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CHANGELOG.md

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Changelog for CriticalTransitions.jl

v0.2.0

Compatibility upgrade to DynamicalSystems v3

BREAKING changes

  • changed StochSystem.dim to StochSystem.u
  • changed keyword arguments in basins and bisect_to_edge functions
  • removed tocds function (replaced by CoupledODEs)
  • renamed functions:
    • mam -> min_action_method
    • gmam -> geometric_min_action_method
    • FitzHughNagumo -> fitzhugh_nagumo
    • FitzHughNagumo! -> fitzhugh_nagumo!

New functions

  • stochastic_bridge
  • CoupledODEs(sys::StochSystem, ...)
  • StochSystem(ode::CoupledODEs, ...)

First prototype of a RateSystem.

v0.1.1

Feature freeze before v0.2.0

This version is compatible with v2 of DynamicalSystems.jl (specifically DynamicalSystems v2.3.2). The next release (v0.2.0) will include some breaking changes in the system type definitions and upgrade its dependencies to DynamicalSystems v3.

New functionality since previous release

  • Large deviation theory: fw_action, om_action, geometric_action, action, mam and gmam
  • Langevin MCMC sampling in pathspace: langevinmcmc
  • Edge tracking algorithm: edgetracking
  • Basins of attraction: basins, basinboundary
  • additional convenience functions added

New predefined systems

  • Ocean models: stommel, cessi, rooth_smooth
  • Population dynamics: originaltruscottbrindley, modifiedtruscottbrindley, rivals

Tested main functions on the FitzHugh-Nagumo model by running test/functest.jl.

v0.1.0

First release! 🎉

Tested for out-of-place system function FitzHughNagumo with WhiteGauss noise

Current functionality

Introduced the StochSystem type with the following methods:

  • equilib - get equilibrium starting from initial condition
  • fixedpoints - get fixedpoints of system as in DynamicalSystems.jl
  • relax - simulate deterministic dynamics from initial condition
  • simulate - simulate stochastic dynamics from initial condition
  • transition - simulate transition sample from state 1 to state 2
  • transitions - simulate an ensemble of transition samples from state 1 to 2
  • tocds - convert StochSystem to ContinuousDynamicalSystem of DynamicalSystems.jl

Added convenience functions make_jld2, sys_string, sys_info, idfunc, idfunc!.

Systems

  • FitzHughNagumo, FitzHughNagumo!