numcont

adapters.numcont

Self-contained AUTO-07p (numcont) backend adapter for SimulationExperiment.

This adapter does NOT depend on any external numcont package. It uses the auto-07p Python bindings directly (auto.run, auto.sv, auto.loadbd, auto.merge) and the Mako template at tvbo/templates/numcont/tvbo-auto7p.py.mako to emit the model .f90 file consumed by AUTO.

Requires the AUTO_DIR environment variable to point at an installed auto-07p tree (validated via :func:tvbo.utils.auto.check_auto_dir).

Classes

Name	Description
NumContAdapter	Adapter for bifurcation analysis via AUTO-07p (no external deps).

NumContAdapter

adapters.numcont.NumContAdapter(experiment)

Adapter for bifurcation analysis via AUTO-07p (no external deps).

Methods

Name	Description
cleanup	Remove the temporary working directory of a NumCont result.
render_code	Render the AUTO-07p Fortran (.f90) model source as a string.
run	Run AUTO-07p continuation for each continuation in the experiment.

cleanup

adapters.numcont.NumContAdapter.cleanup(result)

Remove the temporary working directory of a NumCont result.

render_code

adapters.numcont.NumContAdapter.render_code(
    model=None,
    continuation=None,
    **kwargs,
)

Render the AUTO-07p Fortran (.f90) model source as a string.

run

adapters.numcont.NumContAdapter.run(**kwargs)

Run AUTO-07p continuation for each continuation in the experiment.