Code for A multi-layer network model for studying the impact of non-pharmaceutical interventions implemented in response to COVID-19.

The Makefile can be used on Linux systems to compile corvid19. The source files are:

epimodel.cpp - model implementation corvid.cpp - contains main() params.cpp - simulation constants epimodelparameters.cpp - code to parse config files Network.cpp - basic function of the commute network.
Utility.cpp - commute network generation.

A set of 3 data files are used to specify a population for Corvid. The file names consist of a prefix (i.e., "Beijing", "Guangzhou") followed by a suffix.

*-tracts.dat - Tract populations and locations.

*-wf.dat - Tract-to-tract workerflow.The columns in this space-delimited file are: home city code, home city code, home tract code, work city code, work city code, work tract code, and number of workers.

*-employment.dat - The number of employed working-age adults and the total number of working-age adults. The columns in this space-delimited file are: city code, city code, tract code, number of employed individuals, and the total number of working-age individuals(19-64 year olds).

A text file with one parameter per line is supplied as the command-line argument for Corvid to configure a simulation run (e.g., "./corvid config-file"， “sh run-Beijing.sh").

Non-pharmaceutical intervention related parameters:

*vaccinationfraction : proportion of citizens vaccinated

*vaccinedata : including the vaccine id, vaccine efficacy and administration policies for each vaccine.

*communitycontactreduction : proportion of communities carrying out close-off management

*communitycontactreductiondays : duration of close-off management

*PTRestriction : degree of public transportation restriction (between 0 and 1)

*PTRestrictiondays : duration of public transportation restriction

*mask : proportion of citizens wearing mask

*maskdays : duration of wearing mask

*schoolclosurepolicy : types of school closure policy (by tracks/all)

*schoolclosuredays : duration of school closure

*workfromhome : proportion of workers work from home

*workfromhomedays : duration of work from home

We provide two methods for running.

1. ./corvid config- , where config is the name of configuration file

2. sh run-Beijing.sh, run multiple times with varying parameters

*Summary- outputs the settings used for the simulation, final attack rates, vaccines used, daily totals of symptomatic individuals.

*Log - The number of symptomatics and infected people per tract each day (prevalence and cumulative).

*Tracts - a unique numeric tract id and the populations of the tracts by age. Also contains the number of people who work in this tract (including residents).