* Bump minor version to 0.37.0

* Accumulators, stage 1 (#885)

* Release 0.36

* AbstractPPL 0.11 + change prefixing behaviour (#830)

* AbstractPPL 0.11; change prefixing behaviour

* Use DynamicPPL.prefix rather than overloading

* Remove VarInfo(VarInfo, params) (#870)

* Unify `{untyped,typed}_{vector_,}varinfo` constructor functions (#879)

* Unify {Untyped,Typed}{Vector,}VarInfo constructors

* Update invocations

* NTVarInfo

* Fix tests

* More fixes

* Fixes

* Fixes

* Fixes

* Use lowercase functions, don't deprecate VarInfo

* Rewrite VarInfo docstring

* Fix methods

* Fix methods (really)

* Draft of accumulators

* Fix some variable names

* Fix pointwise_logdensities, gut tilde_observe, remove resetlogp!!

* Map rather than broadcast

Co-authored-by: Tor Erlend Fjelde <[email protected]>

* Start documenting accumulators

* Use Val{symbols} instead of AccTypes to index

* More documentation for accumulators

* Link varinfo by default in AD testing utilities; make test suite run on linked varinfos (#890)

* Link VarInfo by default

* Tweak interface

* Fix tests

* Fix interface so that callers can inspect results

* Document

* Fix tests

* Fix changelog

* Test linked varinfos

Closes #891

* Fix docstring + use AbstractFloat

* Fix resetlogp!! and type stability for accumulators

* Fix type rigidity of LogProbs and NumProduce

* Fix uses of getlogp and other assorted issues

* setaccs!! nicer interface and logdensity function fixes

* Revert back to calling the macro @addlogprob!

* Remove a dead test

* Clarify a comment

* Implement split/combine for PointwiseLogdensityAccumulator

* Switch ThreadSafeVarInfo.accs_by_thread to be a tuple

* Fix `condition` and `fix` in submodels (#892)

* Fix conditioning in submodels

* Simplify contextual_isassumption

* Add documentation

* Fix some tests

* Add tests; fix a bunch of nested submodel issues

* Fix fix as well

* Fix doctests

* Add unit tests for new functions

* Add changelog entry

* Update changelog

Co-authored-by: Hong Ge <[email protected]>

* Finish docs

* Add a test for conditioning submodel via arguments

* Clean new tests up a bit

* Fix for VarNames with non-identity lenses

* Apply suggestions from code review

Co-authored-by: Markus Hauru <[email protected]>

* Apply suggestions from code review

* Make PrefixContext contain a varname rather than symbol (#896)

---------

Co-authored-by: Hong Ge <[email protected]>
Co-authored-by: Markus Hauru <[email protected]>

* Revert ThreadSafeVarInfo back to Vectors and fix some AD type casting in (Simple)VarInfo

* Improve accumulator docs

* Add test/accumulators.jl

* Docs fixes

* Various small fixes

* Make DynamicTransformation not use accumulators other than LogPrior

* Fix variable order and name of map_accumulator!!

* Typo fixing

* Small improvement to ThreadSafeVarInfo

* Fix demo_dot_assume_observe_submodel prefixing

* Typo fixing

* Miscellaneous small fixes

* HISTORY entry and more miscellanea

* Add more tests for accumulators

* Improve accumulators docstrings

* Fix a typo

* Expand HISTORY entry

* Add accumulators to API docs

* Remove unexported functions from API docs

* Add NamedTuple methods for get/set/acclogp

* Fix setlogp!! with single scalar to error

* Export AbstractAccumulator, fix a docs typo

* Apply suggestions from code review

Co-authored-by: Penelope Yong <[email protected]>

* Rename LogPrior -> LogPriorAccumulator, and Likelihood and NumProduce

* Type bound log prob accumulators with T<:Real

* Add @addlogprior! and @addloglikelihood!

* Apply suggestions from code review

Co-authored-by: Penelope Yong <[email protected]>

* Move default accumulators to default_accumulators.jl

* Fix some tests

* Introduce default_accumulators()

* Go back to only having @addlogprob!

* Fix tilde_observe!! prefixing

* Fix default_accumulators internal type

* Make unflatten more type stable, and add a test for it

* Always print all benchmark results

* Move NumProduce VI functions to abstract_varinfo.jl

---------

Co-authored-by: Penelope Yong <[email protected]>
Co-authored-by: Tor Erlend Fjelde <[email protected]>
Co-authored-by: Hong Ge <[email protected]>

* Replace PriorExtractorContext with PriorDistributionAccumulator (#907)

* Implement values_as_in_model using an accumulator (#908)

* Implement values_as_in_model using an accumulator

* Make make_varname_expression a function

* Refuse to combine ValuesAsInModelAccumulators with different include_colon_eqs

* Fix nested context test

* Bump DynamicPPL versions

* Fix merge (1)

* Add benchmark Pkg source

* [no ci] Don't need to dev again

* Disable use_closure for ReverseDiff

* Revert "Disable use_closure for ReverseDiff"

This reverts commit 3cb47cd.

* Fix LogDensityAt struct

* Try not duplicating

* Update comment pointing to closure benchmarks

* Remove `context` from model evaluation (use `model.context` instead) (#952)

* Change `evaluate!!` API, add `sample!!`

* Fix literally everything else that I broke

* Fix some docstrings

* fix ForwardDiffExt (look, multiple dispatch bad...)

* Changelog

* fix a test

* Fix docstrings

* use `sample!!`

* Fix a couple more cases

* Globally rename `sample!!` -> `evaluate_and_sample!!`, add changelog warning

* Mark function as Const for Enzyme tests (#957)

* Move submodel code to submodel.jl; remove `@submodel` (#959)

* Move submodel code to submodel.jl

* Remove `@submodel`

* Fix missing field tests for 1.12 (#961)

* Remove 3-argument `{_,}evaluate!!`; clean up submodel code (#960)

* Clean up submodel code, remove 3-arg `_evaluate!!`

* Remove 3-argument `evaluate!!` as well

* Update changelog

* Improve submodel error message

* Fix doctest

* Add error hint for three-argument evaluate!!

* Improve API for AD testing (#964)

* Rework API for AD testing

* Fix test

* Add `rng` keyword argument

* Use atol and rtol

* remove unbound type parameter (?)

* Don't need to do elementwise check

* Update changelog

* Fix typo

* DebugAccumulator (plus tiny bits and pieces) (#976)

* DebugContext -> DebugAccumulator

* Changelog

* Force `conditioned` to return a dict

* fix conditioned implementation

* revert `conditioned` bugfix (will merge this to main instead)

* fix show

* Fix doctests

* fix doctests 2

* Make VarInfo actually mandatory in check_model

* Re-implement `missing` check

* Revert `combine` signature in docstring

* Revert changes to `Base.show` on AccumulatorTuple

* Add TODO comment about VariableOrderAccumulator

Co-authored-by: Markus Hauru <[email protected]>

* Fix doctests

---------

Co-authored-by: Markus Hauru <[email protected]>

* VariableOrderAccumulator (#940)

* Turn NumProduceAccumulator into VariableOrderAccumulator

* Add comparison methods

* Make VariableOrderAccumulator use regular Dict

* Use copy rather than deepcopy for accumulators

* Minor docstring touchup

* Remove unnecessary use of NumProduceAccumulator

* Fix split(VariableOrderAccumulator)

* Remove NumProduceAcc from Debug

* Fix set_retained_vns_del!

---------

Co-authored-by: Penelope Yong <[email protected]>

* Accumulators stage 2 (#925)

* Give LogDensityFunction the getlogdensity field

* Allow missing LogPriorAccumulator when linking

* Trim whitespace

* Run formatter

* Fix a few typos

* Fix comma -> semicolon

* Fix `LogDensityAt` invocation

* Fix one last test

* Fix tests

---------

Co-authored-by: Penelope Yong <[email protected]>

* Implement more consistent tracking of logp components via `LogJacobianAccumulator` (#998)

* logjac accumulator

* Fix tests

* Fix a whole bunch of stuff

* Fix final tests

* Fix docs

* Fix docs/doctests

* Fix maths in LogJacobianAccumulator docstring

* Twiddle with a comment

* Add changelog

* Fix accumulator docstring

* logJ -> logjac

* Fix logjac accumulation for StaticTransformation

* Fix behaviour of `set_retained_vns_del!` for `num_produce == 0` (#1000)

* `InitContext`, part 2 - Move `hasvalue` and `getvalue` to AbstractPPL; enforce key type of `AbstractDict` (#980)

* point to unmerged AbstractPPL branch

* Remove code that was moved to AbstractPPL

* Remove Dictionaries with Any key type

* Fix bad merge conflict resolution

* Fix doctests

* Point to [email protected]

This reverts commit 709dc9e.

* Fix doctests

* Fix docs AbstractPPL bound

* Remove stray `Pkg.update()`

* Accumulator miscellanea: Subset, merge, acclogp, and LogProbAccumulator (#999)

* logjac accumulator

* Fix tests

* Fix a whole bunch of stuff

* Fix final tests

* Fix docs

* Fix docs/doctests

* Fix maths in LogJacobianAccumulator docstring

* Twiddle with a comment

* Add changelog

* Simplify accs with LogProbAccumulator

* Replace + with accumulate for LogProbAccs

* Introduce merge and subset for accs

* Improve acc tests

* Fix docstring typo.

Co-authored-by: Penelope Yong <[email protected]>

* Fix merge

---------

Co-authored-by: Penelope Yong <[email protected]>

* Minor tweak to changelog wording

---------

Co-authored-by: Penelope Yong <[email protected]>
Co-authored-by: Tor Erlend Fjelde <[email protected]>
Co-authored-by: Hong Ge <[email protected]>