v1.1.0

v1.1.0

Settings

• Scott County setting now accurately reflects the real-world setting in the time period from 2010-2020

Parameters

• Distributions defined in classes and can take a variable number of arguments
• Classes can now be used as validation items for other parameters
• See params app for parameter definitions and documentation

Partnering

• Agents can now attempt to partner with only the agents in their network component with params.partnership.network.same_component.prob

Features

• Parameters can now be scaled based on the timestep in the model with params.timeline_scaling
• HIV interaction and assignment can be set to start at any time step
• Reports can now aggregate by customizable classes with params.outputs.classes
• Population can be saved to files and also uploaded from files and re-used across runs
• Syringe services program may now be implemented flexibly in time
• Partner tracing now allows user-defined probabilities for tracing separately from the probability of PrEP initiation, as well as user-defined tracing period length
• prints_components report added fields for random trials. Now prints component status for no intervention, intervention components, and intervention components with no eligible agents status.
• the agent_zero criterion can now be defined based on number of partnerships that share a user-defined interaction type

Batch Submission

• --savepop and --poppath added as arguments to run_titan.py to respectively allow saving of a population after creation (but before run), or loading a saved population to run (the equivalent flags in subTitan.sh are -p and -P)

Technical Notes

• population added as an attribute of agent - lightly used currently
• Output writing abstracted/reorganized to make common report building steps re-usable
• Distributions can be any numpy distribution (just add to params.classes.distributions) or a distribution in distributions.py
• Added interaction type to edge list
• Renamed initialize_graph to trim_graph