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Merged
merged 3 commits into from
Aug 28, 2025
Merged

1363-add-output-of-germany-vaccination-data #1364

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c405ebb
adjust getVaccinationData.py
MaxBetzDLR Aug 28, 2025
ad862fc
fix formating
MaxBetzDLR Aug 28, 2025
332df99
fix format
MaxBetzDLR Aug 28, 2025
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39 changes: 36 additions & 3 deletions pycode/memilio-epidata/memilio/epidata/getVaccinationData.py
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Original file line number Diff line number Diff line change
Expand Up @@ -972,6 +972,11 @@ def write_vaccination_data(dict_data: dict,
dd.EngEng['ageRKI']]).agg(
{column: "sum" for column in vacc_column_names}).reset_index()

df_data_agevacc_ger_cs = df_data_agevacc_county_cs.groupby(
[dd.EngEng['date'],
dd.EngEng['ageRKI']]).agg(
{column: "sum" for column in vacc_column_names}).reset_index()

# make plot of absolute numbers original age resolution
if conf_obj.plot:
# extract (dummy) date column to plt
Expand Down Expand Up @@ -1020,6 +1025,10 @@ def write_vaccination_data(dict_data: dict,
dd.EngEng['idState']]).agg(
{column: "sum" for column in vacc_column_names}).reset_index()

df_data_ger_cs = df_data_county_cs.groupby(
[dd.EngEng['date']]).agg(
{column: "sum" for column in vacc_column_names}).reset_index()

####### age resolved with extrapolation to other age groups #######
# write data frame resolved per county and age (with age classes as
# provided in RKI infection tables: 0-4, 5-14, 15-34, 35-59, 60-79, 80+)
Expand All @@ -1040,6 +1049,11 @@ def write_vaccination_data(dict_data: dict,
dd.EngEng['ageRKI']]).agg(
{column: "sum" for column in vacc_column_names}).reset_index()

df_data_ageinf_ger_cs = df_data_ageinf_county_cs.groupby(
[dd.EngEng['date'],
dd.EngEng['ageRKI']]).agg(
{column: "sum" for column in vacc_column_names}).reset_index()

# make plot of relative numbers of original and extrapolated age resolution
if conf_obj.plot:
# merge Eisenach...
Expand Down Expand Up @@ -1141,6 +1155,12 @@ def write_vaccination_data(dict_data: dict,
gd.write_dataframe(df_data_agevacc_state_cs,
directory, filename, file_format)

# store data for germany
filename = 'vacc_germany_agevacc'
filename = gd.append_filename(filename, impute_dates, moving_average)
gd.write_dataframe(df_data_agevacc_ger_cs,
directory, filename, file_format)

# store data for all counties
filename = 'vacc_county'
filename = gd.append_filename(filename, impute_dates, moving_average)
Expand All @@ -1152,6 +1172,12 @@ def write_vaccination_data(dict_data: dict,
filename = gd.append_filename(filename, impute_dates, moving_average)
gd.write_dataframe(df_data_state_cs, directory, filename, file_format)

# store data for germany
filename = 'vacc_germany'
filename = gd.append_filename(filename, impute_dates, moving_average)
gd.write_dataframe(df_data_ger_cs,
directory, filename, file_format)

####### age resolved with extrapolation to other age groups #######
# write data frame resolved per county and age (with age classes as
# provided in RKI infection tables: 0-4, 5-14, 15-34, 35-59, 60-79, 80+)
Expand All @@ -1168,11 +1194,18 @@ def write_vaccination_data(dict_data: dict,
filename = gd.append_filename(filename, impute_dates, moving_average)
gd.write_dataframe(df_data_ageinf_state_cs,
directory, filename, file_format)

# store data for germany
filename = 'vacc_germany_ageinf'
filename = gd.append_filename(filename, impute_dates, moving_average)
gd.write_dataframe(df_data_ageinf_ger_cs,
directory, filename, file_format)

return None
else:
return (df_data_agevacc_county_cs, df_data_agevacc_state_cs,
df_data_county_cs, df_data_state_cs,
df_data_ageinf_county_cs, df_data_ageinf_state_cs)
return (df_data_agevacc_county_cs, df_data_agevacc_state_cs, df_data_agevacc_ger_cs,
df_data_county_cs, df_data_state_cs, df_data_ger_cs,
df_data_ageinf_county_cs, df_data_ageinf_state_cs, df_data_ageinf_ger_cs)


def get_vaccination_data(
Expand Down
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