt_value)
return (date.month - 1) % 3
ccat.add_categorised_coord(
cube, "my_month_in_quarter", time_coord, _month_in_quarter
)
# To ensure consistent results between 32-bit and 64-bit
# platforms, ensure all the numeric categorisation coordinates
# are always stored as int64.
for coord in cube.coords():
if coord.long_name is not None and coord.points.dtype.kind == "i":
coord.points = coord.points.astype(np.int64)
# check values
self.assertCML(cube, ("categorisation", "quickcheck.cml"))
def draw_for_date():
cubes = iris.load(T_FILE_PATH)
sst = cubes[1]
coord_categorisation.add_month_number(sst, "time")
coord_categorisation.add_day_of_month(sst, "time")
sst_sel = sst.extract(iris.Constraint(month_number=7, day_of_month=1))
sst_sel.data = np.ma.masked_where(sst_sel.data == 0, sst_sel.data)
b, lons, lats = nemo_commons.get_basemap_and_coordinates_from_file(T_FILE_PATH)
#Plot the data
fig = plt.figure()
x, y = b(lons, lats)
img = b.pcolormesh(x, y, sst_sel.data)
b.colorbar(img)
b.drawcoastlines()
fname = "sst_1july_1958.jpeg"
if not os.path.isdir(NEMO_IMAGES_DIR):
os.mkdir(NEMO_IMAGES_DIR)
fig.savefig(os.path.join(NEMO_IMAGES_DIR, fname))
def get_seasonal_mean_sst(self, start_year=None, end_year=None, season_to_months=None):
"""
:param start_year:
:param end_year:
:param season_to_months:
:return: dict(year -> season -> field)
"""
def group_key(c, val):
for k, months in season_to_months.items():
if val in months:
return k
result = {}
for the_year in range(start_year, end_year + 1):
result[the_year] = {}
data_path = self.year_to_path[the_year]
cube = iris.load_cube(data_path, "Sea Surface temperature")
print(cube)
coord_categorisation.add_month_number(cube, "time")
coord_categorisation.add_categorised_coord(cube, "season", "month_number", group_key)
assert isinstance(cube, Cube)
seas_mean = cube.aggregated_by(["season"], iris.analysis.MEAN)
assert isinstance(seas_mean, Cube)
assert isinstance(self.basemap, Basemap)
for the_season in list(season_to_months.keys()):
c = iris.Constraint(season=the_season)
the_mean = seas_mean.extract(c)
assert isinstance(the_mean, Cube)
result[the_year][the_season] = the_mean.data.transpose()
return result
def draw_for_date():
cubes = iris.load(T_FILE_PATH)
sst = cubes[1]
coord_categorisation.add_month_number(sst, "time")
coord_categorisation.add_day_of_month(sst, "time")
sst_sel = sst.extract(iris.Constraint(month_number=7, day_of_month=1))
sst_sel.data = np.ma.masked_where(sst_sel.data == 0, sst_sel.data)
b, lons, lats = nemo_commons.get_basemap_and_coordinates_from_file(
T_FILE_PATH)
#Plot the data
fig = plt.figure()
x, y = b(lons, lats)
img = b.pcolormesh(x, y, sst_sel.data)
b.colorbar(img)
b.drawcoastlines()
fname = "sst_1july_1958.jpeg"
if not os.path.isdir(NEMO_IMAGES_DIR):
os.mkdir(NEMO_IMAGES_DIR)
fig.savefig(os.path.join(NEMO_IMAGES_DIR, fname))
def main(cfg):
"""Run the diagnostic."""
###########################################################################
# Read recipe data
###########################################################################
# Dataset data containers
data = e.Datasets(cfg)
logging.debug("Found datasets in recipe:\n%s", data)
# Variables
var = e.Variables(cfg)
logging.debug("Found variables in recipe:\n%s", var)
# Check for tas and rlnst
if not var.vars_available('pr', 'ua', 'va', 'ts'):
raise ValueError("This diagnostic needs 'pr', 'ua', " +
" 'va', and 'ts'")
available_exp = list(group_metadata(cfg['input_data'].values(), 'exp'))
if 'historical' not in available_exp:
raise ValueError("The diagnostic needs an historical experiment " +
" and one other experiment.")
if len(available_exp) != 2:
raise ValueError("The diagnostic needs an two model experiments: " +
" onehistorical and one other one.")
available_exp.remove('historical')
future_exp = available_exp[0]
###########################################################################
# Read data
###########################################################################
# Create iris cube for each dataset and save annual means
for dataset_path in data:
cube = iris.load(dataset_path)[0]
cat.add_month_number(cube, 'time', name='month_number')
# MJJAS mean (monsoon season)
cube = cube[np.where(
np.absolute(cube.coord('month_number').points - 7) <= 2)]
cube = cube.collapsed('time', iris.analysis.MEAN)
short_name = data.get_info(n.SHORT_NAME, dataset_path)
if short_name == 'pr':
# convert from kg m-2 s-1 to mm d-1
# cube.convert_units('mm d-1') doesn't work.
cube.data = cube.data * (60.0 * 60.0 * 24.0)
cube.units = 'mm d-1'
# Possible because all data must be interpolated to the same grid.
if 'lats' not in locals():
lats = cube.coord('latitude').points
lons = cube.coord('longitude').points
data.set_data(cube.data, dataset_path)
###########################################################################
# Process data
###########################################################################
data_ar = substract_li(cfg, data, lats, lons, future_exp)
# data_ar {"datasets": datasets, "ar_diff_rain": ar_diff_rain,
# "ar_diff_ua": ar_diff_ua, "ar_diff_va": ar_diff_va,
# "ar_hist_rain": ar_hist_rain, "mism_diff_rain": mism_diff_rain,
# "mwp_hist_rain": mwp_hist_rain}
plot_rain_and_wind(cfg, 'Multi-model_mean',
{'ar_diff_rain': data_ar["ar_diff_rain"],
'ar_diff_ua': data_ar["ar_diff_ua"],
'ar_diff_va': data_ar["ar_diff_va"],
'lats': lats, 'lons': lons}, future_exp)
# Regression between mean ISM rain difference and historical rain
reg2d = get_reg_2d_li(data_ar["mism_diff_rain"], data_ar["ar_hist_rain"],
lats, lons)
plot_2dcorrelation_li(cfg, reg2d, lats, lons)
plot_reg_li(cfg, data_ar, future_exp)
# Regression between mean WP rain and rain difference for each location
reg2d_wp = get_reg_2d_li(data_ar["mwp_hist_rain"], data_ar["ar_diff_rain"],
lats, lons)
data_ar2 = correct_li(data_ar, lats, lons, reg2d_wp)
# return {"datasets": data["datasets"], "ar_diff_cor": ar_diff_cor,
# "proj_err": proj_err, "mism_diff_cor": mism_diff_cor,
# "mism_hist_rain": mism_hist_rain, "mwp_hist_cor": mwp_hist_cor}
plot_reg_li2(cfg, data_ar["datasets"], data_ar["mism_diff_rain"],
data_ar2["mism_diff_cor"], data_ar2["mism_hist_rain"])
plot_rain(cfg, 'Multi-model mean rainfall change due to model error',
np.mean(data_ar2["proj_err"], axis=2), lats, lons)
plot_rain(cfg, 'Corrected multi-model mean rainfall change',
np.mean(data_ar2["ar_diff_cor"], axis=2), lats, lons)
def add_time_coord_cats(cube):
"""
This function takes in an iris cube, and adds a range of
numeric co-ordinate categorisations to it. Depending
on the data, not all of the coords added will be relevant.
args
----
cube: iris cube that has a coordinate called 'time'
Returns
-------
Cube: cube that has new time categorisation coords added
Notes
-----
test
A simple example:
>>> file = os.path.join(conf.DATA_DIR, 'mslp.daily.rcm.viet.nc')
>>> cube = iris.load_cube(file)
>>> coord_names = [coord.name() for coord in cube.coords()]
>>> print((', '.join(coord_names)))
time, grid_latitude, grid_longitude
>>> ccube = add_time_coord_cats(cube)
>>> coord_names = [coord.name() for coord in ccube.coords()]
>>> print((', '.join(coord_names)))
time, grid_latitude, grid_longitude, day_of_month, day_of_year, month, \
month_number, season, season_number, year
>>> # print every 50th value of the added time cat coords
... for c in coord_names[3:]:
... print(ccube.coord(c).long_name)
... print(ccube.coord(c).points[::50])
...
day_of_month
[ 1 21 11 1 21 11 1 21]
day_of_year
[ 1 51 101 151 201 251 301 351]
month
['Jan' 'Feb' 'Apr' 'Jun' 'Jul' 'Sep' 'Nov' 'Dec']
month_number
[ 1 2 4 6 7 9 11 12]
season
['djf' 'djf' 'mam' 'jja' 'jja' 'son' 'son' 'djf']
season_number
[0 0 1 2 2 3 3 0]
year
[2000 2000 2000 2000 2000 2000 2000 2000]
"""
# most errors pop up when you try to add a coord that has
# previously been added, or the cube doesn't contain the
# necessary attribute.
ccube = cube.copy()
# numeric
try:
iccat.add_day_of_year(ccube, "time")
except AttributeError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
except ValueError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
try:
iccat.add_day_of_month(ccube, "time")
except AttributeError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
except ValueError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
try:
iccat.add_month_number(ccube, "time")
except AttributeError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
except ValueError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
try:
iccat.add_season_number(ccube, "time")
except AttributeError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
except ValueError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
try:
iccat.add_year(ccube, "time")
except AttributeError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
except ValueError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
# strings
try:
iccat.add_month(ccube, "time")
except AttributeError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
except ValueError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
try:
iccat.add_season(ccube, "time")
except AttributeError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
except ValueError as err:
print(("add_time_coord_cats: {}, skipping . . . ".format(err)))
return ccube
def fix_sst_under_ice(dir_in, filename_sice_func_sst_month_pickle, year,
months, year_last_real_data, sst_fixed_year):
fnames_sst = sorted(
glob.glob(os.path.join(dir_in, 'tos*' + year + '0101-*.nc')))
fnames_ice = sorted(
glob.glob(os.path.join(dir_in, 'siconc*' + year + '0101-*.nc')))
fout_year = sst_fixed_year
if os.path.exists(fout_year):
return
year_min = int(os.path.basename(fnames_sst[0]).split('_')[-1][0:4])
NYEARS = len(fnames_sst)
print 'NYEARS ', NYEARS
cube_mon = iris.cube.CubeList()
# read calculated relationship
fh = open(filename_sice_func_sst_month_pickle, 'r')
mean_freq_sice = pickle.load(fh)
fh.close()
mean_freq_sice_daily = sic_functions.interpolate_histogram(
year, mean_freq_sice)
for f_sst, f_ice in zip(fnames_sst, fnames_ice):
year = f_sst.split('_')[-1][0:4]
year1 = f_ice.split('_')[-1][0:4]
iy = int(year) - year_min
print 'process ', f_sst, year, iy
if year != year1:
raise Exception('Paired SST and sea-ice years not same ' + year +
' ' + year1)
sst = iris.load_cube(f_sst)
ice = iris.load_cube(f_ice)
icc.add_month_number(sst, 'time', name='month')
icc.add_month_number(ice, 'time', name='month')
if os.path.exists(fout_year):
continue
files_fixed = []
for im in months:
print 'processing month ', im
month = im + 1
month_no = iris.Constraint(
coord_values={'month': lambda l: l == month})
sst_mon = sst.extract(month_no)
ice_mon = ice.extract(month_no)
print('calc the fixed SST under siconc ')
sst_fixed = fix_sst_based_on_siconc(sst_mon, ice_mon,
mean_freq_sice_daily, im)
fout = fout_year[:-3] + '_' + str(month).zfill(2) + '.nc'
iris.save(sst_fixed, fout, unlimited_dimensions=['time'])
print('saved file ', fout)
files_fixed.append(fout)
cmd = 'ncrcat -O ' + ' '.join(files_fixed) + ' ' + fout_year
print 'cmd ', cmd
os.system(cmd)
for f in files_fixed:
os.remove(f)
def adjust_bias(obs_hist,
sim_hist,
sim_fut,
realize_cubes=False,
anonymous_dimension_name=None,
halfwin_upper_bound_climatology=0,
n_processes=1,
**kwargs):
"""
Adjusts biases grid cell by grid cell.
Parameters
----------
obs_hist : iris cube
Cube of observed climate data representing the historical or training
time period.
sim_hist : iris cube
Cube of simulated climate data representing the historical or training
time period.
sim_fut : iris cube
Cube of simulated climate data representing the future or application
time period.
realize_cubes : boolean, optional
Realize data of obs_hist, sim_hist, and sim_fut before beginning the
bias adjustment grid cell by grid cell.
anonymous_dimension_name : str, optional
Used to name the first anonymous dimension of obs_hist, sim_hist, and
sim_fut.
halfwin_upper_bound_climatology : int, optional
Determines the length of running windows used in the calculations of
climatologies of upper bounds that is used to rescale all values of
obs_hist, sim_hist, and sim_fut to values <= 1 before bias adjustment.
The window length is set to halfwin_upper_bound_climatology * 2 + 1
time steps. If halfwin_upper_bound_climatology == 0 then no rescaling
is done.
n_processes : int, optional
Number of processes used for parallel processing.
Returns
-------
sim_fut_ba : iris cube
Result of bias adjustment.
Other Parameters
----------------
**kwargs : Passed on to adjust_bias_one_location.
"""
# put iris cubes into dictionary
cubes = {'obs_hist': obs_hist, 'sim_hist': sim_hist, 'sim_fut': sim_fut}
space_shape = None
for key, cube in cubes.items():
# get cube shape beyond time axis
if space_shape is None: space_shape = cube.shape[1:]
else:
assert space_shape == cube.shape[1:], 'cube shapes not compatible'
# load iris cube data into memory
if realize_cubes: d = cube.data
# make sure the proleptic gregorian calendar is used in all input files
uf.assert_calendar(cube, 'proleptic_gregorian')
# make sure that time is the leading coordinate
uf.assert_coord_axis(cube, 'time', 0)
# name the first anonymous dimension
uf.name_first_anonymous_dimension(cube, anonymous_dimension_name)
# prepare scaling by upper bound climatology
if halfwin_upper_bound_climatology: icc.add_day_of_year(cube, 'time')
# prepare bias adjustment calendar month by calendar month
icc.add_month_number(cube, 'time')
# prepare detrending and cube concatenation
icc.add_year(cube, 'time')
# adjust every location individually using multiprocessing
print('adjusting at location ...')
abol = partial(
adjust_bias_one_location,
halfwin_upper_bound_climatology=halfwin_upper_bound_climatology,
**kwargs)
pool = mp.Pool(n_processes, maxtasksperchild=1000)
time_series_adjusted = pool.imap(
abol,
zip(obs_hist.slices('time'), sim_hist.slices('time'),
sim_fut.slices('time')))
pool.close()
# replace time series in sim_fut by the adjusted time series
sim_fut_ba = sim_fut
d = sim_fut_ba.data
for i_location, tsa in zip(np.ndindex(space_shape), time_series_adjusted):
d[(slice(None, None), ) + i_location] = tsa
print(i_location)
# remove auxiliary coordinates
sim_fut_ba.remove_coord('year')
sim_fut_ba.remove_coord('month_number')
if halfwin_upper_bound_climatology: sim_fut_ba.remove_coord('day_of_year')
return sim_fut_ba
def make_trend_files_for_models(model, CMIP5_ref):
# read the merged monthly SST for 1950-2100 (datafile)
# extract data between 2012_2016 (sst_cube)
# aggregate this by year (sst_cube_year)
# and aggregate by month (monthly_mean)
# subtract this monthly_mean from each year (yearly_monthly_trend) - should be called delta
# save as allyrs_sst.nc
# read the land sea mask
# mask the yearly_monthly_trend file with this mask
# save as _allyrs_masked_sst.nc
#
global_temp_change = {}
run = CMIP5_ref[model]
print run
runid = run + '/' + model
print runid
datafile = os.path.join(savedir, model + '_monthly_1950_2120_tos.nc')
print datafile
if not os.path.exists(savedir): os.makedirs(savedir)
file_trend = os.path.join(savedir,
model + '_month_annual_1950_2120_delta.nc')
if not os.path.exists(file_trend[:-3] + '_allyrs_masked_sst.nc'):
# Read SST data and calculate annual means
# the callback method only works well is there are full years of 12 months data
print 'start analysis'
cube_tmp = iris.load(datafile,
variable1['tos'],
callback=cmip5_callback)
if len(cube_tmp) == 0:
cube_tmp = iris.load(datafile,
variable2['tos'],
callback=cmip5_callback)
for c in cube_tmp:
print c.coords('time')
print
print cube_tmp
sst_cube_full = cube_tmp.concatenate_cube()
icc.add_year(sst_cube_full, 'time', name='year')
icc.add_month_number(sst_cube_full, 'time', name='month')
# convert to SST if surface temperature
#if sst_cube_full.data[0,...].max() >= 100.: sst_cube_full -= 273.15
# now the surface temperature over sea-ice is below -1.8, so reset it to -1.8
#sst_cube_full.data[sst_cube_full.data < -1.8] = -1.8
print 'sst_cube_full ', sst_cube_full
# extract all years 10 years either side of 2015 (where we want delta to be about zero)
year_centre = 2015
YEARS_between = iris.Constraint(
coord_values={
'year': lambda l: year_centre - 10 <= l <= year_centre + 10
})
sst_cube = sst_cube_full.extract(YEARS_between)
# now decompose this cube into its components: spatial time-mean, spatial linear trend,
# mean seasonal cycle centred around year_centre
monthly_mean = sst_cube.aggregated_by('month', iris.analysis.MEAN)
print monthly_mean
# remove mean seasonal cycle from all months
yearly_monthly_trend = sst_cube_full.copy()
for m in range(0, 12):
inds = np.where(sst_cube_full.coord('month').points == m + 1)[0]
for i in inds:
yearly_monthly_trend.data[i] -= monthly_mean.data[m]
iris.save(yearly_monthly_trend,
file_trend[:-3] + '_allyrs_sst.nc',
fill_value=1.0e20)
# add the model mask
mask_path = form_BADC_path_mask1(runid)
print mask_path
if not os.path.exists(mask_path):
print 'mask path not exist'
mask_path = form_BADC_path_mask2(runid)
mask = iris.load_cube(os.path.join(mask_path, '*.nc'),
'sea_area_fraction')
if 'IPSL' in run:
# need to remove wrap rows from NEMO
remove_nemo_wrap(os.path.join(mask_path, '*.nc'),
os.path.join(savedir, 'ipsl_mask.nc'))
mask = iris.load_cube(os.path.join(savedir, 'ipsl_mask.nc'))
land = np.where(mask.data.mask == True)
mask.data[...] = 1.0
mask.data[land[0], land[1]] = 0.0
print mask
land = np.where(mask.data == 0.0)
mask_land = yearly_monthly_trend[0].copy()
add_mask(mask_land)
add_mask(yearly_monthly_trend)
print mask_land
mask_land.data[...] = 1.0
mask_land.data[land] = 0.0
#mask_land.data[land] = np.ma.masked
mask_land.data.mask[land] = True
yearly_monthly_trend *= mask_land
yearly_monthly_trend.data.mask[:, ...] = mask_land.data.mask[...]
cube_filled = fill_in_masked_data(yearly_monthly_trend)
iris.save(cube_filled,
file_trend[:-3] + '_allyrs_masked_sst.nc',
fill_value=1.0e20)
def time_filter_by_month(infile):
'''
Filter each month individually with a simple rolling window filter
To reduce the interannual variability magnitude, since this is being provided by HadISST2.2
Lanczos filter
Note this removes the first and last n years (1/n filter)
'''
c = iris.load_cube(infile)
icc.add_month_number(c, 'time', name='month')
icc.add_year(c, 'time', name='year')
cube_list_filtered = iris.cube.CubeList()
# window length in years
window = 11
# Construct 5-year low pass filter
wgts5 = low_pass_weights(window, 1. / 7.)
fmonths = {}
for mon in range(1, 13):
fmonths[mon] = []
for mon in range(1, 13):
fout_month = infile[:-3] + '_filtered_' + str(mon).zfill(
2) + '_7_11.nc'
fmonths[mon].append(fout_month)
if not os.path.exists(fout_month):
print 'filter month ', mon
con_mon = iris.Constraint(
coord_values={'month': lambda l: l == mon})
c_mon = c.extract(con_mon)
c5 = c_mon.rolling_window('time',
iris.analysis.SUM,
len(wgts5),
weights=wgts5)
cube_list_filtered.append(c5)
iris.save(c5,
fout_month,
unlimited_dimensions=['time'],
fill_value=1.0e20)
fmonths[mon].append(fout_month)
else:
c5 = iris.load_cube(fout_month)
year_start = int(c5.coord('year').points[0])
year_end = int(c5.coord('year').points[-1])
print 'years ', year_start, year_end
years = range(year_start, year_end + 1)
fout_all_years_filtered = infile[:-3] + '_filtered_' + str(
years[0]) + '-' + str(years[-1]) + '_7_11.nc'
c_all_yr_l = iris.cube.CubeList()
fnames = []
for year in years:
con_yr = iris.Constraint(coord_values={'year': lambda l: l == year})
c_yr_l = iris.cube.CubeList()
fyear = []
for im in range(1, 13):
c = iris.load_cube(fmonths[im])
c.coord('year').bounds = None
c_yr = c.extract(con_yr)
#c_yr.remove_coord('month')
c_yr_l.append(c_yr)
c_this_yr = c_yr_l.merge_cube()
c_this_yr.remove_coord('month')
c_this_yr.remove_coord('year')
c_yr_l.append(c_this_yr)
fout = infile[:-3] + '_filtered_' + str(year) + '_7_11.nc'
fnames.append(fout)
iris.save(c_this_yr,
fout,
unlimited_dimensions=['time'],
fill_value=1.0e20)
cmd = 'ncrcat ' + ' '.join(fnames) + ' ' + fout_all_years_filtered
subprocess.call(cmd, shell=True)
# c_all_yr = c_yr_l.concatenate_cube()
# iris.save(c_all_yr, fout_all_years_filtered, unlimited_dimensions = ['time'], fill_value = 1.0e20)
return fout_all_years_filtered
def mainfunc(run):
"""Main function in stratospheric assessment code."""
metrics = dict()
# Set up to only run for 10 year period (eventually)
year_cons = dict(from_dt=run['from_monthly'], to_dt=run['to_monthly'])
# Read zonal mean U (lbproc=192) and add month number to metadata
ucube = load_run_ss(
run, 'monthly', 'eastward_wind', lbproc=192, **year_cons)
# Although input data is a zonal mean, iris does not recognise it as such
# and just reads it as having a single longitudinal coordinate. This
# removes longitude as a dimension coordinate and makes it a scalar
# coordinate in line with how a zonal mean would be described.
# Is there a better way of doing this?
ucube_cds = [cdt.standard_name for cdt in ucube.coords()]
if 'longitude' in ucube_cds:
ucube = ucube.collapsed('longitude', iris.analysis.MEAN)
if not ucube.coord('latitude').has_bounds():
ucube.coord('latitude').guess_bounds()
# check for month_number
aux_coord_names = [aux_coord.var_name for aux_coord in ucube.aux_coords]
if 'month_number' not in aux_coord_names:
icc.add_month_number(ucube, 'time', name='month_number')
# Read zonal mean T (lbproc=192) and add clim month and season to metadata
tcube = load_run_ss(
run, 'monthly', 'air_temperature', lbproc=192,
**year_cons) # m01s30i204
# Although input data is a zonal mean, iris does not recognise it as such
# and just reads it as having a single longitudinal coordinate. This
# removes longitude as a dimension coordinate and makes it a scalar
# coordinate in line with how a zonal mean would be described.
# Is there a better way of doing this?
tcube_cds = [cdt.standard_name for cdt in tcube.coords()]
if 'longitude' in tcube_cds:
tcube = tcube.collapsed('longitude', iris.analysis.MEAN)
if not tcube.coord('latitude').has_bounds():
tcube.coord('latitude').guess_bounds()
aux_coord_names = [aux_coord.var_name for aux_coord in tcube.aux_coords]
if 'month' not in aux_coord_names:
icc.add_month(tcube, 'time', name='month')
if 'clim_season' not in aux_coord_names:
icc.add_season(tcube, 'time', name='clim_season')
# Read zonal mean q (lbproc=192) and add clim month and season to metadata
qcube = load_run_ss(
run, 'monthly', 'specific_humidity', lbproc=192,
**year_cons) # m01s30i205
# Although input data is a zonal mean, iris does not recognise it as such
# and just reads it as having a single longitudinal coordinate. This
# removes longitude as a dimension coordinate and makes it a scalar
# coordinate in line with how a zonal mean would be described.
# Is there a better way of doing this?
qcube_cds = [cdt.standard_name for cdt in qcube.coords()]
if 'longitude' in qcube_cds:
qcube = qcube.collapsed('longitude', iris.analysis.MEAN)
if not qcube.coord('latitude').has_bounds():
qcube.coord('latitude').guess_bounds()
aux_coord_names = [aux_coord.var_name for aux_coord in qcube.aux_coords]
if 'month' not in aux_coord_names:
icc.add_month(qcube, 'time', name='month')
if 'clim_season' not in aux_coord_names:
icc.add_season(qcube, 'time', name='clim_season')
# Calculate PNJ metrics
pnj_metrics(run, ucube, metrics)
# Calculate QBO metrics
qbo_metrics(run, ucube, metrics)
# Calculate polar temperature metrics
tpole_metrics(run, tcube, metrics)
# Calculate equatorial temperature metrics
teq_metrics(run, tcube, metrics)
# Calculate tropical temperature metrics
t_metrics(run, tcube, metrics)
# Calculate tropical water vapour metric
q_metrics(run, qcube, metrics)
# Summary metric
summary_metric(metrics)
# Make sure all metrics are of type float
# Need at the moment to populate metrics files
for key, value in metrics.items():
metrics[key] = float(value)
return metrics
def calc_sice_func_sst_relationship(dir_in,
filename_sice_func_sst_month_pickle, year):
fnames_sst = sorted(
glob.glob(os.path.join(dir_in, 'tos*' + year + '0101-*.nc')))
fnames_ice = sorted(
glob.glob(os.path.join(dir_in, 'siconc*' + year + '0101-*.nc')))
print 'choose ', fnames_sst
NYEARS = len(fnames_sst)
print 'NYEARS ', NYEARS
cube_mon = iris.cube.CubeList()
mean_freq_sice = np.ma.zeros((BIN['SICE']['NBINS'], 2, 12))
for f_sst, f_ice in zip(fnames_sst, fnames_ice):
year = f_sst.split('_')[-1][0:4]
year1 = f_ice.split('_')[-1][0:4]
print 'process ', f_sst, year
if year != year1:
raise Exception('Paired SST and sea-ice years no same ' + year +
' ' + year1)
sst = iris.load_cube(f_sst)
ice = iris.load_cube(f_ice)
icc.add_month_number(sst, 'time', name='month')
icc.add_month_number(ice, 'time', name='month')
for im in range(0, 12):
print 'processing month ', im
month = im + 1
month_no = iris.Constraint(
coord_values={'month': lambda l: l == month})
sst_mon = sst.extract(month_no)
ice_mon = ice.extract(month_no)
mean_freq_sst_month_year, mean_freq_sice_month_year = sic_functions.sst_ice_relationship(
sst_mon, ice_mon, do_freq_sst=True, do_freq_sic=True)
mean_freq_sice[:, :, im] = mean_freq_sice_month_year
# want to make the relationship monotonic
# temperature decreases as siconc bin increases
for im in range(0, 12):
reset_nh = False
reset_sh = False
for ib, bin in enumerate(BIN['SICE']['XBINS'][:-1]):
if ib > 0 and ib < BIN['SICE']['NBINS'] - 2:
for ir in range(0, 2):
#if (mean_freq_sice[ib, ir, im] > np.amax(mean_freq_sice[ib:ib+5, ir, im])):
if (mean_freq_sice[ib, ir, im] >
(mean_freq_sice[ib - 1, ir, im])):
mean_freq_sice[ib, ir, im] = mean_freq_sice[ib - 1, ir,
im]
im = 0
ir = 0
for ib, bin in enumerate(BIN['SICE']['XBINS'][:-1]):
print 'nh, im, bin, sst ', im, bin, mean_freq_sice[ib, ir, im]
fh = open(filename_sice_func_sst_month_pickle, 'wb')
pickle.dump(mean_freq_sice, fh)
fh.close()
def generate_future_siconc_from_sst(mean_freq_days, year, months, ice_mask,
ice_mask_min, ice_ref):
'''
Use the maximum ice extent, the SST and the pdf relationship between SST and sea-ice to generate a future sea ice concentration
'''
#dir_in = '/group_workspaces/jasmin2/primavera1/WP6/forcing/HadISST2_submit/v1.2/'
if year >= 2016:
#future_sst_file = os.path.join(DATADIR, 'future', 'full_sst_1950_2100_025_daily_fixed.nc')
future_sst_file = os.path.join(
savedir, 'sst', 'future_sst_' + str(year) + '_025_daily_v1.nc')
else:
if len(months) == 12:
future_sst_file = os.path.join(
DATADIR, 'hadisst2_tos_daily_' + str(year) +
'_fixed_day_v1_monthly_under_ice.nc')
elif len(months) == 1:
future_sst_file = os.path.join(
DATADIR, 'hadisst2_tos_daily_' + str(year) + '_fixed_' +
str(months[0] + 1).zfill(2) + '.nc')
else:
raise Exception('Must be either 12 months or 1 ' +
str(len(months)))
future_siconc_file = os.path.join(savedir_ice, 'siconc',
'future_siconc_{}_025_daily_v1.nc')
print 'read sst ', future_sst_file
full_sst = iris.load_cube(future_sst_file)
try:
#icc.add_month_number(full_siconc, 'time', name = 'month')
icc.add_month_number(full_sst, 'time', name='month')
except:
pass
try:
#icc.add_year(full_siconc, 'time', name = 'year')
icc.add_year(full_sst, 'time', name='year')
except:
pass
#print 'full cube ',full_siconc.coord('year')
new_sice_year = iris.cube.CubeList()
print 'YEAR ', year
fout_year = future_siconc_file.format(str(year))
new_sice_month = iris.cube.CubeList()
year_con = iris.Constraint(coord_values={'year': lambda l: l == int(year)})
sst_this_year = full_sst.extract(year_con)
full_siconc = sst_this_year.copy()
print 'cube year ', sst_this_year
lat_shape = sst_this_year.shape[1]
for im in months:
if im > 0 and im < 11:
mm1 = im - 1
mp1 = im + 1
elif im == 0:
mm1 = 11
mp1 = im + 1
elif im == 11:
mm1 = im - 1
mp1 = 0
month = im + 1
month_con = iris.Constraint(
coord_values={'month': lambda l: l == int(month)})
sst_this_month = sst_this_year.extract(month_con)
if im == 0:
month_con_m1 = iris.Constraint(
coord_values={'month': lambda l: l == 1})
else:
month_con_m1 = iris.Constraint(
coord_values={'month': lambda l: l == int(month - 1)})
sst_last_month = sst_this_year.extract(month_con_m1)
if im == 11:
month_con_p1 = iris.Constraint(
coord_values={'month': lambda l: l == 11})
else:
month_con_p1 = iris.Constraint(
coord_values={'month': lambda l: l == int(month + 1)})
sst_next_month = sst_this_year.extract(month_con_p1)
siconc_template = full_siconc.extract(month_con)
coord_names = [coord.name() for coord in siconc_template.coords()]
print coord_names
if 'day_of_year' not in coord_names:
icc.add_day_of_year(siconc_template, 'time', name='day_of_year')
siconc_template.data[...] = 0.0
ndays = sst_this_month.shape[0]
day_of_year = siconc_template.coord('day_of_year').points
for day in range(ndays):
day_number = day_of_year[day] - 1
print 'process ', day, month, year, day_number
for ib, bin in enumerate(BIN['SST']['XBINS'][:-1]):
sst_range = np.where((bin < sst_this_month.data[day, :, :]) & (
bin + 1 >= sst_this_month.data[day, :, :])
& (ice_mask.data[im, :, :] == 1))
nhemi = np.where(sst_range[0] > lat_shape / 2)
shemi = np.where(sst_range[0] < lat_shape / 2)
siconc_template.data[
day, sst_range[0][nhemi],
sst_range[1][nhemi]] = mean_freq_days[year][ib, 0,
day_number]
siconc_template.data[
day, sst_range[0][shemi],
sst_range[1][shemi]] = mean_freq_days[year][ib, 1,
day_number]
print 'completed ', day, month, year
siconc_template.data.mask[:, sst_this_month[0].data.mask] = True
siconc_template.data.mask[:, ice_ref.data.mask] = True
new_sice_month.append(siconc_template)
new_sice_cube = new_sice_month.concatenate_cube()
add_metadata(new_sice_cube)
print 'write to ', fout_year
iris.save(new_sice_cube,
fout_year,
unlimited_dimensions=['time'],
fill_value=1.0e20)
return fout_year
def calc_sst_func_sice_relationship(dir_in,
filename_sst_func_siconc_month_pickle,
year):
print 'choose ', fnames_sst
NYEARS = len(fnames_sst)
print 'NYEARS ', NYEARS
cube_mon = iris.cube.CubeList()
mean_freq_sst = np.ma.zeros((BIN['SST']['NBINS'], 2, 12))
for f_sst, f_ice in zip(fnames_sst, fnames_ice):
print 'process ', f_sst, year
sst = iris.load_cube(f_sst)
ice = iris.load_cube(f_ice)
sst_coords = [co.name() for co in sst.aux_coords]
ice_coords = [co.name() for co in ice.aux_coords]
if not 'month' in sst_coords:
icc.add_month_number(sst, 'time', name='month')
if not 'month' in ice_coords:
icc.add_month_number(ice, 'time', name='month')
for im in range(0, 12):
print 'processing month ', im
month = im + 1
month_no = iris.Constraint(
coord_values={'month': lambda l: l == month})
sst_mon = sst.extract(month_no)
ice_mon = ice.extract(month_no)
mean_freq_sst_month_year, mean_freq_sice_month_year = sic_functions.sst_ice_relationship(
sst_mon, ice_mon, do_freq_sst=True, do_freq_sic=True)
mean_freq_sst[:, :, im] = mean_freq_sst_month_year
ir = 1
for ib, bin in enumerate(BIN['SST']['XBINS'][:-1]):
print 'nh, im, ir, bin, siconc ', im, ir, bin, mean_freq_sst[
ib, ir, im]
# want to make the relationship monotonic
for im in range(0, 12):
reset_nh = False
reset_sh = False
for ib, bin in enumerate(BIN['SST']['XBINS'][:-1]):
if ib > 0 and ib < BIN['SST']['NBINS'] - 2:
for ir in range(0, 2):
if (mean_freq_sst[ib, ir, im] < np.amax(
mean_freq_sst[ib:ib + 5, ir, im])):
mean_freq_sst[ib, ir, im] = mean_freq_sst[ib - 1, ir,
im]
elif (mean_freq_sst[ib, ir, im] > mean_freq_sst[ib - 1, ir,
im]):
mean_freq_sst[ib, ir, im] = mean_freq_sst[ib - 1, ir,
im]
# once the siconc for a given sst hits zero, make sure all the rest are zero
if mean_freq_sst[ib, 0, im] == 0:
reset_nh = True
if reset_nh:
mean_freq_sst[ib:, 0, im] = 0.0
if mean_freq_sst[ib, 1, im] == 0:
reset_sh = True
if reset_sh:
mean_freq_sst[ib:, 1, im] = 0.0
# try making the NH concentration less than 15% equal to zero (to remove wide edge in summer)
min_ice_conc = 20.0
for im in range(0, 12):
for ib, bin in enumerate(BIN['SST']['XBINS'][:-1]):
if ib > 0 and ib < BIN['SST']['NBINS'] - 2:
for ir in range(0, 1):
if (mean_freq_sst[ib, ir, im] < min_ice_conc):
mean_freq_sst[ib + 4:, ir, im] = 0.0
im = 0
ir = 1
for ib, bin in enumerate(BIN['SST']['XBINS'][:-1]):
print 'nh, im, bin, siconc ', im, bin, mean_freq_sst[ib, ir, im]
fh = open(filename_sst_func_siconc_month_pickle, 'wb')
pickle.dump(mean_freq_sst, fh)
fh.close()
def calc_sst_func_sice_relationship(dir_in, model,
filename_sst_func_siconc_month_pickle,
years):
ftype = 'tos'
sst_fixed = os.path.join(DATADIR, model + '_monthly_1950_2100_tos.nc')
fnames_sst = os.path.join(dir_in, model + '_monthly_1950_2100_tos.nc')
fnames_ice = os.path.join(dir_in, model + '_monthly_1950_2100_sic.nc')
print 'choose ', fnames_sst
cube_mon = iris.cube.CubeList()
mean_freq_sst = np.ma.zeros((BIN['SST']['NBINS'], 2, 12))
print 'process ', fnames_sst, fnames_ice
sst1 = iris.load_cube(fnames_sst)
sst1.convert_units('degC')
ice1 = iris.load_cube(fnames_ice)
sst_coords = [co.name() for co in sst1.aux_coords]
ice_coords = [co.name() for co in ice1.aux_coords]
if not 'year' in sst_coords:
icc.add_year(sst1, 'time', name='year')
if not 'year' in ice_coords:
icc.add_year(ice1, 'time', name='year')
years_con = iris.Constraint(
coord_values={'year': lambda l: years[0] <= l <= years[-1]})
sst = sst1.extract(years_con)
ice = ice1.extract(years_con)
if not 'month' in sst_coords:
icc.add_month_number(sst, 'time', name='month')
if not 'month' in ice_coords:
icc.add_month_number(ice, 'time', name='month')
for im in range(0, 12):
print 'processing month ', im
month = im + 1
month_no = iris.Constraint(
coord_values={'month': lambda l: l == month})
sst_mon = sst.extract(month_no)
ice_mon = ice.extract(month_no)
mean_freq_sst_month_year = sic_functions.sst_ice_relationship(
sst_mon, ice_mon, do_freq_sst=True)
mean_freq_sst[:, :, im] = mean_freq_sst_month_year
mean_freq_sst[0, :, im] = 100.0
ir = 0
for ib, bin in enumerate(BIN['SST']['XBINS'][:-1]):
print 'nh, im, ir, bin, siconc ', im, ir, bin, mean_freq_sst[ib,
ir,
im]
do_mono = True
if do_mono:
# want to make the relationship monotonic
for im in range(0, 12):
reset_nh = False
reset_sh = False
for ir in range(0, 2):
for ib, bin in enumerate(BIN['SST']['XBINS'][:-1]):
if ib > 0 and ib < BIN['SST']['NBINS'] - 2:
current_val = mean_freq_sst[ib, ir, im]
max_rest = np.amax(mean_freq_sst[ib + 1:, ir, im])
if max_rest > current_val:
mean_freq_sst[ib, ir, im] = max_rest
# once the siconc for a given sst hits zero, make sure all the rest are zero
if mean_freq_sst[ib, 0, im] == 0:
reset_nh = True
if reset_nh:
mean_freq_sst[ib:, 0, im] = 0.0
if mean_freq_sst[ib, 1, im] == 0:
reset_sh = True
if reset_sh:
mean_freq_sst[ib:, 1, im] = 0.0
# try making the NH concentration less than 15% equal to zero (to remove wide edge in summer)
# min_ice_conc = 20.0
# for im in range(0,12):
# for ib, bin in enumerate(BIN['SST']['XBINS'][:-1]):
# if ib > 0 and ib < BIN['SST']['NBINS']-2:
# for ir in range(0,1):
# if (mean_freq_sst[ib, ir, im] < min_ice_conc):
# mean_freq_sst[ib+4:, ir, im] = 0.0
im = 4
ir = 0
for ib, bin in enumerate(BIN['SST']['XBINS'][:-1]):
print 'after mono, nh, im, bin, siconc ', im, bin, mean_freq_sst[ib,
ir,
im]
fh = open(filename_sst_func_siconc_month_pickle, 'wb')
pickle.dump(mean_freq_sst, fh)
fh.close()
if unit.name[:4] == 'hour':
thirty_mins = 0.5
elif unit.name[:6] == 'second':
thirty_mins = 60 * 30
elif unit.name[:3] == 'day':
thirty_mins = 0.5 / 24
else:
raise ValueError(f"Don't know how to deal with: '{unit.name}'")
print('Subtracting half an hour from time coord first')
new_points = cube.coord('time').points - thirty_mins
cube.coord('time').points = new_points
iccat.add_year(cube, 'time')
if freq == 'mon':
iccat.add_month_number(cube, 'time')
agg_by = ['month_number', 'year']
remove_later = 'month_number'
elif freq == 'day':
iccat.add_day_of_year(cube, 'time')
agg_by = ['day_of_year', 'year']
remove_later = 'day_of_year'
else:
raise ValueError('Unrecognised frequency')
# compute averages
print(f'Computing {freq} average')
means = cube.aggregated_by(agg_by, iris.analysis.MEAN)
# remove no longer needed aux coords
means.remove_coord(remove_later)
def ice_maximum_extent(years):
'''
Generate a 0/1 mask for any point which has ice concentration > 0 over time period
Use this to mask future ice (make sure that you don't have ice where it never was before)
'''
dir_in = '/group_workspaces/jasmin2/primavera1/WP6/forcing/HadISST2_submit/v1.2/'
year = 2015
ice_hist_file = os.path.join(
dir_in,
'siconc_input4MIPs_SSTsAndSeaIce_HighResMIP_MOHC-HadISST-2-2-0-0-0_gn_'
+ str(year) + '0101-' + str(year) + '1231.nc')
ice_ref = iris.load_cube(ice_hist_file)[0]
ice_extent_filename = dir_in + 'ice_max_month_' + str(
years[0]) + '-' + str(years[-1]) + '.nc'
ice_extent_min_filename = dir_in + 'ice_min_month_' + str(
years[0]) + '-' + str(years[-1]) + '.nc'
if os.path.exists(ice_extent_filename) and os.path.exists(
ice_extent_min_filename):
ice_max_month = iris.load_cube(ice_extent_filename)
ice_min_month = iris.load_cube(ice_extent_min_filename)
return ice_max_month, ice_min_month, ice_ref
ice_hist_l = iris.cube.CubeList()
for year in years:
ice_hist_file = os.path.join(
dir_in,
'siconc_input4MIPs_SSTsAndSeaIce_HighResMIP_MOHC-HadISST-2-2-0-0-0_gn_'
+ str(year) + '0101-' + str(year) + '1231.nc')
ice = iris.load_cube(ice_hist_file, callback=history_period_callback)
try:
icc.add_month_number(ice, 'time', name='month')
except:
pass
ice_hist_l.append(ice)
ice_hist = ice_hist_l.concatenate_cube()
cube_mask = ice_hist[:12].copy()
cube_mask_min = ice_hist[:12].copy()
for im in range(0, 12):
mon = im + 1
print 'process month ', mon
month_constraint = iris.Constraint(month=mon)
# calculate maximum ice conc over time period
ice = ice_hist.extract(month_constraint)
ice_max = ice.collapsed('time', iris.analysis.MAX)
ice_max.remove_coord('month')
ice_max.coord('time').bounds = None
# calculate minimum ice conc over time period
ice_min = ice.collapsed('time', iris.analysis.MIN)
ice_min.remove_coord('month')
ice_min.coord('time').bounds = None
# calculate mask of 1 if any point ever has some ice
cube_mask.data[im, :, :] = 0.0
some_ice = np.where((ice_max.data > 1.0) & (ice_max.data <= 100.0))
cube_mask.data[im, some_ice[0], some_ice[1]] = 1.0
print 'cube_mask ', cube_mask[im].coord('time')
# calculate mask of 1 if any point always has some ice
cube_mask_min.data[im, :, :] = 0.0
some_ice = np.where((ice_min.data > 80.0) & (ice_min.data <= 100.0))
cube_mask_min.data[im, some_ice[0], some_ice[1]] = 1.0
print 'cube_mask ', cube_mask_min[im].coord('time')
iris.save(cube_mask, ice_extent_filename)
iris.save(cube_mask_min, ice_extent_min_filename)
return cube_mask, cube_mask_min, ice_ref
def smooth_sst_under_ice(sst_daily, ice_daily, ice_mask, fsst_yrm1, fsst_yrp1):
'''
Under ice, the SST can be very discontinuous, this coming from the original data
Use monthly means and interpolate to create an alternative daily dataset of tos under ice (at some point in the year)
'''
sst_monmn = sst_daily.aggregated_by('month', iris.analysis.MEAN)
cube_var_l = iris.cube.CubeList()
for m in range(0, 12):
if m > 0 and m < 11:
mm1 = m - 1
mp1 = m + 1
elif m == 0:
con_mon = iris.Constraint(
coord_values={'month': lambda l: l == 12})
sstm1_yr = iris.load_cube(fsst_yrm1)
try:
icc.add_month_number(sstm1_yr, 'time', name='month')
except:
pass
sstm1_mon = sstm1_yr.extract(con_mon)
sstm1_monmn = sstm1_mon.collapsed('time', iris.analysis.MEAN)
mm1 = 11
mp1 = m + 1
elif m == 11:
mm1 = m - 1
con_mon = iris.Constraint(coord_values={'month': lambda l: l == 1})
sstp1_yr = iris.load_cube(fsst_yrp1)
try:
icc.add_month_number(sstp1_yr, 'time', name='month')
except:
pass
sstp1_mon = sstp1_yr.extract(con_mon)
sstp1_monmn = sstp1_mon.collapsed('time', iris.analysis.MEAN)
mp1 = 0
con_mon = iris.Constraint(coord_values={'month': lambda l: l == m + 1})
cube_mon = sst_daily.extract(con_mon) # daily data
#cube_ice_mon = cube_ice.extract(con_yr & con_mon) # daily data
cube_var_mon = cube_mon.copy()
ndays = cube_mon.shape[0]
# check units
#print 'units ',monthly_mean.units, cube_mon.units
#if cube_mon.units != monthly_mean.units:
# monthly_mean.units = cube_mon.units
for iday in range(0, ndays):
weight = float(iday) / float(ndays - 1)
w1 = (1.0 - weight) * 0.5
w2 = 0.5
w3 = weight * 0.5
ice_points = np.where(ice_mask.data == 1.0)
if m > 0 and m < 11:
mon_day = w1 * sst_monmn.data[mm1, :, :] + w2 * sst_monmn.data[
m, :, :] + w3 * sst_monmn.data[mp1, :, :]
elif m == 0:
mon_day = w1 * sstm1_monmn.data[:, :] + w2 * sst_monmn.data[
m, :, :] + w3 * sst_monmn.data[mp1, :, :]
elif m == 11:
mon_day = w1 * sst_monmn.data[mm1, :, :] + w2 * sst_monmn.data[
m, :, :] + w3 * sstp1_monmn.data[:, :]
cube_var_mon.data[iday, ice_points[0],
ice_points[1]] = mon_day[ice_points[0],
ice_points[1]]
cube_var_l.append(cube_var_mon)
cube_var = cube_var_l.concatenate_cube()
return cube_var
def downscale(obs_fine,
sim_coarse,
realize_cubes=False,
anonymous_dimension_name=None,
n_processes=1,
n_iterations=20,
randomization_seed=None,
**kwargs):
"""
Applies the modified MBCn algorithm for statistical downscaling calendar
month by calendar month and coarse grid cell by coarse grid cell.
Parameters
----------
obs_fine : iris cube
Cube of observed climate data at fine spatial resolution.
sim_coarse : iris cube
Cube of simulated climate data coarse spatial resolution.
realize_cubes : boolean, optional
Realize data of obs_fine and sim_coarse before beginning the statistical
downscaling coarse grid cell by coarse grid cell.
anonymous_dimension_name : str, optional
Used to name the first anonymous dimension of obs_fine and sim_coarse.
n_processes : int, optional
Number of processes used for parallel processing.
n_iterations : int, optional
Number of iterations used in the modified MBCn algorithm.
randomization_seed : int, optional
Used to seed the random number generator before generating random
rotation matrices for the modified MBCn algorithm.
Returns
-------
sim_fine : iris cube
Result of application of the modified MBCn algorithm.
Other Parameters
----------------
**kwargs : Passed on to downscale_one_location.
"""
# put iris cubes into dictionary
cubes = {
'obs_fine': obs_fine,
'sim_coarse': sim_coarse,
}
space_shapes = {}
for key, cube in cubes.items():
# get cube shape beyond time axis
space_shapes[key] = cube.shape[1:]
# load iris cube data into memory
if realize_cubes: d = cube.data
# make sure the proleptic gregorian calendar is used in all input files
uf.assert_calendar(cube, 'proleptic_gregorian')
# make sure that time is the leading coordinate
uf.assert_coord_axis(cube, 'time', 0)
# name the first anonymous dimension
uf.name_first_anonymous_dimension(cube, anonymous_dimension_name)
# prepare statistical downscaling calendar month by calendar month
icc.add_month_number(cube, 'time')
# derive downscaling factor from cube shapes beyond time axis
downscaling_factor = uf.get_downscaling_factor(space_shapes['obs_fine'],
space_shapes['sim_coarse'])
# get list of rotation matrices to be used for all locations and months
n_fine_per_coarse = downscaling_factor**len(space_shapes['obs_fine'])
if randomization_seed is not None: np.random.seed(randomization_seed)
rotation_matrices = [
uf.generateCREmatrix(n_fine_per_coarse) for i in range(n_iterations)
]
# bilinearly interpolate sim_coarse to grid of obs_fine
print('interpolating to fine grid ...')
sim_coarse_remapbil = sim_coarse.regrid(obs_fine, iris.analysis.Linear())
icc.add_year(sim_coarse_remapbil, 'time')
years = list(np.unique(sim_coarse_remapbil.coord('year').points))
# downscale every location individually using multiprocessing
print('downscaling at coarse location ...')
sdol = partial(downscale_one_location,
years=years,
rotation_matrices=rotation_matrices,
randomization_seed=randomization_seed,
**kwargs)
pool = mp.Pool(n_processes, maxtasksperchild=1000)
time_series_downscaled = pool.imap(
sdol,
zip(
uf.StepSliceIterator(obs_fine, [0], downscaling_factor),
sim_coarse.slices('time'),
uf.StepSliceIterator(sim_coarse_remapbil, [0], downscaling_factor),
))
pool.close()
# replace time series in sim_coarse_remapbil by the downscaled time series
sim_fine = sim_coarse_remapbil
d = sim_fine.data
i_locations_coarse = np.ndindex(space_shapes['sim_coarse'])
for ilc, tsd in zip(i_locations_coarse, time_series_downscaled):
ilf = tuple([
slice(downscaling_factor * i, downscaling_factor * (i + 1))
for i in ilc
])
d[(slice(None, None), ) + ilf] = tsd
print(ilc)
# remove auxiliary coordinates
sim_fine.remove_coord('year')
sim_fine.remove_coord('month_number')
return sim_fine