uhammer 0.3.1

Convenience layer for emcee sampler

uhammer

Convenience layer on top of emcee package.

Credits

This package was created with Cookiecutter and the uweschmitt/cookiecutter-pypackage project template.

History

0.3.1 (2019-05-22)

• removed mpipool from installation dependencies, else installation always needs a working MPI setup. Still mpirpool is needed when run in parallel MPI mode.

0.3.0 (2019-05-22)

• sample functions now return two arrays: the samples and the related log probabilities

• Parameters.add now has an optional argument for providing a starting value.

• load_samples function allows extracting samples from a persisted sampler file.

• Replaced capture_output argument of sample and continue_sampling by two arguments show_output and output_prefix.

• Fixed bug in output recording in continue_sampling function.

• Use mpipool librariy now + added test for mpi based parallel sampling.

0.2.13 (2019-05-15)

• fix persisting pickler error in parallel mode

0.2.12 (2019-05-02)

• minor tweaks for mpi

• fix for emcee 3 dev version

0.2.11 (2019-04-30)

• shutdown mpi pool in case a worker throws an exception, before this fix mpirun would hang.

• fix handling of capture output file names when running with mpi

0.2.10 (2019-04-19)

• fix race condition when removing marker file

• deactivate unnecessary warnings about missing mpi4py

0.2.9 (2019-04-16)

• Don’t show progressbar when run on euler node

• Works with Python 3.7

0.2.8 (2019-04-12)

• Fix to work with dev version of emcee 3

0.2.7 (2019-03-20)

• Fix issue with capuring output in parallel mode

• Stop progress bar in case of unhandled exception

0.2.6 (2019-03-20)

• Fix dependencies for Python 3.7 in setup.py

0.2.5 (2019-03-20)

• Fix package lookup in requirements_dev.txt

• Fix error in error handling when output redirection fails.

0.2.4 (2018-10-29)

• fix ordering of sampler output rows.

0.2.3 (2018-10-24)

• check OMP_NUM_THREADS to warn of possible over subscription.

• better pickling support for posterior function.

0.2.2 (2018-10-11)

• Fix detection if uhammer runs on full node on euler.

• Dont show statusbar if direct write to fid 1 is not possible.

• Supress some unappropriate error messages from MPI, even if uhammer is not run using mpirun.

• Fix ip check to detect if uhammer runs on euler.

0.2.1 (2018-09-28)

• Fix of regression due to implementation of Python 2 support.

0.2.0 (2018-09-28)

• Introduced Python 2 support.

0.1.0 (2018-08-23)

• Initial version.