def arrange_data(data, pop, periods=1):
"""Arrange the data in a dict: works also for data with higher frequency
than yearly.
"""
#fill notification rates, population and percentual change
notif = []
rel_change = [float('NaN')]
times = data['years'] # in format (year, period)
for i in range(len(times)):
notif.append(data['abs_notif'][i] * 10.0**5 / pop[times[i][0]])
for i in range(1, len(times)):
# Add 1 in the denominator to avoid division by 0
# Check if two points are successive
if (times[i-1][0] == times[i][0] and times[i-1][1] == times[i][1] -1):
rel_change.append((notif[i]-notif[i-1])/float(1 + notif[i-1]))
elif times[i-1][0] == times[i][0] - 1 and times[i-1][1] == periods and times[i][1] ==1:
rel_change.append((notif[i]-notif[i-1])/float(1 + notif[i-1]))
else:
rel_change.append(float('NaN'))
#list years with missing data
missing, missing_intervals = ut._missing(times, periods)
#interpolate between missing
interpolated = _interpolate(times, notif, missing, missing_intervals,
periods)
#define data as a dict of dicts
new_data = {'abs_notif': data['abs_notif'], 'notif': notif,
'rel_change': rel_change, 'interpolated':interpolated, 'times': times,
'years': data['years']}
return new_data
def _select_data(first, data, periods=1, outliers=None, threshold=5, plot=False):
"""Cuts the data to have only the data used for projection
Input: first: int, starting year
data: dict, the 'data' dictionary of extract_data()
outliers: list of int, years considered outliers
periods: int, data frequency: 1 for years, 4 for quarters...
threshold: int, minimum number of points required for projection
(excluding outliers)
plot: boolean, whether we want to produce a plot
Output: enough_data: boolean, whether enough data selected
new_data: dict, containing selected data
figdata: string for web plotting
"""
new_data = {}
# If there are outliers
if outliers:
notif_new = []
abs_notif_new = []
years_new = []
changes_new = []
for i in range(len(data['times'])):
# rewrite lists excluding outliers
if data['times'][i] not in outliers:
years_new.append(data['times'][i])
notif_new.append(data['notif'][i])
abs_notif_new.append(data['abs_notif'][i])
changes_new.append(data['rel_change'][i])
# re-run interpolation to accomodate for outliers
missing, missing_int = ut._missing(years_new, periods)
new_data['interpolated'] = _interpolate(years_new, notif_new,
missing, missing_int, periods)
# If no outliers
else:
# copy original data
notif_new = data['notif']
abs_notif_new = data['abs_notif']
years_new = data['times']
changes_new = data['rel_change']
new_data['interpolated'] = data['interpolated']
# Find index for firs year
for i in range(len(years_new)):
if years_new[i] == first:
first_i = i
break
# Cut data lists starting from first year
new_data['notif'] = notif_new[first_i:]
new_data['abs_notif'] = abs_notif_new[first_i:]
new_data['times'] = years_new[first_i:]
new_data['rel_change'] = changes_new[first_i:]
# Check if enough data is available
if len(new_data['notif']) < threshold:
enough_data = False
else:
enough_data = True
# Plot
if plot == True:
plt.clf()
figdata = _plot_time_series(new_data)
else:
figdata = None
return enough_data, new_data, figdata
