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update_episari_opsi.py
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update_episari_opsi.py
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#!/usr/bin/env python
import time
from datetime import date
import pandas as pd
from update_stats import sha1sum, write_timestamp_file
from transform.utils import saveurl
opsi_episari_url="https://podatki.gov.si/dataset/7d73b91a-b551-4783-bb2c-8e4c8953a974/resource/7716561d-3c4e-4522-be4c-493cce35510a/download/episaricsv.csv"
opsi_episari_csv="sources/opsi/episari/episari-opsi.csv"
episari_weekly_csv="csv/episari-nijz-weekly.csv"
def import_opsi_episari():
saveurl(opsi_episari_url, opsi_episari_csv, "text/csv")
def update_episari_weekly(update_time):
print("Processing", episari_weekly_csv)
df_old_hash = sha1sum(episari_weekly_csv)
df_opsi = pd.read_csv(opsi_episari_csv, sep=';', decimal=',', thousands='.')
df_opsi.columns = [
'episari.week',
'episari.sari.in',
'episari.tested.in',
'episari.covid.in',
'episari.covid.in.vacc.full_6m',
'episari.covid.in.vacc.other',
'episari.covid.in.vacc.full_6m.age.65+',
'episari.covid.in.vacc.unknown',
'episari.covid.in.notsari',
'episari.covid.discoveredinhospital',
'episari.covid.acquiredinhospital',
'episari.deceased',
'episari.covid.deceased',
'episari.all.out',
'episari.covid.out',
'episari.sari.icu.in',
'episari.tested.icu.in',
'episari.covid.icu.in',
'episari.covid.in.age.mean',
'episari.covid.deceased.age.mean',
'episari.covid.icu.in.age.mean',
'episari.covid.in.age.00-04',
'episari.covid.in.age.05-14',
'episari.covid.in.age.15-24',
'episari.covid.in.age.25-34',
'episari.covid.in.age.35-44',
'episari.covid.in.age.45-54',
'episari.covid.in.age.55-64',
'episari.covid.in.age.65-74',
'episari.covid.in.age.75-84',
'episari.covid.in.age.85+',
'episari.covid.icu.in.age.00-04',
'episari.covid.icu.in.age.05-14',
'episari.covid.icu.in.age.15-24',
'episari.covid.icu.in.age.25-34',
'episari.covid.icu.in.age.35-44',
'episari.covid.icu.in.age.45-54',
'episari.covid.icu.in.age.55-64',
'episari.covid.icu.in.age.65-74',
'episari.covid.icu.in.age.75-84',
'episari.covid.icu.in.age.85+',
'episari.covid.deceased.age.00-04',
'episari.covid.deceased.age.05-14',
'episari.covid.deceased.age.15-24',
'episari.covid.deceased.age.25-34',
'episari.covid.deceased.age.35-44',
'episari.covid.deceased.age.45-54',
'episari.covid.deceased.age.55-64',
'episari.covid.deceased.age.65-74',
'episari.covid.deceased.age.75-84',
'episari.covid.deceased.age.85+',
'episari.hospitals']
df_opsi['episari.week'] = df_opsi['episari.week'].str.replace('_','-')
df_opsi[['year', 'month']] = df_opsi['episari.week'].str.split(pat='-', n=1, expand=True)
df_opsi['episari.date.from'] = df_opsi.apply(lambda row: date.fromisocalendar(int(row['year']), int(row['month']), 1).isoformat(), axis='columns')
df_opsi['episari.date.to'] = df_opsi.apply(lambda row: date.fromisocalendar(int(row['year']), int(row['month']), 7).isoformat(), axis='columns')
df_opsi.drop(['year', 'month'], axis='columns', inplace=True)
df_opsi['episari.source'] = 'csv'
print("OPSI: ", df_opsi)
df_weekly = pd.read_csv(episari_weekly_csv, sep=',') #, index_col='episari.week')
print("OLD: ", df_weekly)
df_opsi.drop(df_opsi.loc[df_opsi['episari.date.from'] < '2022-09-26'].index, inplace=True)
df_weekly.drop(df_weekly.loc[df_weekly['episari.date.from'] >= '2022-09-26'].index, inplace=True)
merged = pd.concat([df_weekly, df_opsi], ignore_index=True).set_index('episari.date.from')
merged.to_csv(
episari_weekly_csv,
float_format='%.0f',
lineterminator='\r\n',
columns = [
#'episari.date.from',
'episari.date.to',
'episari.source',
'episari.missing',
'episari.week',
'episari.sari.in',
'episari.tested.in',
'episari.covid.in',
'episari.covid.in.vacc.full_6m',
'episari.covid.in.vacc.other',
'episari.covid.in.vacc.full_6m.age.65+',
'episari.covid.in.vacc.unknown',
'episari.covid.in.notsari',
'episari.covid.discoveredinhospital',
'episari.covid.acquiredinhospital',
'episari.deceased',
'episari.covid.deceased',
'episari.all.out',
'episari.covid.out',
'episari.sari.icu.in',
'episari.tested.icu.in',
'episari.covid.icu.in',
'episari.covid.in.age.mean',
'episari.covid.deceased.age.mean',
'episari.covid.icu.in.age.mean',
'episari.covid.in.age.00-04',
'episari.covid.in.age.05-14',
'episari.covid.in.age.15-24',
'episari.covid.in.age.25-34',
'episari.covid.in.age.35-44',
'episari.covid.in.age.45-54',
'episari.covid.in.age.55-64',
'episari.covid.in.age.65-74',
'episari.covid.in.age.75-84',
'episari.covid.in.age.85+',
'episari.covid.icu.in.age.00-04',
'episari.covid.icu.in.age.05-14',
'episari.covid.icu.in.age.15-24',
'episari.covid.icu.in.age.25-34',
'episari.covid.icu.in.age.35-44',
'episari.covid.icu.in.age.45-54',
'episari.covid.icu.in.age.55-64',
'episari.covid.icu.in.age.65-74',
'episari.covid.icu.in.age.75-84',
'episari.covid.icu.in.age.85+',
'episari.covid.deceased.age.00-04',
'episari.covid.deceased.age.05-14',
'episari.covid.deceased.age.15-24',
'episari.covid.deceased.age.25-34',
'episari.covid.deceased.age.35-44',
'episari.covid.deceased.age.45-54',
'episari.covid.deceased.age.55-64',
'episari.covid.deceased.age.65-74',
'episari.covid.deceased.age.75-84',
'episari.covid.deceased.age.85+',
'episari.covid.in.vacc.3',
'episari.covid.in.vacc.full',
'episari.covid.in.vacc.partial',
'episari.covid.in.vacc.none',
'episari.covid.in.vacc.none.age.65-84',
'episari.covid.in.vacc.none.age.85+',
'episari.covid.in.vacc.3.age.65+',
'episari.covid.in.vacc.3.age.65-84',
'episari.covid.in.vacc.3.age.85+',
'episari.covid.in.vacc.full.age.65+',
'episari.covid.in.vacc.full.age.65-84',
'episari.covid.in.vacc.full.age.85+',
'episari.covid.in.vacc',
'episari.covid.in.notvacc',
'episari.covid.in.vacc.age.65+'])
write_timestamp_file(episari_weekly_csv, df_old_hash)
print("NEW", merged)
if __name__ == "__main__":
update_time = int(time.time())
import_opsi_episari()
update_episari_weekly(update_time)