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README.md

FACS: Flu And Coronavirus Simulator

Full documentation can be found at: http://facs.readthedocs.io

How to run the code

To run a simple simulation of a basic test dataset, type: python3 run.py --location=test --transition_scenario=extend-lockdown --transition_mode=1 --output_dir=.

To run a simulation of the Borough of Brent, type: python3 run.py --location=brent --transition_scenario=extend-lockdown --transition_mode=1 --output_dir=.

Outputs are written as CSV files in the output_dir. E.g. for the test run you will get: covid_out_infections.csv test-extend-lockdown-62.csv

There is a hardcoded lockdown in run.py which is representative for the UK. This can be disabled by selecting the transition scenario "no-measures".

We also included a simple plotting script. This can be called e.g. as follows: python3 PlotSEIR.py test-extend-lockdown-62.csv test

Advanced usage

Running with a specific data directory

Flacs can be run with a different input data directory as follows: python3 run.py --location=brent --transition_scenario=extend-lockdown --transition_mode=1 --output_dir=. --data_dir=/home/derek/covid19-postprocess/flacs_input_private

Performing quick tests

Quick tests can be triggered with the '-q' flag. This sets the house ratio to 100 (default is 2), which means that households will be less well distributed. However, as a number of calculations are performed on the house level (not the household level), this setting speeds up the code by up to an order of magnitude. python3 run.py -q --location=brent --transition_scenario=extend-lockdown --transition_mode=1 --output_dir=.

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