109 lines
No EOL
7.7 KiB
Python
109 lines
No EOL
7.7 KiB
Python
import numpy as np
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from caimira import models
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from caimira.data.weather import wx_data, nearest_wx_station
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MONTH_NAMES = [
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'January', 'February', 'March', 'April', 'May', 'June', 'July',
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'August', 'September', 'October', 'November', 'December',
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]
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def get_hourly_temperatures_celsius_per_hour(coordinates):
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wx_station_id = nearest_wx_station(
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longitude=coordinates[1], latitude=coordinates[0])[0]
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# Average temperature of each month, hour per hour (from midnight to 11 pm)
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return {month.replace(month, MONTH_NAMES[i][:3]):
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[t - 273.15 for t in temp] for i, (month, temp)
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in enumerate(wx_data()[wx_station_id].items())}
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# Load the weather data (temperature in kelvin) for Geneva.
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geneva_coordinates = (46.204391, 6.143158)
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local_hourly_temperatures_celsius_per_hour = get_hourly_temperatures_celsius_per_hour(
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geneva_coordinates)
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# Geneva hourly temperatures as piecewise constant function (in Kelvin).
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GenevaTemperatures_hourly = {
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month: models.PiecewiseConstant(
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# NOTE: It is important that the time type is float, not np.float, in
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# order to allow hashability (for caching).
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tuple(float(time) for time in range(25)),
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tuple(273.15 + np.array(temperatures)),
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)
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for month, temperatures in local_hourly_temperatures_celsius_per_hour.items()
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}
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# Same Geneva temperatures on a finer temperature mesh (every 6 minutes).
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GenevaTemperatures = {
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month: GenevaTemperatures_hourly[month].refine(refine_factor=10)
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for month, temperatures in local_hourly_temperatures_celsius_per_hour.items()
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}
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# ------- VACCINATION DATA -------
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# From data available in Results of COVID-19 Vaccine Effectiveness
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# Studies: An Ongoing Systematic Review - Updated September 8, 2022.
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# https://view-hub.org/resources
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vaccine_primary_host_immunity = {
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'Ad26.COV2.S_(Janssen)': 0.551277778,
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'Any_mRNA_-_heterologous': 0.93875,
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'AZD1222_(AstraZeneca)': 0.55921875,
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'AZD1222_(AstraZeneca)_and_any_mRNA_-_heterologous': 0.718571429,
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'AZD1222_(AstraZeneca)_and_BNT162b2_(Pfizer)': 0.7865,
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'BBIBP-CorV_(Beijing_CNBG)': 0.4325,
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'BNT162b2_(Pfizer)': 0.62503012,
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'BNT162b2_(Pfizer)_and_mRNA-1273_(Moderna)': 0.567126761,
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'CoronaVac_(Sinovac)': 0.286884615,
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'CoronaVac_(Sinovac)_and_AZD1222_(AstraZeneca)': 0.561333333,
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'Covishield': 0.98,
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'mRNA-1273_(Moderna)': 0.683255814,
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'Sputnik_V_(Gamaleya)': 0.696,
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'CoronaVac_(Sinovac)_and_BNT162b2_(Pfizer)': 0.7965,
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}
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vaccine_booster_host_immunity = [
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{'primary series vaccine': 'AZD1222_(AstraZeneca)', 'booster vaccine': 'AZD1222_(AstraZeneca)', 'VE': 0.6353636363636364},
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{'primary series vaccine': 'AZD1222_(AstraZeneca)', 'booster vaccine': 'BNT162b2_(Pfizer)', 'VE': 0.7389019607843137},
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{'primary series vaccine': 'AZD1222_(AstraZeneca)', 'booster vaccine': 'BNT162b2_(Pfizer)_and_mRNA-1273_(Moderna)', 'VE': 0.26},
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{'primary series vaccine': 'AZD1222_(AstraZeneca)', 'booster vaccine': 'BNT162b2_(Pfizer)_or_mRNA-1273_(Moderna)', 'VE': 0.3846666666666667},
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{'primary series vaccine': 'AZD1222_(AstraZeneca)', 'booster vaccine': 'Sinopharm', 'VE': 0.7346666666666666},
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{'primary series vaccine': 'AZD1222_(AstraZeneca)', 'booster vaccine': 'mRNA-1273_(Moderna)', 'VE': 0.8642399999999999},
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{'primary series vaccine': 'Ad26.COV2.S_(Janssen)', 'booster vaccine': 'Ad26.COV2.S_(Janssen)', 'VE': 0.615},
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{'primary series vaccine': 'Ad26.COV2.S_(Janssen)', 'booster vaccine': 'BNT162b2_(Pfizer)', 'VE': 0.9155000000000001},
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{'primary series vaccine': 'Ad26.COV2.S_(Janssen)', 'booster vaccine': 'BNT162b2_(Pfizer)_or_mRNA-1273_(Moderna)', 'VE': 0.6725},
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{'primary series vaccine': 'BBIBP-CorV_(Beijing_CNBG)', 'booster vaccine': 'Ad26.COV2.S_(Janssen)', 'VE': 0.8973333333333333},
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{'primary series vaccine': 'BBIBP-CorV_(Beijing_CNBG)', 'booster vaccine': 'BNT162b2_(Pfizer)', 'VE': 0.9283333333333332},
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{'primary series vaccine': 'BBIBP-CorV_(Beijing_CNBG)', 'booster vaccine': 'Sinopharm', 'VE': 0.7639999999999999},
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{'primary series vaccine': 'BBIBP-CorV_(Beijing_CNBG)', 'booster vaccine': 'mRNA-1273_(Moderna)', 'VE': 0.9526666666666667},
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{'primary series vaccine': 'BNT162b2_(Pfizer)', 'booster vaccine': 'AZD1222_(AstraZeneca)', 'VE': 0.8960000000000001},
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{'primary series vaccine': 'BNT162b2_(Pfizer)', 'booster vaccine': 'Ad26.COV2.S_(Janssen)', 'VE': 0.9306666666666666},
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{'primary series vaccine': 'BNT162b2_(Pfizer)', 'booster vaccine': 'BNT162b2_(Pfizer)', 'VE': 0.7413183520599251},
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{'primary series vaccine': 'BNT162b2_(Pfizer)', 'booster vaccine': 'BNT162b2_(Pfizer)_or_mRNA-1273_(Moderna)', 'VE': 0.6004285714285714},
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{'primary series vaccine': 'BNT162b2_(Pfizer)', 'booster vaccine': 'CoronaVac_(Sinovac)', 'VE': 0.121},
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{'primary series vaccine': 'BNT162b2_(Pfizer)', 'booster vaccine': 'Sinopharm', 'VE': 0.6683333333333333},
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{'primary series vaccine': 'BNT162b2_(Pfizer)', 'booster vaccine': 'mRNA-1273_(Moderna)', 'VE': 0.7530214285714285},
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{'primary series vaccine': 'BNT162b2_(Pfizer)_and_mRNA-1273_(Moderna)', 'booster vaccine': 'BNT162b2_(Pfizer)_and_mRNA-1273_(Moderna)', 'VE': 0.645},
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{'primary series vaccine': 'BNT162b2_(Pfizer)_(2_doses)_+_mRNA-1273_(Moderna)_(3rd_dose)', 'booster vaccine': 'mRNA-1273_(Moderna)_(4th_dose)', 'VE': 0.6466666666666667},
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{'primary series vaccine': 'BNT162b2_(Pfizer)_(3_doses)', 'booster vaccine': 'BNT162b2_(Pfizer)_(4th_dose)', 'VE': 0.6068333333333333},
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{'primary series vaccine': 'BNT162b2_(Pfizer)_(3_doses)', 'booster vaccine': 'mRNA-1273_(Moderna)_(4th_dose)', 'VE': 0.498},
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{'primary series vaccine': 'BNT162b2_(Pfizer)_or_mRNA-1273_(Moderna)', 'booster vaccine': 'BNT162b2_(Pfizer)', 'VE': 0.7564285714285713},
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{'primary series vaccine': 'BNT162b2_(Pfizer)_or_mRNA-1273_(Moderna)', 'booster vaccine': 'BNT162b2_(Pfizer)_or_mRNA-1273_(Moderna)', 'VE': 0.7541721854304636},
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{'primary series vaccine': 'BNT162b2_(Pfizer)_or_mRNA-1273_(Moderna)', 'booster vaccine': 'mRNA-1273_(Moderna)', 'VE': 0.7538571428571429},
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{'primary series vaccine': 'BNT162b2_(Pfizer)_or_mRNA-1273_(Moderna)_(3_doses)', 'booster vaccine': 'BNT162b2_(Pfizer)_or_mRNA-1273_(Moderna)_(4th_dose)', 'VE': 0.5788888888888889},
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{'primary series vaccine': 'CoronaVac_(Sinovac)', 'booster vaccine': 'AZD1222_(AstraZeneca)', 'VE': 0.9584285714285714},
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{'primary series vaccine': 'CoronaVac_(Sinovac)', 'booster vaccine': 'BNT162b2_(Pfizer)', 'VE': 0.7631960784313726},
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{'primary series vaccine': 'CoronaVac_(Sinovac)', 'booster vaccine': 'CoronaVac_(Sinovac)', 'VE': 0.7141851851851851},
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{'primary series vaccine': 'CoronaVac_(Sinovac)', 'booster vaccine': 'Coronavac_(Sinovac)', 'VE': 0.5107647058823529},
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{'primary series vaccine': 'Sputnik_V_(Gamaleya)', 'booster vaccine': 'Ad26.COV2.S_(Janssen)', 'VE': 0.8076666666666666},
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{'primary series vaccine': 'Sputnik_V_(Gamaleya)', 'booster vaccine': 'BNT162b2_(Pfizer)', 'VE': 0.936},
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{'primary series vaccine': 'Sputnik_V_(Gamaleya)', 'booster vaccine': 'Sinopharm', 'VE': 0.5285},
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{'primary series vaccine': 'Sputnik_V_(Gamaleya)', 'booster vaccine': 'mRNA-1273_(Moderna)', 'VE': 0.9366666666666668},
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{'primary series vaccine': 'mRNA-1273_(Moderna)', 'booster vaccine': 'Ad26.COV2.S_(Janssen)', 'VE': 0.8873333333333333},
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{'primary series vaccine': 'mRNA-1273_(Moderna)', 'booster vaccine': 'BNT162b2_(Pfizer)', 'VE': 0.8068636363636363},
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{'primary series vaccine': 'mRNA-1273_(Moderna)', 'booster vaccine': 'BNT162b2_(Pfizer)_or_mRNA-1273_(Moderna)', 'VE': 0.5692499999999999},
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{'primary series vaccine': 'mRNA-1273_(Moderna)', 'booster vaccine': 'Sinopharm', 'VE': 0.7739999999999999},
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{'primary series vaccine': 'mRNA-1273_(Moderna)', 'booster vaccine': 'mRNA-1273_(Moderna)', 'VE': 0.7141650485436892},
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{'primary series vaccine': 'mRNA-1273_(Moderna)_(3_doses)', 'booster vaccine': 'mRNA-1273_(Moderna)_(4th_dose)', 'VE': 0.7066666666666667}] |