Markov chain Monte Carlo sampling - ChangeLog

Unreleased changes

0.3.0

• New shorter example/test for dating trees.
• noData allows running a chain without likelihood function.
• Give proposal parameters PName, PDescription, and PWeight newtype wrappers.
• Give Tune a data type.
• Allow periodical cleansing of state (Cleaner).
• Add description string to proposals, so that they can be identified in an easier way.
• Add simplices and proposals on simplices.
• slideUniform renamed to slideUniformSymmetric.
• Merge tools into internal.
• Do not export internal modules.

0.2.4

• Change order of arguments for proposals.
• 'slideStem' was renamed to 'slideBranch'.
• Change ProposalSimple from newtype to type.
• Contravariant instances of parameter and batch monitors. Use (>$<) instead of (@.) and (@#).
• Add gammaDirichlet prior for partitioned dating analyses.

0.2.3

• Contrary proposals.
• Change how monitors are lifted (use normal function, not a lens).
• Priors.
• Remove concurrent monitors (was slow).
• Improve MCMC sampler output.

0.2.2

• Move away from hpack.

0.2.1

• Consistently use ByteString instead of Text.
• Verbosity levels.
• Improved handling of proposals, moves, and monitors.
• Bactrian moves.
• Many small changes.

0.1.3

Many changes; notably it is now possible to continue a Markov chain run.