def stitch_yearly_files(ds_list):
"""input is multiple field yearly dataset list and output is the same
but with stitched discontinuieties"""
fields = [x for x in ds_list[0].data_vars]
for i, dss in enumerate(ds_list):
if i == len(ds_list) - 1:
break
first_year = int(ds_list[i].time.dt.year.median().item())
second_year = int(ds_list[i + 1].time.dt.year.median().item())
first_ds = ds_list[i].sel(time=slice(
'{}-12-31T18:00'.format(first_year), str(second_year)))
second_ds = ds_list[i + 1].sel(time=slice(
str(first_year), '{}-01-01T06:00'.format(second_year)))
if dim_intersection([first_ds, second_ds], 'time') is None:
logger.warning('skipping stitching years {} and {}...'.format(
first_year, second_year))
continue
else:
logger.info('stitching years {} and {}'.format(
first_year, second_year))
time = xr.concat([first_ds.time, second_ds.time], 'time')
time = pd.to_datetime(get_unique_index(time).values)
st_list = []
for field in fields:
df = first_ds[field].to_dataframe()
df.columns = ['first']
df = df.reindex(time)
df['second'] = second_ds[field].to_dataframe()
if field in ['X', 'Y', 'Z']:
method = 'simple_mean'
elif field in ['GradNorth', 'GradEast', 'WetZ']:
method = 'smooth_mean'
elif 'error' in field:
method = 'error_mean'
dfs = stitch_two_cols(df, method=method)['stitched_signal']
dfs.index.name = 'time'
st = dfs.to_xarray()
st.name = field
st_list.append(st)
# merge to all fields:
st_ds = xr.merge(st_list)
# replace stitched values to first ds and second ds:
first_time = dim_intersection([ds_list[i], st_ds])
vals_rpl = st_ds.sel(time=first_time)
for field in ds_list[i].data_vars:
ds_list[i][field].loc[{'time': first_time}] = vals_rpl[field]
second_time = dim_intersection([ds_list[i + 1], st_ds])
vals_rpl = st_ds.sel(time=second_time)
for field in ds_list[i + 1].data_vars:
ds_list[i + 1][field].loc[{
'time': second_time
}] = vals_rpl[field]
return ds_list
def align_synoptic_class_with_pw(path):
import xarray as xr
from aux_gps import dim_intersection
from aux_gps import save_ncfile
from aux_gps import xr_reindex_with_date_range
pw = xr.load_dataset(path / 'GNSS_PW_thresh_50_homogenized.nc')
pw = pw[[x for x in pw if '_error' not in x]]
syn = read_synoptic_classification(report=False).to_xarray()
# syn = syn.drop(['Name-EN', 'Name-HE'])
syn = syn['class']
syn = syn.sel(time=slice('1996', None))
syn = syn.resample(time='5T').ffill()
ds_list = []
for sta in pw:
print('aligning station {} with synoptics'.format(sta))
new_time = dim_intersection([pw[sta], syn])
syn_da = xr.DataArray(syn.sel(time=new_time))
syn_da.name = '{}_class'.format(sta)
syn_da = xr_reindex_with_date_range(syn_da)
ds_list.append(syn_da)
ds = xr.merge(ds_list)
ds = ds.astype('int8')
ds = ds.fillna(0)
filename = 'GNSS_synoptic_class.nc'
save_ncfile(ds, path, filename)
return ds
def pw_mlh_to_df(pw_new, mlh_site):
newtime = dim_intersection([pw_new, mlh_site])
MLH = mlh_site.sel(time=newtime)
PW = pw_new.sel(time=newtime)
df = PW.to_dataframe()
df[MLH.name] = MLH.to_dataframe()
new_time = pd.date_range(df.index.min(), df.index.max(), freq='1H')
df = df.reindex(new_time)
df.index.name = 'time'
return df
def read_BD_matfile(path=ceil_path, plot=True, month=None, add_syn=True):
from scipy.io import loadmat
import pandas as pd
from aux_gps import xr_reindex_with_date_range
import matplotlib.pyplot as plt
from aux_gps import dim_intersection
from synoptic_procedures import read_synoptic_classification
file = path / 'PBL_BD_LST.mat'
mat = loadmat(file)
mdata = mat['pblBD4shlomi']
# mdata = mat['PBL_BD_LST']
dates = mdata[:, :3]
pbl = mdata[:, 3:]
dates = dates.astype(str)
dts = [pd.to_datetime(x[0] + '-' + x[1] + '-' + x[2]) for x in dates]
dfs = []
for i, dt in enumerate(dts):
time = dt + pd.Timedelta(0.5, unit='H')
times = pd.date_range(time, periods=48, freq='30T')
df = pd.DataFrame(pbl[i], index=times)
dfs.append(df)
df = pd.concat(dfs)
df.columns = ['MLH']
df.index.name = 'time'
# switch to UTC:
df.index = df.index - pd.Timedelta(2, unit='H')
da = df.to_xarray()['MLH']
da.name = 'BD'
da.attrs['full_name'] = 'Mixing Layer Height'
da.attrs['name'] = 'MLH'
da.attrs['units'] = 'm'
da.attrs['station_full_name'] = 'Beit Dagan'
da.attrs['lon'] = 34.81
da.attrs['lat'] = 32.00
da.attrs['alt'] = 34
da = xr_reindex_with_date_range(da, freq='30T')
# add synoptic data:
syn = read_synoptic_classification().to_xarray()
syn = syn.sel(time=slice('2015', '2016'))
syn = syn.resample(time='30T').ffill()
new_time = dim_intersection([da, syn])
syn_da = syn.sel(time=new_time)
syn_da = xr_reindex_with_date_range(syn_da, freq='30T')
if plot:
bd2015 = da.sel(time='2015').to_dataframe()
bd2016 = da.sel(time='2016').to_dataframe()
fig, axes = plt.subplots(2,
1,
sharey=True,
sharex=False,
figsize=(15, 10))
if add_syn:
cmap = plt.get_cmap("tab10")
syn_df = syn_da.to_dataframe()
bd2015['synoptics'] = syn_df.loc['2015', 'class_abbr']
groups = []
for i, (index, group) in enumerate(bd2015.groupby('synoptics')):
groups.append(index)
d = xr_reindex_with_date_range(group['BD'].to_xarray(),
freq='30T')
d.to_dataframe().plot(x_compat=True,
ms=10,
color=cmap(i),
ax=axes[0],
xlim=['2015-06', '2015-10'])
axes[0].legend(groups)
bd2016['synoptics'] = syn_df.loc['2016', 'class_abbr']
groups = []
for i, (index, group) in enumerate(bd2016.groupby('synoptics')):
groups.append(index)
d = xr_reindex_with_date_range(group['BD'].to_xarray(),
freq='30T')
d.to_dataframe().plot(x_compat=True,
ms=10,
color=cmap(i),
ax=axes[1],
xlim=['2016-06', '2016-10'])
axes[1].legend(groups)
else:
bd2015.plot(ax=axes[0], xlim=['2015-06', '2015-10'])
bd2016.plot(ax=axes[1], xlim=['2016-06', '2016-10'])
for ax in axes.flatten():
ax.set_ylabel('MLH [m]')
ax.set_xlabel('UTC')
ax.grid()
fig.tight_layout()
fig.suptitle('MLH from Beit-Dagan ceilometer for 2015 and 2016')
filename = 'MLH-BD_syn.png'
plt.savefig(savefig_path / filename, orientation='portrait')
if add_syn:
ds = da.to_dataset(name='BD')
ds['syn'] = syn_da['class_abbr']
return ds
else:
return da
def align_pw_mlh(path=work_yuval,
ceil_path=ceil_path,
site='tela',
interpolate=None,
plot=True,
dt_range_str='2015'):
import xarray as xr
from aux_gps import dim_intersection
from aux_gps import xr_reindex_with_date_range
import pandas as pd
import matplotlib.pyplot as plt
def pw_mlh_to_df(pw_new, mlh_site):
newtime = dim_intersection([pw_new, mlh_site])
MLH = mlh_site.sel(time=newtime)
PW = pw_new.sel(time=newtime)
df = PW.to_dataframe()
df[MLH.name] = MLH.to_dataframe()
new_time = pd.date_range(df.index.min(), df.index.max(), freq='1H')
df = df.reindex(new_time)
df.index.name = 'time'
return df
mlh = xr.load_dataset(ceil_path / 'MLH_from_ceilometers.nc')
mlh_site = xr_reindex_with_date_range(mlh[pw_mlh_dict.get(site)],
freq='1H')
if interpolate is not None:
print('interpolating ceil-site {} with max-gap of {}.'.format(
pw_mlh_dict.get(site), interpolate))
attrs = mlh_site.attrs
mlh_site_inter = mlh_site.interpolate_na('time',
max_gap=interpolate,
method='cubic')
mlh_site_inter.attrs = attrs
pw = xr.open_dataset(work_yuval / 'GNSS_PW_thresh_50_homogenized.nc')
pw = pw[['tela', 'klhv', 'jslm', 'nzrt', 'yrcm']]
pw.load()
pw_new = pw[site]
if interpolate is not None:
newtime = dim_intersection([pw_new, mlh_site_inter])
else:
newtime = dim_intersection([pw_new, mlh_site])
pw_new = pw_new.sel(time=newtime)
pw_new = xr_reindex_with_date_range(pw_new, freq='1H')
if interpolate is not None:
print('interpolating pw-site {} with max-gap of {}.'.format(
site, interpolate))
attrs = pw_new.attrs
pw_new_inter = pw_new.interpolate_na('time',
max_gap=interpolate,
method='cubic')
pw_new_inter.attrs = attrs
df = pw_mlh_to_df(pw_new, mlh_site)
if interpolate is not None:
df_inter = pw_mlh_to_df(pw_new_inter, mlh_site_inter)
if dt_range_str is not None:
df = df.loc[dt_range_str, :]
if plot:
fig, ax = plt.subplots(figsize=(18, 5))
if interpolate is not None:
df_inter[pw_new.name].plot(style='b--', ax=ax)
# same ax as above since it's automatically added on the right
df_inter[mlh_site.name].plot(style='r--', secondary_y=True, ax=ax)
ax = df[pw_new.name].plot(style='b-', marker='o', ax=ax, ms=5)
# same ax as above since it's automatically added on the right
ax_twin = df[mlh_site.name].plot(style='r-',
marker='s',
secondary_y=True,
ax=ax,
ms=5)
if interpolate is not None:
ax.legend(*[ax.get_lines() + ax.right_ax.get_lines()], [
'PWV {} max interpolation'.format(interpolate), 'PWV',
'MLH {} max interpolation'.format(interpolate), 'MLH'
],
loc='best')
else:
ax.legend([ax.get_lines()[0],
ax.right_ax.get_lines()[0]], ['PWV', 'MLH'],
loc='upper center')
ax.set_title('MLH {} site and PWV {} site'.format(
pw_mlh_dict.get(site), site))
ax.set_xlim(df.dropna().index.min(), df.dropna().index.max())
ax.set_ylabel('PWV [mm]', color='b')
ax_twin.set_ylabel('MLH [m]', color='r')
ax.tick_params(axis='y', colors='b')
ax_twin.tick_params(axis='y', colors='r')
ax.grid(True, which='both', axis='x')
fig.tight_layout()
if interpolate is not None:
filename = '{}-{}_{}_time_series_{}_max_gap_interpolation.png'.format(
site, pw_mlh_dict.get(site), dt_range_str, interpolate)
else:
filename = '{}-{}_{}_time_series.png'.format(
site, pw_mlh_dict.get(site), dt_range_str)
plt.savefig(savefig_path / filename, orientation='portrait')
if interpolate is not None:
ds = df_inter.to_xarray()
ds[pw_new.name].attrs.update(pw_new.attrs)
ds[mlh_site.name].attrs.update(mlh_site.attrs)
return ds
else:
ds = df.to_xarray()
ds[pw_new.name].attrs.update(pw_new.attrs)
ds[mlh_site.name].attrs.update(mlh_site.attrs)
return ds
def twin_hourly_mean_plot(pw,
mlh,
month=8,
ax=None,
title=True,
leg_loc='best',
unit='pts',
sample_rate=24,
fontsize=14):
from aux_gps import dim_intersection
import matplotlib.pyplot as plt
from calendar import month_abbr
# from PW_stations import produce_geo_gnss_solved_stations
# df = produce_geo_gnss_solved_stations(plot=False)
# first run multi-year month mean:
if month is not None:
pw = pw.sel(time=pw['time.month'] == month).dropna('time')
mlh = mlh.sel(time=mlh['time.month'] == month).dropna('time')
else:
newtime = dim_intersection([pw, mlh], 'time')
pw = pw.sel(time=newtime)
mlh = mlh.sel(time=newtime)
pw_hour = pw.groupby('time.hour').mean()
pw_std = pw.groupby('time.hour').std()
pw_hour_plus = (pw_hour + pw_std).values
pw_hour_minus = (pw_hour - pw_std).values
mlh_hour = mlh.groupby('time.hour').mean()
mlh_std = mlh.groupby('time.hour').std()
mlh_hour_minus = (mlh_hour - mlh_std).values
mlh_hour_plus = (mlh_hour + mlh_std).values
mlhyears = [mlh.time.dt.year.min().item(), mlh.time.dt.year.max().item()]
pwyears = [pw.time.dt.year.min().item(), pw.time.dt.year.max().item()]
mlh_month = mlh.time.dt.month.to_dataframe()['month'].value_counts(
).index[0]
if unit == 'pts':
pw_pts = pw.dropna('time').size
mlh_pts = mlh.dropna('time').size
elif unit == 'days':
pw_pts = int(pw.dropna('time').size / sample_rate)
mlh_pts = int(mlh.dropna('time').size / sample_rate)
if ax is None:
fig, ax = plt.subplots(figsize=(10, 8))
red = 'tab:red'
blue = 'tab:blue'
pwln = pw_hour.plot(color=blue, marker='s', ax=ax)
# ax.errorbar(pw_hour.hour.values, pw_hour.values, pw_std.values,
# label='PW', color=blue, capsize=5, elinewidth=2,
# markeredgewidth=2)
ax.fill_between(pw_hour.hour.values,
pw_hour_minus,
pw_hour_plus,
color=blue,
alpha=0.5)
twin = ax.twinx()
# twin.errorbar(mlh_hour.hour.values, mlh_hour.values, mlh_std.values,
# color=red, label='MLH', capsize=5, elinewidth=2,
# markeredgewidth=2)
mlhln = mlh_hour.plot(color=red, marker='o', ax=twin)
twin.fill_between(mlh_hour.hour.values,
mlh_hour_minus,
mlh_hour_plus,
color=red,
alpha=0.5)
# handles, labels = ax.get_legend_handles_labels()
# handles = [h[0] for h in handles]
# handles1, labels1 = twin.get_legend_handles_labels()
# handles1 = [h[0] for h in handles1]
# hand = handles + handles1
# labs = labels + labels1
if month is None:
pw_label = 'PWV: {}-{} ({} {})'.format(pwyears[0], pwyears[1], pw_pts,
unit)
mlh_label = 'MLH: {}-{} ({} {})'.format(mlhyears[0], mlhyears[1],
mlh_pts, unit)
else:
pw_pts = int(pw.dropna('time').size / 288)
pw_label = 'PWV: {}-{}, {} ({} {})'.format(pwyears[0], pwyears[1],
month_abbr[mlh_month],
pw_pts, unit)
mlh_label = 'MLH: {}-{}, {} ({} {})'.format(mlhyears[0], mlhyears[1],
month_abbr[mlh_month],
mlh_pts, unit)
# if month is not None:
# pwmln = pw_m_hour.plot(color='tab:orange', marker='^', ax=ax)
# pwm_label = 'PW: {}-{}, {} ({} pts)'.format(pw_years[0], pw_years[1], month_abbr[month], pw_month.dropna('time').size)
# ax.legend(pwln + mlhln + pwmln, [pw_label, mlh_label, pwm_label], loc=leg_loc)
# else:
ax.legend(pwln + mlhln, [pw_label, mlh_label], loc=leg_loc)
ax.tick_params(axis='y', colors=blue, labelsize=fontsize)
twin.tick_params(axis='y', colors=red, labelsize=fontsize)
ax.set_ylabel('PWV [mm]', color=blue, fontsize=fontsize)
twin.set_ylabel('MLH [m]', color=red, fontsize=fontsize)
ax.set_xticks([x for x in range(24)])
ax.set_xlabel('Hour of day [UTC]', fontsize=fontsize)
mlh_name = mlh.attrs['station_full_name'].replace('_', '-')
textstr = '{}, {}'.format(mlh_name, pw.name.upper())
props = dict(boxstyle='round', facecolor='white', alpha=0.5)
ax.text(0.05,
0.95,
textstr,
transform=ax.transAxes,
fontsize=fontsize,
verticalalignment='top',
bbox=props)
if title:
ax.set_title(
'The diurnal cycle of {} Mixing Layer Height and {} GNSS site PWV'.
format(mlh_name, pw.name.upper()))
return ax, twin
def scatter_plot_pw_mlh(pw,
mlh,
diurnal=False,
ax=None,
title=True,
leg_loc='best',
month=None):
from aux_gps import dim_intersection
import xarray as xr
import numpy as np
from sklearn.metrics import r2_score
import matplotlib.pyplot as plt
from PW_stations import produce_geo_gnss_solved_stations
df = produce_geo_gnss_solved_stations(plot=False)
pw_alt = df.loc[pw.name, 'alt']
pw_attrs = pw.attrs
mlh_attrs = mlh.attrs
if diurnal:
if month is not None:
pw = pw.sel(time=pw['time.month'] == month)
else:
newtime = dim_intersection([pw, mlh], 'time')
pw = pw.sel(time=newtime)
mlh = mlh.sel(time=newtime)
pw = pw.groupby('time.hour').mean()
pw.attrs = pw_attrs
mlh = mlh.groupby('time.hour').mean()
mlh.attrs = mlh_attrs
else:
newtime = dim_intersection([pw, mlh], 'time')
pw = pw.sel(time=newtime)
mlh = mlh.sel(time=newtime)
ds = xr.merge([pw, mlh])
if ax is None:
fig, ax = plt.subplots(figsize=(10, 10))
ds.plot.scatter(pw.name, mlh.name, ax=ax)
coefs = np.polyfit(pw.values, mlh.values, 1)
x = np.linspace(pw.min().item(), pw.max().item(), 100)
y = np.polyval(coefs, x)
r2 = r2_score(mlh.values, np.polyval(coefs, pw.values))
# coefs2 = np.polyfit(pw.values, mlh.values, 2)
# y2 = np.polyval(coefs2, x)
# r22 = r2_score(mlh.values,np.polyval(coefs2, pw.values))
ax.plot(x, y, color='tab:red')
# ax.plot(x, y2, color='tab:orange')
ax.set_xlabel('PWV [mm]')
ax.set_ylabel('MLH [m]')
ax.legend(['linear fit', 'data'], loc=leg_loc)
textstr = '\n'.join([
'n={}'.format(pw.size), r'R$^2$={:.2f}'.format(r2),
'slope={:.1f} m/mm'.format(coefs[0])
])
props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
ax.text(0.05,
0.95,
textstr,
transform=ax.transAxes,
fontsize=10,
verticalalignment='top',
bbox=props)
mlh_name = mlh.attrs['station_full_name'].replace('_', '-')
if title:
ax.set_title(
'{} ({:.0f} m) GNSS site PW vs. {} ({:.0f} m) Mixing Layer Height'.
format(pw.name.upper(), pw_alt, mlh_name, mlh.attrs['alt']))
return ax
def process_data_from_uwyo_sounding(path, st_num):
"""create tm, tpw from sounding station and also add surface temp and
station caluculated ipw"""
import xarray as xr
from aux_gps import dim_intersection
import numpy as np
import logging
logger = logging.getLogger('uwyo')
# da = xr.open_dataarray(sound_path / 'ALL_bet_dagan_soundings.nc')
pw_file = 'PW_{}_soundings.nc'.format(st_num)
all_file = 'ALL_{}_soundings.nc'.format(st_num)
da = xr.open_dataarray(path / all_file)
pw = xr.open_dataarray(path / pw_file)
new_time = dim_intersection([da, pw], 'time', dropna=False)
logger.info('loaded {}'.format(pw_file))
logger.info('loaded {}'.format(all_file))
da = da.sel(time=new_time)
pw = pw.sel(time=new_time)
pw.load()
da.load()
logger.info('calculating pw and tm for station {}'.format(st_num))
ts_list = []
tpw_list = []
tm_list = []
# cld_list = []
for date in da.time:
ts_list.append(da.sel(var='TEMP', mpoint=0, time=date) + 273.15)
tpw_list.append(precipitable_water(da.sel(time=date)))
tm_list.append(Tm(da.sel(time=date)))
# if np.isnan(ds.CLD.sel(time=date)).all():
# cld_list.append(0)
# else:
# cld_list.append(1)
tpw = xr.DataArray(tpw_list, dims='time')
tm = xr.DataArray(tm_list, dims='time')
tm.attrs[
'description'] = 'mean atmospheric temperature calculated by water vapor pressure weights'
tm.attrs['units'] = 'K'
ts = xr.concat(ts_list, 'time')
ts.attrs[
'description'] = 'Surface temperature from {} station soundings'.format(
st_num)
ts.attrs['units'] = 'K'
result = pw.to_dataset(name='pw')
result['tpw'] = tpw
result['tm'] = tm
result['ts'] = ts
result['tpw'].attrs[
'description'] = 'station {} percipatable water calculated from sounding by me'.format(
st_num)
result['tpw'].attrs['units'] = 'mm'
result['season'] = result['time.season']
result['hour'] = result['time.hour'].astype(str)
result['hour'] = result.hour.where(result.hour != '12', 'noon')
result['hour'] = result.hour.where(result.hour != '0', 'midnight')
# result['any_cld'] = xr.DataArray(cld_list, dims='time')
result = result.dropna('time')
filename = 'station_{}_sounding_pw_Ts_Tk.nc'.format(st_num)
logger.info('saving {} to {}'.format(filename, path))
comp = dict(zlib=True, complevel=9) # best compression
encoding = {var: comp for var in result}
result.to_netcdf(path / filename, 'w', encoding=encoding)
logger.info('Done!')
return
def evaluate_sin_to_tmsearies(
da,
time_dim='time',
plot=True,
params_up={
'amp': 6.0,
'period': 365.0,
'phase': 30.0,
'offset': 253.0,
'a': 0.0,
'b': 0.0
},
func='sine',
bounds=None,
just_eval=False):
import pandas as pd
import xarray as xr
import numpy as np
from aux_gps import dim_intersection
from scipy.optimize import curve_fit
from sklearn.metrics import mean_squared_error
def sine(time, amp, period, phase, offset):
f = amp * np.sin(2 * np.pi * (time / period + 1.0 / phase)) + offset
return f
def sine_on_linear(time, amp, period, phase, offset, a):
f = a * time / 365.25 + amp * \
np.sin(2 * np.pi * (time / period + 1.0 / phase)) + offset
return f
def sine_on_quad(time, amp, period, phase, offset, a, b):
f = a * (time / 365.25) ** 2.0 + b * time / 365.25 + amp * \
np.sin(2 * np.pi * (time / period + 1.0 / phase)) + offset
return f
params = {
'amp': 6.0,
'period': 365.0,
'phase': 30.0,
'offset': 253.0,
'a': 0.0,
'b': 0.0
}
params.update(params_up)
print(params)
lower = {}
upper = {}
if bounds is not None:
# lower = [(x - y) for x, y in zip(params, perc2)]
for key in params.keys():
lower[key] = -np.inf
upper[key] = np.inf
lower['phase'] = 0.01
upper['phase'] = 0.05
lower['offset'] = 46.2
upper['offset'] = 46.3
lower['a'] = 0.0001
upper['a'] = 0.002
upper['amp'] = 0.04
lower['amp'] = 0.02
else:
for key in params.keys():
lower[key] = -np.inf
upper[key] = np.inf
lower = [x for x in lower.values()]
upper = [x for x in upper.values()]
params = [x for x in params.values()]
da_no_nans = da.dropna(time_dim)
time = da_no_nans[time_dim].values
time = pd.to_datetime(time)
jul = time.to_julian_date()
jul -= jul[0]
jul_with_nans = pd.to_datetime(da[time_dim].values).to_julian_date()
jul_with_nans -= jul[0]
ydata = da_no_nans.values
if func == 'sine':
print('Model chosen: y = amp * sin (2*pi*(x/T + 1/phi)) + offset')
if not just_eval:
popt, pcov = curve_fit(sine,
jul,
ydata,
p0=params[:-2],
bounds=(lower[:-2], upper[:-2]),
ftol=1e-9,
xtol=1e-9)
amp = popt[0]
period = popt[1]
phase = popt[2]
offset = popt[3]
perr = np.sqrt(np.diag(pcov))
print('amp: {:.4f} +- {:.2f}'.format(amp, perr[0]))
print('period: {:.2f} +- {:.2f}'.format(period, perr[1]))
print('phase: {:.2f} +- {:.2f}'.format(phase, perr[2]))
print('offset: {:.2f} +- {:.2f}'.format(offset, perr[3]))
new = sine(jul_with_nans, amp, period, phase, offset)
elif func == 'sine_on_linear':
print(
'Model chosen: y = a * x + amp * sin (2*pi*(x/T + 1/phi)) + offset'
)
if not just_eval:
popt, pcov = curve_fit(sine_on_linear,
jul,
ydata,
p0=params[:-1],
bounds=(lower[:-1], upper[:-1]),
xtol=1e-11,
ftol=1e-11)
amp = popt[0]
period = popt[1]
phase = popt[2]
offset = popt[3]
a = popt[4]
perr = np.sqrt(np.diag(pcov))
print('amp: {:.4f} +- {:.2f}'.format(amp, perr[0]))
print('period: {:.2f} +- {:.2f}'.format(period, perr[1]))
print('phase: {:.2f} +- {:.2f}'.format(phase, perr[2]))
print('offset: {:.2f} +- {:.2f}'.format(offset, perr[3]))
print('a: {:.7f} +- {:.2f}'.format(a, perr[4]))
new = sine_on_linear(jul_with_nans, amp, period, phase, offset, a)
elif func == 'sine_on_quad':
print(
'Model chosen: y = a * x^2 + b * x + amp * sin (2*pi*(x/T + 1/phi)) + offset'
)
if not just_eval:
popt, pcov = curve_fit(sine_on_quad,
jul,
ydata,
p0=params,
bounds=(lower, upper))
amp = popt[0]
period = popt[1]
phase = popt[2]
offset = popt[3]
a = popt[4]
b = popt[5]
perr = np.sqrt(np.diag(pcov))
print('amp: {:.4f} +- {:.2f}'.format(amp, perr[0]))
print('period: {:.2f} +- {:.2f}'.format(period, perr[1]))
print('phase: {:.2f} +- {:.2f}'.format(phase, perr[2]))
print('offset: {:.2f} +- {:.2f}'.format(offset, perr[3]))
print('a: {:.7f} +- {:.2f}'.format(a, perr[4]))
print('b: {:.7f} +- {:.2f}'.format(a, perr[5]))
new = sine_on_quad(jul_with_nans, amp, period, phase, offset, a, b)
new_da = xr.DataArray(new, dims=[time_dim])
new_da[time_dim] = da[time_dim]
resid = new_da - da
rmean = np.mean(resid)
new_time = dim_intersection([da, new_da], time_dim)
rmse = np.sqrt(
mean_squared_error(
da.sel({
time_dim: new_time
}).values,
new_da.sel({
time_dim: new_time
}).values))
print('MEAN : {}'.format(rmean))
print('RMSE : {}'.format(rmse))
if plot:
da.plot.line(marker='.', linewidth=0., figsize=(20, 5))
new_da.plot.line(marker='.', linewidth=0.)
return new_da
