v0.5.1

What's Changed

• Add the citation information for solve_and_save_at by @pnkraemer in #783

Full Changelog: v0.5.0...v0.5.1

v0.5.0

What's Changed

• Condense the directory structure of probdiffeq.impl by @pnkraemer in #764
• Move the Conditional type from util.cond_util to impl._conditional by @pnkraemer in #765
• Delete the changelog because it hasn't been used by @pnkraemer in #766
• Move content of impl.variable to impl.stats by @pnkraemer in #767
• Move the content of util.ibm_util to impl.ssm_util because it is only used there (and not public API) by @pnkraemer in #768
• Move probdiffeq.impl methods around to improve independence by @pnkraemer in #769
• Replace tests.setup with a pytest fixture by @pnkraemer in #770
• Implement a custom JVP for triangularisation for qr(..., mode="r") to remove a hacky conditional by @pnkraemer in #771
• Remove the *.t property from the adaptive state because it contains two time-points, not one by @pnkraemer in #772
• Rename *_right_corner to interpolate/extract_at_t1 to clarify that it implements a special case of extract/interpolate by @pnkraemer in #773
• Make the InterpRes into a dataclass and rename the fields to improve clarity by @pnkraemer in #774
• Delete an unused function by @pnkraemer in #775
• Internals: Make the constructors in ivpsolvers.py more functional by @pnkraemer in #776
• Internals: Stop accessing solver.strategy.extrapolation.num_derivatives inside ivpsolve.py by @pnkraemer in #777
• Internals: stop registering controllers as Pytrees since controllers are parameter-free by @pnkraemer in #778
• Internals: Implement the uncalibrated solver via the calibrated solver with empty calibration by @pnkraemer in #779
• Internal: Delete unused code by @pnkraemer in #780
• Make clip/no-clip an argument to the controllers to reduce code duplication by @pnkraemer in #781
• Clarify methods' namespaces in ivpsolve.py by @pnkraemer in #782

Full Changelog: v0.4.1...v0.5.0

v0.4.1

This release contains a small bug fix regarding probdiffeq's dependencies. See #762 for context.

What's Changed

• Use local imports in backend.ode to avoid diffeqzoo & diffrax dependencies by @pnkraemer in #763

Full Changelog: v0.4.0...v0.4.1

v0.4.0

This release is a slightly bigger deal than the previous ones because it regroups probdiffeq's API and significantly reduces the number of required imports. This should lead to a much more pleasant user experience. This release breaks existing code.

What has changed?

TL;DR: closely related modules have been merged, and some functions have a new name (required by these merges); consult the API docs (https://pnkraemer.github.io/probdiffeq/). See #747 for context. All renamings and reorderings improve the clarity of the code.

Probdiffeq's content/functionality remains the same as before the change, so after updating the imports, all code should run as before. If not, reach out!

What's Changed

• Make the doc-build strict to undo an accidental change from an earlier commit by @pnkraemer in #743
• Move all content of probdiffeq.control to probdiffeq.adaptive by @pnkraemer in #745
• Move the content of probdiffeq.timestep to probdiffeq.ivpsolve because they are always used together by @pnkraemer in #746
• Delete the timestep.py module because it should have been deleted in a previous PR by @pnkraemer in #749
• Move discrete filters to util to separate them from the ODE solver strategies by @pnkraemer in #748
• Regroup solvers.uncalibrated and solvers.calibrated in solvers.solvers because they share a lot of code by @pnkraemer in #750
• Move strategies from package to module since they share most code by @pnkraemer in #751
• Remove the kwargs from jnp.reshape for compatibility with older JAX versions by @pnkraemer in #752
• Move solver-components from package to a single module because we always need one of each by @pnkraemer in #753
• Correct the quickstart-link in the readme by @pnkraemer in #754
• Combine solvers.markov and solvers.solution because they are closely related by @pnkraemer in #755
• Move strategies to components to clarify the solver-construction by @pnkraemer in #756
• Move the content of adaptive to ivpsolve because they are always used together by @pnkraemer in #757
• Combine solvers and components to clarify how to build an ODE solver by @pnkraemer in #758
• Hide markov_rescale_cholesky because it is only used inside calibrate() and should not be user-facing by @pnkraemer in #759
• Add citation information to the readme by @pnkraemer in #761
• Regroup the content of the taylor-subpackage in a taylor-module by @pnkraemer in #760

Full Changelog: v0.3.4...v0.4.0

v0.3.4

This release fixes some issues that arised because dependencies had API changes.
The only user-facing difference is that deprecation warnings have been removed. See the changelog below for information.

What's Changed

• Update the jax.config usage to adhere to the new API and fix the doc-build by @pnkraemer in #741
• Rename the input to jnp.reshape to adhere to the new API by @pnkraemer in #740
• Update the pre-commit hook (and fix deprecations) to modernise the CI by @pnkraemer in #742

Full Changelog: v0.3.3...v0.3.4

v0.3.3

This release mostly affects Probdiffeq's internals. The only user-facing change is that now, the choice of while-loop in the solution routines can be temporarily overwritten. One application is constructing reverse-mode differentiable yet adaptive IVP solvers. Consult the tutorials for an example.

What's Changed

• Merge IVP-solution modules by @pnkraemer in #679
• Remove *.ipynb files from version control by @pnkraemer in #680
• Merge linting and formatting behaviour by @pnkraemer in #681
• Unify the names of benchmark-related commands in the makefile by @pnkraemer in #682
• Include example CI in doc CI by @pnkraemer in #683
• Automate readme and index equality by @pnkraemer in #684
• Implement backend.control_flow.scan by @pnkraemer in #685
• Implement backend.functools.vmap by @pnkraemer in #686
• Implement backend.control_flow.cond by @pnkraemer in #687
• Implement backend.functools.jit by @pnkraemer in #688
• Implement backend.linalg.qr_r by @pnkraemer in #689
• Implement backend.random by @pnkraemer in #690
• Implement backend.linalg.cholesky_lower by @pnkraemer in #691
• Implement backend.numpy factorial by @pnkraemer in #692
• Implement backend.functools.jet by @pnkraemer in #694
• Implement backend.numpy.arange by @pnkraemer in #695
• Implement backend.linalg.{vector, matrix}_norm by @pnkraemer in #693
• Implement backend.numpy.ndim by @pnkraemer in #696
• Implement backend.tree_util by @pnkraemer in #697
• Remove an 'Iterator' type hint by @pnkraemer in #698
• Replace a reference to jax.tree_map with tree_util.tree_map by @pnkraemer in #700
• Implement backend.numpy.{minimum, maximum} by @pnkraemer in #699
• Implement backend.numpy.{where, abs} by @pnkraemer in #701
• Implement backend.linalg.solve_triangular by @pnkraemer in #702
• Implement backend.numpy.{finfo_eps, diff} by @pnkraemer in #703
• Implement backend.numpy.{asarray, squeeze, squeeze_along_axis} by @pnkraemer in #704
• Implement backend.linalg.cholesky_solve and rename cholesky_lower to cholesky_factor by @pnkraemer in #705
• Implement backend.numpy.{atleast_1d, concatenate} by @pnkraemer in #706
• Implement backend.numpy.{ones_like, inf, sqrt} by @pnkraemer in #708
• Implement backend.typing.Array by @pnkraemer in #707
• Implement backend.numpy.{zeros_like, eye} by @pnkraemer in #709
• Replace all remaining jnp.* calls with backend.numpy.* calls by @pnkraemer in #710
• Remove unused imports from probdiffeq.taylor subpackage by @pnkraemer in #711
• Implement backend.functools.linearize by @pnkraemer in #712
• Implement backend numpy block diag by @pnkraemer in #713
• Implement backend.functools.jvp by @pnkraemer in #714
• Implement backend.containers.dataclass by @pnkraemer in #715
• Implement backend.abc by @pnkraemer in #716
• Implement backend.itertools by @pnkraemer in #717
• Implement remaining types in backend.typing by @pnkraemer in #718
• Implement backend.warnings by @pnkraemer in #720
• Implement backend.special by @pnkraemer in #719
• Implement backend.ode by @pnkraemer in #721
• Rename ode.odeint to ode.odeint_and_save_at by @pnkraemer in #722
• Implement backend.stats and backend.functools.jacrev by @pnkraemer in #723
• Change signature of ode.odeint_and_save_at to be consistent with the rest of probdiffeq by @pnkraemer in #724
• Change 'from jax.config import config' to 'import jax.config' by @pnkraemer in #725
• Remove remaining 'import jax's by @pnkraemer in #727
• Implement backend.ode.odeint_dense by @pnkraemer in #726
• Implement backend.warnings.filterwarnings by @pnkraemer in #729
• Implement backend.ode.ivp_{logistic, lotka_volterra, ...} by @pnkraemer in #728
• Implement backend.config by @pnkraemer in #730
• Reorder the quickstart-section of the docs by @pnkraemer in #731
• Change tutorial format from .md to .py by @pnkraemer in #732
• Delete 'smoothing' example notebook by @pnkraemer in #735
• Implement backend.control_flow.context_overwrite_{while_loop, scan} and create a tutorial for using it by @pnkraemer in #736
• Remove yield-values from overwrite-loop contexts by @pnkraemer in #737
• Warn about the experimental nature of Probdiffeq in its readme, and explain versioning by @pnkraemer in #738

Full Changelog: v0.3.2...v0.3.3

v0.3.2

What's Changed

• Include IVP solution in HIRES benchmark-plot by @pnkraemer in #670
• Update other plots in benchmarks to be consistent with Hires by @pnkraemer in #671
• Split notebook utilities in "style" and "size"-type functions by @pnkraemer in #672
• Revise the linter toolchain by @pnkraemer in #673
• Switch updating time stamp to update with time stamp after predicting by @lahramon in #678

New Contributors

• @lahramon made their first contribution in #678

Full Changelog: v0.3.1...v0.3.2

v0.3.1

What's Changed

• Fix Cholesky-utility-gradients for zero covariances by @pnkraemer in #669

Full Changelog: v0.3.0...v0.3.1

v0.3.0

What's Changed

• Fix links in readme by @pnkraemer in #659
• Bundled all packaging in pyproject.toml by @pnkraemer in #661
• Taylor mode distinction by @pnkraemer in #663
• Fix a typo by @pnkraemer in #664
• Taylor-series benchmark on a neural ODE by @pnkraemer in #665
• Rename taylor_mode() to taylor_mode_scan() and move to toplevel by @pnkraemer in #666

Full Changelog: v0.2.2...v0.3.0

v0.2.2

The last PyPi-publishing workflow failed unexpectedly, so let's try it again.

What's Changed

• Removed deprecated key from setup.cfg by @pnkraemer in #658

Full Changelog: v0.2.1...v0.2.2