What’s New¶
v2.19.1.1 (25. Oct 2019)¶
- Update Stan source to v2.19.1 (release notes)
- Fix order of per-chain values returned by Fit
summary
(GH646) - Inverse mass matrix can be provided (GH505)
v2.19.0.0 (31. Mar 2019)¶
- Update Stan source to v2.19.0 (release notes)
- Stan 2.19 requires a compiler which supports C++14. For example, if you use gcc as your compiler you will need to use gcc version 4.9.3 or higher.
- New sampler parameters for VB mode:
log_p__
andlog_g__
values are added to sample file (csv) if defined withsample_file
. - Reminder: Python 2 is not supported after 2019-12-31. PyStan will phase out testing of Python 2 after this point.
v2.18.1.0 (22. Dec 2018)¶
- Update Stan source to v2.18.1 (release notes)
- Performance improvements for extract method.
v2.18.0.0 (16. Aug 2018)¶
- Update Stan source to v2.18.0 (release notes)
- Fit method
to_dataframe
organizes draws into a Pandas DataFrame. Only works if Pandas is installed. Thanks to Liam Brannigan and Ari Hartikainen. - Improved effective sample size calculation. Thanks to Aki Vehtari.
- Implemented
pystan.diagnostics
. Thanks to @jjramsey. - Several minor bug fixes.
v2.17.1.0 (16. Jan 2018)¶
- Update Stan source to v2.17.1 (release notes) (bugfix release)
- Remove deprecation warnings (Thanks to Alexander Rudiuk)
- Drop testing of Python 3.4.
v2.17.0.0 (6. Oct 2017)¶
- Update Stan source to v2.17.0 (release notes),
- Added
pystan.stansummary
function. Patch by @ahartikainen. - Marked
pystan.stan
as deprecated. It will be removed in version 3.0. Please compile and use a Stan program as two separate steps. - Reminder: Consider using Python 3.5 or higher. In a future release, Python 3.4 wheels will no longer be built.
- Reminder: Stan v2.16.0 is the final release which will not require a C++11 compatible compiler. Future releases will require a C++11 compatible compiler. (This does not affect most users.)
v2.16.0.0 (22. June 2017)¶
- Update Stan source to v2.16.0 (release notes),
- Ari Hartikainen (Aalto University) @ahartikainen joins the Stan development team. 🎉
- Added
pystan.lookup
(contributed by Marco Inacio, @randommm) - NOTE: Stan v2.16.0 is the final release which will not require a C++11 compatible compiler. Future releases will require a C+11 compatible compiler. The vast majority of users have a compatible compiler.
v2.15.0.1 (2. May 2017)¶
- Python 2.7 compatibility fix (#332). Thanks to @monga for the report.
v2.15.0.0 (21. Apr 2017)¶
- Update Stan source to v2.15.0 (release notes)
- Allow UTF-8 comments in Stan Program code. Thanks to @ahartikainen
- Expose constrain_pars method, thanks to Lars Mescheder.
V2.14.0.0 (1. Jan 2017)¶
- Update Stan source to v2.14.0 (release notes), includes important fix to the default sampling algorithm (NUTS). All users are encouraged to upgrade.
- Several documentation and minor bug fixes (thanks @ahartikainen, @jrings, @nesanders)
- New OpenPGP signing key for use with PyPI. Key fingerprint is C3542448245BEC68F43070E4CCB669D9761F0CAC.
V2.12.0.0 (15. Sept 2016)¶
- Update Stan source to v2.12.0 (release notes)
- #239 Fix bug in array indexing (thanks @stephen-hoover)
- #254 FIx off-by-one error in estimated sample size calculation
V2.11.0.0 (28. July 2016)¶
- Update Stan source to v2.11.0 (release notes)
V2.10.0.0 (18. July 2016)¶
- Update Stan source to v2.10.0 (release notes)
- Sampling in
Fixed_param
mode now works. Thanks to @luac for the fix and @axch for the original report. - Detailed installation instructions from @chendaniely added to the documentation.
v2.9.0.0 (7. Jan 2016)¶
- Update Stan source to v2.9.0 (release notes)
- Bugs fixed in _chains.pyx and model.py (thanks to @stephen-hoover, Paul Kernfeld)
v2.8.0.2 (6. Nov 2015)¶
- Cython 0.22 or higher requirement included on PyPI
v2.8.0.1 (5. Nov 2015)¶
- Python 3.5 support added
- Cython 0.22 or higher now required
- Compiler optimization (
-O2
) turned on for model compilation. This should increase sampling speed. - Significant bug fixes (pickling, pars keyword)
v2.8.0.0 (1. Oct 2015)¶
- Update Stan source to v2.8.0 (release notes)
v2.7.0.1 (22. August 2015)¶
- Minor Cython 0.23.1 compatibility fixes
- Bug preventing mean_pars from being recorded
v2.7.0.0 (21. July 2015)¶
- Update Stan source to v2.7.0 (release notes)
v2.6.3.0 (21. Mar 2015)¶
- Update Stan source to v2.6.3 (release notes).
v2.6.0.0 (9. Feb 2015)¶
- Update Stan source to v2.6.0 (release notes).
v2.5.0.2 (30. Jan 2015)¶
- Fix bug in rdump (for >1 dimensional arrays)
v2.5.0.1 (14. Nov 2014)¶
- Support for pickling fit objects (experimental)
- Fix bug that occurs when printing fit summary
v2.5.0.0 (21. Oct 2014)¶
- Update Stan source to v2.5.0
- Fix several significant bugs in the
extract
method
v2.4.0.3 (9. Sept 2014)¶
- Performance improvements for the printed summary of a fit.
v2.4.0.2 (6. Sept 2014)¶
- Performance improvements for the
extract
method (5-10 times faster) - Performance improvements for the printed summary of a fit. Printing
a summary of a model with more than a hundred parameters is not recommended.
Consider using
extract
and calculating summary statistics for the parameters of interest.
v2.4.0.1 (31. July 2014)¶
- Sets LBFGS as default optimizer.
- Adds preliminary support for Python binary wheels on OS X and Windows.
- Fixes bug in edge case in new summary code.
v2.4.0.0 (26. July 2014)¶
- Stan 2.4 (LBFGS optimizer added, Nesterov removed)
- Improve display of fit summaries
v2.3.0.0 (26. June 2014)¶
- Stan 2.3 (includes user-defined functions, among other improvements).
- Optimizing returns a vector (array) by default instead of a dictionary.
v2.2.0.1 (30. April 2014)¶
- Add support for reading Stan’s R dump files.
- Add support for specifying parameters of interest in
stan
. - Add Windows installation instructions. Thanks to @patricksnape.
- Lighten source distribution.
v2.2.0.0 (16. February 2014)¶
- Updates Stan to v2.2.0.
v2.1.0.1 (27. January 2014)¶
- Implement model name obfuscation. Thanks to @karnold
- Improve documentation of StanFit objects
v2.1.0.0 (26. December 2013)¶
- Updates Stan code to v2.1.0.
v2.0.1.3 (18. December 2013)¶
- Sampling is parallel by default.
grad_log_prob
method of fit objects is available.
v2.0.1.2 (1. December 2013)¶
- Improves setuptools support.
- Allows sampling chains in parallel using multiprocessing. See the
n_jobs
parameter forstan()
and thesampling
method. - Allows users to specify initial values for chains.
v2.0.1.1 (18. November 2013)¶
- Clean up random_seed handling (Stephan Hoyer).
- Add fit methods get_seed, get_inits, and get_stancode.
v2.0.1.0 (24. October 2013)¶
- Updated to Stan 2.0.1.
- Specifying
sample_file
now works as expected.
v2.0.0.1 (23. October 2013)¶
- Stan
array
parameters are now handled correctly. - Ancillary methods added to fit instances.
- Fixed bug that caused parameters in
control
dict to be ignored.
v2.0.0.0 (21. October 2013)¶
- Stan source updated to to 2.0.0.
- PyStan version now mirrors Stan version.
- Rudimentary plot and traceplot methods have been added to fit instances.
- Warmup and sampling progress now visible.
v.0.2.2 (28. September 2013)¶
log_prob
method available from StanFit instances.- Estimated sample size and Rhat included in summary.
v.0.2.1 (17. September 2013)¶
StanModel
instances can now be pickled.- Adds basic support for saving output to
sample_file
.
v.0.2.0 (25. August 2013)¶
optimizing
method working for scalar, vector, and matrix parameters- stanfit objects now have
summary
and__str__
methods à la RStan - stan source updated to commit cc82d51d492d26f754fd56efe22a99191c80217b (July 26, 2013)
- IPython-relevant bug fixes
v.0.1.1 (19. July 2013)¶
- Support for Python 2.7 and Python 3.3
stan
andstanc
working with common arguments