PySINDy Files

It has been nearly three years since the last release of pysindy. There were a variety of typing holes or incompatibility with scikit-learn that required breaking backwards compatibility to fix. Moreover, much documentation was not testable. This meant that docs were frequently broken on backwards-incompatible changes.

In the interim, the only solution was to use the master branch and keep up to date with the repo changes. Now, however, there's a place to archive old example notebooks, and enough of the necessary incompatible changes are made. So it's possible to maintain a 2.x branch and continue to improve documentation.

TL;DR: Several new optimizers, feature library & differentiation improvements, smaller call signatures for pysindy model, simpler constraints.

What's Changed

• PyProject-centric Build System with Setuptools in https://github.com/dynamicslab/pysindy/pull/332
• Save DifferentiationMethod smoothed values in https://github.com/dynamicslab/pysindy/pull/244
• Simpler inputs in https://github.com/dynamicslab/pysindy/pull/362
• Implicit multiple trajectories in https://github.com/dynamicslab/pysindy/pull/376
• Move unbias argument from SINDy.fit() to BaseOptimizer in https://github.com/dynamicslab/pysindy/pull/380
• BUG Fixed coef_ for sparse_indices in https://github.com/dynamicslab/pysindy/pull/385
• CLN: Remove fit_intercept in optimizers in https://github.com/dynamicslab/pysindy/pull/388
• Allow STLSQ to only sparsify/regularize a subset of indices in https://github.com/dynamicslab/pysindy/pull/408
• feat(optimizers): Enable pickling of MIOSR optimizer in https://github.com/dynamicslab/pysindy/pull/458
• Make AxesArray handle slicing correctly in https://github.com/dynamicslab/pysindy/pull/451
• Bayesian SINDy in https://github.com/dynamicslab/pysindy/pull/440
• Make TrappingSR3 a subclass of ConstrainedSR3 in https://github.com/dynamicslab/pysindy/pull/435
• Differentiation of Multidimensional Arrays in SINDyDerivative in https://github.com/dynamicslab/pysindy/pull/476
• BUG: [#414] remove user warning suppression in https://github.com/dynamicslab/pysindy/pull/528
• CLN(pde_library): remove unused constructor argument in https://github.com/dynamicslab/pysindy/pull/537
• ENH: [#455] Make IdentityLibrary a subclass of Polynomial Library in https://github.com/dynamicslab/pysindy/pull/533
• Trapping, extended to (a) enstrophy, and (b) local trapping in https://github.com/dynamicslab/pysindy/pull/536
• ENH: [#448] print flush in https://github.com/dynamicslab/pysindy/pull/527
• CI: Add raw build and import step (should fail) in https://github.com/dynamicslab/pysindy/pull/543
• BUG [#394] fix prox and regularization in https://github.com/dynamicslab/pysindy/pull/544
• ENH(sr3): refactor threshold and thresholder property in https://github.com/dynamicslab/pysindy/pull/548
• Fix ssr in https://github.com/dynamicslab/pysindy/pull/559
• Extract common functionality from SINDy to _BaseSINDy in https://github.com/dynamicslab/pysindy/pull/562
• Pickle SR3 and subordinate classes in https://github.com/dynamicslab/pysindy/pull/586
• BLD: Limit numpy to <2.0 in https://github.com/dynamicslab/pysindy/pull/596
• Fix default n_subset based on replace flag (bootstrap logic) in https://github.com/dynamicslab/pysindy/pull/618
• Make FROLS.history_ as a list in https://github.com/dynamicslab/pysindy/pull/619
• Issue 386 Fix: Remove t_default and require t passed explicitly in SINDY.fit() and SINDY.score() in https://github.com/dynamicslab/pysindy/pull/628
• Move feature_names from SINDy.init() to SINDy.fit() in https://github.com/dynamicslab/pysindy/pull/635

New Contributors

• @ludgerpaehler made their first contribution in https://github.com/dynamicslab/pysindy/pull/332
• @yb6599 made their first contribution in https://github.com/dynamicslab/pysindy/pull/371
• @mikkelbue made their first contribution in https://github.com/dynamicslab/pysindy/pull/440
• @himkwtn made their first contribution in https://github.com/dynamicslab/pysindy/pull/528
• @nehalsinghmangat made their first contribution in https://github.com/dynamicslab/pysindy/pull/559
• @s-kat0 made their first contribution in https://github.com/dynamicslab/pysindy/pull/618

Full Changelog: https://github.com/dynamicslab/pysindy/compare/v1.7.5...v2.0.0