emcee

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updates:
- [github.com/pre-commit/pre-commit-hooks: v4.5.0 → v4.6.0](pre-commit/pre-commit-hooks@v4.5.0...v4.6.0)

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What's Changed

• Handling updated kstest interface in scipy 1.10 by @dfm in https://github.com/dfm/emcee/pull/454

Full Changelog: https://github.com/dfm/emcee/compare/v3.1.3...v3.1.4

What's Changed

• Handling updated kstest interface in scipy 1.10 by @dfm in https://github.com/dfm/emcee/pull/454

Full Changelog: https://github.com/dfm/emcee/compare/v3.1.3...v3.1.4rc1

What's Changed

• Update link to Goodman & Weare 2010 by @covertg in #432
• Pass on random generator to KDE resample method by @hendriko373 in #436
• Fix longdouble tests by seeding np.random by @dfm in #439

New Contributors

• @covertg made their first contribution in #432
• @hendriko373 made their first contribution in #436

Full Changelog: v3.1.2...v3.1.3

What's Changed

• add GitHub URL for PyPi by @andriyor in https://github.com/dfm/emcee/pull/419
• Make the sample state indexable by @dfm in https://github.com/dfm/emcee/pull/425
• Remove NumPy from SETUP_REQUIRES by @BastianZim in https://github.com/dfm/emcee/pull/427

New Contributors

• @andriyor made their first contribution in https://github.com/dfm/emcee/pull/419
• @BastianZim made their first contribution in https://github.com/dfm/emcee/pull/427

Full Changelog: https://github.com/dfm/emcee/compare/v3.1.1...v3.1.2

3.1.1 (2021-08-23)

• Added support for a progress bar description #401

Added functionality to give a description in the progress bar (#401)

* Update pbar.py

* Update ensemble.py

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* Update ensemble.py

* Update pbar.py

* Update ensemble.py

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

• Added preliminary support for named parameters #386
• Improved handling of blob dtypes #363
• Fixed various small bugs and documentation issues

A release candidate for v3.1.0

• Added tutorial for moves interface
• Added information about contributions to documentation
• Improved documentation for installation and testing
• Fixed dtype issues and instability in linear dependence test
• Final release for JOSS submission

• Added support for long double dtypes
• Prepared manuscript to submit to JOSS
• Improved packaging and release infrastructure
• Fixed bug in initial linear dependence test

• Added progress bars using tqdm.
• Added HDF5 backend using h5py.
• Added new Move interface for more flexible specification of proposals.
• Improved autocorrelation time estimation algorithm.
• Switched documentation to using Jupyter notebooks for tutorials.
• More details can be found on the docs: https://emcee.readthedocs.io/en/v3.0.0/user/upgrade.

A release candidate for the refactored emcee version 3.0.

• Improved autocorrelation time computation.

• Numpy compatibility issues.

• Fixed deprecated integer division behavior in PTSampler.

• Removing dependence on acor extension.

• Added arguments to PTSampler function.

• Added automatic load-balancing for MPI runs.

• Added custom load-balancing for MPI and multiprocessing.

• New default multiprocessing pool that supports ^C.

• Re-licensed under the MIT license!

• Clearer less verbose documentation.

• Added checks for parameters becoming infinite or NaN.

• Added checks for log-probability becoming NaN.

• Improved parallelization and various other tweaks in PTSampler.

• Added a parallel tempering sampler PTSampler.

• Added instructions and utilities for using emcee with MPI.

• Added flatlnprobability property to the EnsembleSampler object to be consistent with the flatchain property.

• Updated document for publication in PASP.

• Various bug fixes.

• Another bug fix related to metadata blobs: the shape of the final blobs object was incorrect and all of the entries would generally be identical because we needed to copy the list that was appended at each step. Thanks goes to Jacqueline Chen (MIT) for catching this problem.

• Fixed bug related to metadata blobs. The sample function was yielding the blobs object even when it wasn't expected.

• Allow the lnprobfn to return arbitrary "blobs" of data as well as the log-probability.

• Python 3 compatible (thanks Alex Conley)!

• Various speed ups and clean ups in the core code base.

• New documentation with better examples and more discussion.

• Fixed transpose bug in the usage of acor in EnsembleSampler.

• Initial release.