def prepare_malariatherapy_configbuilder(config_path,
immunity_forcing=True,
years=1):
# Setup -------------------------------------------------------------------------------------------
cb = DTKConfigBuilder.from_files(config_path)
cb.update_params({
'Vector_Species_Names': [],
'Simulation_Duration':
365 * years,
'Demographics_Filenames': ['Malariatherapy_demographics.json']
})
set_climate_constant(cb)
# Add source of infection (challenge bite or forced EIR) ------------------------------------------
add_challenge_trial(cb, start_day=0)
# ---- CUSTOM REPORTS ----
add_patient_report(cb)
return cb
def __call__(self, cb):
from malaria.interventions.malaria_challenge import add_challenge_trial
return add_challenge_trial(cb, start_day=self.start_day)
for scale_factor in scale_factor_array
])
return builder
# Setup -------------------------------------------------------------------------------------------
cb = DTKConfigBuilder.from_files(config_filename)
cb.update_params({
'Vector_Species_Names': [],
'Simulation_Duration': 365,
'Demographics_Filenames': ['Malariatherapy_demographics.json']
})
set_climate_constant(cb)
# Add source of infection (challenge bite or forced EIR) ------------------------------------------
add_challenge_trial(cb, start_day=0)
# ---- CUSTOM REPORTS ----
add_patient_report(cb)
if debug:
print(f"DEBUG: config builder created")
# Define analyzers, in this case, just the durations analyzer
# show=False will save plots show=True will save and display plots
analyzers = [DurationsAnalyzer(show=True)]
exp_builder = ''
if force_immunity:
transition_matrix = cb.config['parameters'][
'Parasite_Peak_Density_Probabilities']
scale_factor_array = [2, 5, 10, 100]