def get_breakpoint_dates(data, var=None):
""" Look for Breakpoint information in data
Parameters
----------
data DataFrame/Panel
var str
Returns
-------
dict
"""
from raso.support import filter_series
res = {}
if isinstance(data, pd.DataFrame):
if var is None:
for ivar in data.columns.tolist():
if "breaks" in ivar:
res[ivar] = filter_series(data[ivar] > 0).unique()
else:
res[var] = filter_series(data[var] > 0).unique()
else:
# PANEL
if var is None:
for ivar in data.items.tolist():
if "breaks" in ivar:
res[var] = filter_series((data[ivar] > 0).any(1))
else:
res[var] = filter_series((data[var] > 0).any(1))
return res
def timeseries_line_snht(data, var, snhtvar, p, varlabel, breaks=None, window=60, min_periods=1, plabel=5, ax=None, **kwargs):
import matplotlib.pyplot as plt
if not isinstance(data, pd.Panel):
raise ValueError("Requires a Panel")
ax = data.ix[var, :, p].resample('12h').mean().rolling(window=window, min_periods=min_periods, center=True).mean().plot(
legend=False, ax=ax, label=var, **kwargs)
naxes = len(plt.gcf().get_axes())
if naxes == 1:
ax.text('1980', plabel, '%d hPa' % (p / 100), fontsize=10)
ax2 = ax.twinx()
ax2._get_lines.prop_cycler.next() # get next color of color-scheme
ax2 = data.ix[snhtvar, :, p].plot(ax=ax2, label='')
ax.set_ylabel(varlabel)
ax.yaxis.label.set_color(ax.get_lines()[0].get_color())
ax2.set_ylabel('SNHT')
ax2.yaxis.label.set_color(ax2.get_lines()[0].get_color())
ax2.set_ylim(0, 200)
ax.axhline(y=0, c='k', label="") # will be ignored in legend
if breaks is not None:
breaks = filter_series(data.ix[breaks, :, p] > 0)
[ax.axvline(x=ib, color='lightgray', label="") for ib in breaks]
yticks = ax2.set_yticks(np.linspace(ax2.get_yticks()[0], ax2.get_yticks()[-1], len(ax.get_yticks())))
ax.set_xlim('1979', '2016')
return ax
def timeseries_line_correction(data, corvar, snhtvar, p, varlabel, breaks=None, departures=None, window=60,
min_periods=1, plabel=5, ax=None, post_snht=False, snht_window=1460, snht_dist=730,
snht_thres=50, force_snht=False, **kwargs):
import matplotlib.pyplot as plt
if not isinstance(data, pd.Panel):
raise ValueError("Requires a Panel")
if departures is not None:
departures = (data.ix[corvar, :, p] - data.ix[departures, :, p])
ax = departures.resample('12h').mean().rolling(window=window, min_periods=min_periods, center=True).mean().plot(legend=False, ax=ax, label=corvar+'_dep', **kwargs)
else:
ax = data.ix[corvar, :, p].resample('12h').mean().rolling(window=window, min_periods=min_periods, center=True).mean().plot(
legend=False, ax=ax, label=corvar, **kwargs)
naxes = len(plt.gcf().get_axes())
if naxes == 1 or force_snht:
if plabel is not None:
ax.text('1980', plabel, '%d hPa' % (p / 100), fontsize=10)
ax2 = ax.twinx()
ax2._get_lines.prop_cycler.next() # get next color of color-scheme
ax2 = data.ix[snhtvar, :, p].plot(ax=ax2, label='')
ax.set_ylabel(varlabel)
ax.yaxis.label.set_color(ax.get_lines()[0].get_color())
ax2.set_ylabel('SNHT')
ax2.yaxis.label.set_color(ax2.get_lines()[0].get_color())
ax2.axhline(y=snht_thres, c='k', ls=':')
if post_snht and departures is not None:
departures = departures.to_frame(name='post')
ptest = _1d_detection(departures, 'post', snht_window, snht_dist, snht_thres)
ax2 = departures['post_snht'].plot(ax=ax2, color=ax2.get_lines()[0].get_color(), label='', style='--')
ax2.set_ylim(0, 200)
ax.axhline(y=0, c='k', label='')
if breaks is not None:
breaks = filter_series(data.ix[breaks, :, p] > 0)
[ax.axvline(x=ib, color='lightgray', label='') for ib in breaks]
yticks = ax2.set_yticks(np.linspace(ax2.get_yticks()[0], ax2.get_yticks()[-1], len(ax.get_yticks())))
else:
if post_snht and departures is not None:
departures = departures.to_frame(name='post')
ptest = _1d_detection(departures,'post', snht_window, snht_dist, snht_thres)
ax2 = departures['post_snht'].plot(ax=plt.gcf().get_axes()[1], label='')
ax.set_xlim('1979', '2016')
return ax
def timeseries_line_trend(data, corvar, snhtvar, p, varlabel, breaks=None, departures=None, window=60, min_periods=1,
plabel=5, showline=True, ax=None, label=None, **kwargs):
import matplotlib.pyplot as plt
from raso.clim import trend_fit_timeseries
if not isinstance(data, pd.Panel):
raise ValueError("Requires a Panel")
if departures is not None:
departures = (data.ix[corvar, :, p] - data.ix[departures, :, p])
trend1 = trend_fit_timeseries(departures, anomaly=False)
if label is None:
label = corvar + '_dep'
label += ' (%5.3f [K/10a])' % (trend1.diff().mean() * 2 * 3650)
ax = departures.resample('12h').mean().rolling(window=window, min_periods=min_periods, center=True).mean().plot(legend=False, ax=ax, label=label, **kwargs)
else:
trend1 = trend_fit_timeseries(data.ix[corvar, :, p], anomaly=False)
if label is None:
label = corvar
label += ' (%5.3f [K/10a])' % (trend1.diff().mean() * 2 * 3650)
ax = data.ix[corvar, :, p].resample('12h').mean().rolling(window=window, min_periods=min_periods, center=True).mean().plot(legend=False, ax=ax, label=label, **kwargs)
if showline:
trend1.plot(ax=ax, color=ax.get_lines()[-1].get_color(), label='', alpha=0.5)
# ax.text('1980', trend1.min()-0.5, '%5.3f [K/10a]' % (trend1.diff().mean()*2*3650), fontsize=10, color=ax.get_lines()[-1].get_color())
naxes = len(plt.gcf().get_axes())
if naxes == 1:
ax.text('1980', plabel, '%d hPa' % (p / 100), fontsize=10)
ax2 = ax.twinx()
ax2 = data.ix[snhtvar, :, p].plot(ax=ax2, label='', color='firebrick')
ax.set_ylabel(varlabel)
ax2.set_ylabel('SNHT')
ax2.yaxis.label.set_color('firebrick')
ax2.set_ylim(0, 200)
ax.axhline(y=0, c='k', label='')
if breaks is not None:
breaks = filter_series(data.ix[breaks, :, p] > 0)
[ax.axvline(x=ib, color='lightgray', label='') for ib in breaks]
yticks = ax2.set_yticks(np.linspace(ax2.get_yticks()[0], ax2.get_yticks()[-1], len(ax.get_yticks())))
ax.set_xlim('1979', '2016')
return ax
def detection(data, var='t', thres=50, window=1460, dist=730, levels=None, min_levels=3, database=False, freq='12h',
valid_times=[0, 12], verbose=0, **kwargs):
"""Break Detection in timeseries using a Standard Normal Homogeneity Test (SNHT)
Parameters
----------
data Series/DataFrame/Panel Input Radiosonde data (standard)
var str/list Variable to use for detection
thres number Threshold for SNHT
window number Window size for SNHT
dist number Distance between breakpoints
levels list only these levels
min_levels int Minimum required number of levels
database bool
verbose int
kwargs **
Returns
-------
input + var_breaks + var_snht
"""
funcid = '[BD] '
if not isinstance(data, (pd.Series, pd.DataFrame, pd.Panel)):
raise ValueError(funcid + " Require a Series, DataFrame or Panel")
if not isinstance(var, (list, str)):
raise ValueError(funcid + " Variable needs to be a list or string")
if isinstance(var, str):
var = [var] # as list
data = data.copy()
if len(valid_times) == 1:
if freq != '24h':
raise RuntimeError("Frequency must be 24 hours then")
elif len(valid_times) == 2:
if freq != '12h':
raise RuntimeError("Frequency must be 12 hours then")
else:
raise RuntimeWarning("Make sure the freqency fits to the valid times")
if isinstance(data, pd.Series):
data = data.to_frame()
if len(var) > 1:
raise ValueError("Series object has only one variable")
data.columns = var
data = data.ix[np.in1d(data.index.hour, valid_times), :] # VIEW
data = data.resample(freq).asfreq()
# run 1d
found_breaks = _1d_detection(data, var, window, dist, thres, verbose=verbose)
print_verbose(var + ": " + str(filter_series(data['%s_breaks' % var] > 0).unique()), verbose)
return found_breaks, data # dict, dataframe
if isinstance(data, pd.DataFrame):
for ivar in var:
if ivar not in data.columns:
raise ValueError(funcid + "Variable not found: %s in %s" % (ivar, str(data.columns)))
data = database_to_panel(data, levels=levels, verbose=verbose)
if isinstance(data, pd.DataFrame):
# only one level
data = data.ix[np.in1d(data.index.hour, valid_times), :] # VIEW
data = data.resample(freq).asfreq()
found_breaks = {}
for ivar in var:
found_breaks[ivar] = _1d_detection(data, ivar, window, dist, thres, verbose=verbose)
print_verbose(ivar + ": " + str(filter_series(data['%s_breaks' % ivar] > 0).unique()), verbose)
return found_breaks, data # dict, dataframe
# Panel
for ivar in var:
if ivar not in data.items:
raise ValueError(funcid + "Variable not found: %s in %s" % (ivar, str(data.items)))
# Select times:
data = data.loc[:, np.in1d(data.major_axis.hour, valid_times), :]
# Resample to frequency
if data.major_axis.inferred_freq != freq:
print_verbose(funcid + "Resampling to %s frequency" % freq, verbose)
newdates = pd.date_range(data.major_axis[0], data.major_axis[-1], freq=freq)
data = data.reindex(major_axis=newdates)
data.major_axis.name = 'date'
if levels is not None:
data = data.ix[:, :, data.minor_axis.isin(levels)].copy()
print_verbose(funcid + "Selecting only specified levels ...", verbose)
print_verbose(funcid + "p-Levels: " + ",".join(["%d" % (ip / 100) for ip in levels]) + ' hPa', verbose)
# 2D detection
found_breaks = {}
for ivar in var:
found_breaks[ivar] = _2d_detection(data, ivar, window, dist, thres, min_levels,
verbose=verbose)
if verbose > 0:
print "Minimum amount of levels required: ", min_levels
print "Breakpoints"
for ivar in var:
print ivar + ": ", str(data.major_axis[(data['%s_breaks' % ivar] > 0).all(1)])
# Output as Database
if database:
print_verbose(funcid + "as database.", verbose)
data = data.to_frame(filter_observations=False).reset_index().sort_values(by=['date', 'p']).set_index('date', drop=True)
return found_breaks, data # dict, panel / database
def breakpoint_timeseries(data, var, unit='K', p=None, bins=None, departures=False, post_snht=False, raw=False,
window=365, min_periods=30, figsize=(16,9), ylim=None, verbose=0, **kwargs):
"""
Parameters
----------
data
var
unit
p
bins
departures
post_snht
window
min_periods
figsize
ylim
verbose
Returns
-------
"""
import matplotlib.pyplot as plt
from timeseries import timeseries_snht
from raso.breakpoint.detections import _1d_detection
funcid = '[BTS] '
pressure_levels, dates, plevs, test, label = timeseries_preprocessor(data,
[var, "%s_dep_breaks" % var, "%s_dep_snht" % var],
p=p,
add_vars=["%s_mcor" % var, "%s_qcor" % var,
"%s_qecor" % var, "%s_era" % var,
"%s_era_adj" % var, "%s_dep" % var],
funcid=funcid)
if plevs is None:
raise RuntimeError(funcid + " Require an availbale pressure level at least!")
else:
if isinstance(plevs, (int,float)):
plevs = [plevs] # as list
if bins is None:
bins = np.arange(0, 50)
varselection = []
varlabel = []
correction_present = False
for jvar in label:
if jvar == var:
varlabel = ['U']
varselection.append(jvar)
elif 'mcor' in jvar:
varlabel.append('M')
varselection.append(jvar)
correction_present = True
elif 'qcor' in jvar:
varlabel.append('Q')
varselection.append(jvar)
correction_present = True
elif 'qecor' in jvar:
varlabel.append('QE')
varselection.append(jvar)
correction_present = True
elif 'adj' in jvar:
varlabel.append('EA')
varselection.append(jvar)
elif jvar == "%s_era" % var:
varlabel.append('E')
varselection.append(jvar)
else:
if verbose > 0:
print "Not used: ", jvar
if verbose > 0:
print varlabel
print varselection
#
title = kwargs.pop('title', 'Radiosonde Breakpoint Detection and Correction')
xlabel = kwargs.pop('xlabel', 'Time')
if pressure_levels:
breaks = filter_series((test["%s_dep_breaks" % var] > 0).any(1))
else:
breaks = filter_series((test["%s_dep_breaks" % var] > 0))
#
nbreaks = len(breaks)
#
if nbreaks == 0:
nbreaks = 1
nplotlevels = 4 # snht, timeseries, hist, hist
if not correction_present:
nplotlevels = 3
for z, ilev in enumerate(plevs):
print "%d / %d : %d" % (z+1, len(plevs), ilev)
if pressure_levels:
plotdata = test.minor_xs(ilev)
else:
plotdata = test
if verbose > 0:
print plotdata.shape
print plotdata.columns
plotdata = plotdata.resample('12h').asfreq() # make sure it is the same freq
#
f = plt.figure(figsize=figsize)
#
# Figure 1 : SNHT
#
axs = plt.subplot2grid((nplotlevels, nbreaks), (0, 0), colspan=nbreaks)
timeseries_snht(plotdata, "%s_dep" % var, ax=axs, label='U')
axs.set_ylabel('SNHT')
axs.set_yticklabels(axs.get_yticklabels()[::2])
if post_snht:
for k, zvar in enumerate(varselection):
if (zvar == '%s_era' % var) or (zvar == var):
continue
tmpdata = plotdata.loc[:, zvar].copy().to_frame()
if verbose > 0:
print "SNHT for ", zvar
status = _1d_detection(tmpdata, zvar, 1460, 730, 50) # default parameters
axs.plot(tmpdata.index, tmpdata['%s_snht' % zvar], label=varlabel[k], alpha=0.7, ls='--')
axs.legend(loc="upper left", fontsize=plt.rcParams.get('font.size') - 2, bbox_to_anchor=(1.02, 1),
bbox_transform=axs.transAxes)
#
plt.setp(axs.get_xticklabels(), visible=False)
axt = plt.subplot2grid((nplotlevels, nbreaks), (1, 0), colspan=nbreaks, sharex=axs)
#
# DEPARTURES
#
if departures:
for jvar in varselection:
if jvar == "%s_era" % var:
continue
plotdata[jvar] = plotdata[jvar] - plotdata["%s_era" % var] # ref !!
#
if raw:
pd_mean = plotdata
else:
pd_mean = plotdata.rolling(window=window, min_periods=min_periods).mean()
#
# Figure 2 : Values
#
for j, jvar in enumerate(varselection):
if departures and jvar == '%s_era' % var:
continue
axt.plot(pd_mean.index, pd_mean[jvar], lw=2, label=varlabel[j])
axs.set_xticks(np.unique(pd_mean.index.year.astype('str'))[::2]) # ticks
axs.set_title(title + " %d hPa" % int(ilev/100))
axs.grid() # overwrite
axs.grid()
axt.set_xticks(np.unique(pd_mean.index.year.astype('str'))[::2]) # ticks
if ylim is None:
ym = int(pd_mean[var].mean())
ys = 5 # int(pd_mean[var].std())*2
ylim = (ym-ys, ym+ys)
axt.set_ylim(ylim)
axt.set_yticks(axt.get_yticks()[::2])
if departures:
axt.set_ylabel("%s [%s]" % (var.upper(),unit))
else:
axt.set_ylabel("%s dep. [%s]" % (var.upper(),unit))
axt.grid()
# axt.legend(loc="upper center", ncol=5, fontsize=plt.rcParams.get('font.size') - 2) # bbox_to_anchor=(1, 1))
axt.legend(loc="upper left", fontsize=plt.rcParams.get('font.size') - 2, bbox_to_anchor=(1.02, 1),
bbox_transform=axt.transAxes)
[axt.axvline(x=ib, color='k') for ib in breaks]
[axt.text(ib, pd_mean[var].min(), "B%02d" % (nbreaks - i), color='k') for i, ib in enumerate(breaks)]
#
#
# Figure 3: Histograms for each breakpoint
#
for ibreak in range(nbreaks):
if ibreak == 0:
ax1 = plt.subplot2grid((nplotlevels, nbreaks), (2, ibreak))
axi = ax1
else:
axi = plt.subplot2grid((nplotlevels, nbreaks), (2, ibreak), sharey=ax1)
# Reference
if ibreak + 1 < nbreaks:
iref = slice(breaks[ibreak], breaks[ibreak + 1])
else:
iref = slice(breaks[ibreak], None)
# Biased Sample
if ibreak > 0:
ibiased = slice(breaks[ibreak - 1], breaks[ibreak])
else:
ibiased = slice(None, breaks[ibreak])
#
axi.hist(plotdata.ix[iref, var], bins=bins, normed=1, label='BB')
if "%s_era_adj" % var in varselection:
axi.hist(plotdata.ix[iref, "%s_era_adj" % var], bins=bins, normed=1, label='EA', alpha=0.6)
axi.hist(plotdata.ix[ibiased, var], bins=bins, normed=1, label='AB', alpha=0.6)
#
if ibreak == 0:
axi.set_yticks(axi.get_yticks()[::2])
axi.grid()
axi.set_title("B%02d" % (nbreaks - ibreak), y=0.75)
if ibreak > 0:
plt.setp(axi.get_yticklabels(), visible=False)
#
# Figure 4: Correction Histograms for each breakpoint
#
if correction_present:
axj = plt.subplot2grid((nplotlevels, nbreaks), (3, ibreak), sharey=ax1, sharex=axi)
plt.setp(axi.get_xticklabels(), visible=False)
alpha=1
for j, jvar in enumerate(varselection):
if 'cor' in jvar:
axj.hist(plotdata.ix[ibiased, jvar], bins=bins, normed=1, label=varlabel[j], alpha=(alpha-0.1*j))
axj.grid()
axj.set_xlabel('%s [%s]' % (var.upper(), unit))
if ibreak > 0:
plt.setp(axj.get_yticklabels(), visible=False)
axi.legend(loc='upper left', fontsize=plt.rcParams.get('font.size') - 2, bbox_to_anchor=(1.05, 1))
if correction_present:
axj.legend(loc='upper left', fontsize=plt.rcParams.get('font.size') - 2, bbox_to_anchor=(1.05, 1))
