Vivarium Interactive

This package provides Simulation, a way to run and inspect a vivarium simulation interactively, for example in a Jupyter notebook.

It is one of the libraries in the vivarium-suite monorepo, maintained by the Institute for Health Metrics and Evaluation’s Simulation Science team.

• Running a Simulation Interactively
  • Setting up a simulation
  • Running the simulation
• Exploring a Simulation in an Interactive Setting
  • What are we looking at?
  • Getting things set up
  • Finding your way around
  • Finding something by name
  • Following a resource’s dependencies
  • Getting the dependencies as objects
  • Observed results
  • Case study #1: population epidemiology
  • Case Study #2: Boids
• Vivarium Interactive Tools
• Simulation
  • Simulation.help()
  • Simulation.setup()
  • Simulation.step()
  • Simulation.take_steps()
  • Simulation.run_for()
  • Simulation.run_until()
  • Simulation.run()
  • Simulation.get_population()
  • Simulation.list_attributes()
  • Simulation.get_attribute_names()
  • Simulation.get_attribute()
  • Simulation.find_resources()
  • Simulation.list_values()
  • Simulation.get_value()
  • Simulation.get_lookup_table()
  • Simulation.get_dependencies()
  • Simulation.print_dependencies()
  • Simulation.list_components()
  • Simulation.get_component()
  • Simulation.get_schedule()
  • Simulation.print_lifecycle_order()
  • Simulation.print_initializer_order()
  • Simulation.register_observation()
  • Simulation.pause_observation()
  • Simulation.get_results()
• Exceptions
• ObservationError