Move submodel code to submodel.jl; remove @submodel
#959
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@yebai Is it time that we also get rid of the submodel macro? It's been deprecated since 0.31.1 which was about 7 months ago (https://github.com/TuringLang/DynamicPPL.jl/releases/tag/v0.31.1). Not sure what the usual timescale for removing deprecated stuff is, but I think I'd be happy to remove it in this release. |
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Codecov ReportAll modified and coverable lines are covered by tests ✅
Additional details and impacted files@@ Coverage Diff @@
## breaking #959 +/- ##
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- Coverage 82.94% 82.85% -0.09%
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Files 38 38
Lines 4068 4031 -37
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- Hits 3374 3340 -34
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I'm happy to remove the |
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yup no problem for us |
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DynamicPPL.jl documentation for PR #959 is available at: |
penelopeysm
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@submodel
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Aug 7, 2025
* 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]>
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This PR:
@submodel(see discussion below)submodel.jl. Rationale:model.jlis long enough already