JUNE 1.2.0

Release highlights

• Allowing for venues to be open only between particular hours of the day
• Contact tracker added as an input to the Simulator
• New optional seeding routine to allow for household level clustered seeding
• New formatting and CI/CD checks

Minor changes

• Epidemiology and infection selectors and seeding adjusted for cleaner implementation
• Vaccine implementation moved to Epidemiology from being a policy to allow for greater flexibility
• Quickstart notebook updated to reflect new changes

JUNE 1.1.2: School reopening paper with bug fix

This version was used to produce the publication "Vaccinations or Non-Pharmaceutical Interventions: Safe Reopening of Schools in England"

https://www.medrxiv.org/content/10.1101/2021.01.27.21250611v1.full.pdf

Bug fix:

• Adding yaml import line to immunity_setter.py to allow comorbidities to be passed

JUNE 1.1.1: School reopening paper

This version was used to produce the publication "Vaccinations or Non-Pharmaceutical Interventions: Safe Reopening of Schools in England"

https://www.medrxiv.org/content/10.1101/2021.01.27.21250611v1.full.pdf

JUNE 1.1

June 1.1

This version is not backwards compatible with 1.0, which means that old config files and created Worlds won't work.

Changelog

• Epidemiology related functionality is now all contained in the Epidemiology class and corresponding source folders.
• New Immunity class tracks the immunity related information of an agent, such as their susceptibility to infection.
• People can now be vaccinated with lots of customizable parameters.
• People can now be reinfected with virus variants, and have different susceptibilities to each of them.
• Added functionality to easily initialize the population with a certain vaccination rate and pre-infection status.
• New domain decomposition boosts the speed of the code when running in HPC clusters.

Documentation

The old documentation has been removed to avoid confusion as it is not up-to-date with the new version of the code. We plan to release the new docs soon.

Legacy code removed

• Box mode no longer supported.

JUNE 1.0.6

JUNE release after peer reviewing.

First June release

This is the version of June that was used to produce all the plots shown in https://www.medrxiv.org/content/10.1101/2020.12.15.20248246v2
The code and the model are not yet peer-reviewed.