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New Gibbs sampler using condition#2099

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torfjelde merged 71 commits intomasterTuringLang/Turing.jl:masterfrom torfjelde/new-gibbsTuringLang/Turing.jl:torfjelde/new-gibbsCopy head branch name to clipboardApr 21, 2024

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Commits

Commits on Oct 4, 2023

• initial work on the new gibbs sampler

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• added tests for the new Gibbs sampler

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• added tests for new Gibbs

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• new Gibbs is now sampling (correctly) sequentially

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Commits on Oct 6, 2023

• let's not overload merge just yet

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• export GibbsV2 + added more samplers to the tests

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Commits on Oct 8, 2023

• added TODO comment

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• Merge branch 'master' into torfjelde/new-gibbs

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Commits on Oct 20, 2023

• Merge remote-tracking branch 'origin/torfjelde/new-gibbs' into torfjelde/new-gibbs

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• Merge branch 'master' into torfjelde/new-gibbs

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Commits on Nov 15, 2023

• Merge branch 'master' into torfjelde/new-gibbs

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Commits on Nov 16, 2023

• removed lots of varinfo related merging functionality that is now

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• shifting some code around

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• removed redundant constructor for GibbsV2

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Commits on Nov 18, 2023

• added GibbsContext which is similar to FixContext but also computes

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Commits on Nov 19, 2023

• adopted the rerun mechanism in Gibbs for GibbsV2, thus fixing the

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• broken tests are no longer broken

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• fix issues with dot_tilde_* impls for GibbsContext

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• fix for dot_tilde_assume when using GibbsContext

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• fixed re-running of models for Gibbs sampling properly this time

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• Merge branch 'master' into torfjelde/new-gibbs

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• added new gibbs to tests

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• added some further comments on why we need GibbsContext

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• went back to using DynamicPPL.condition rather than using custom

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• add concrete comment about reverting changes for gibbs_condition

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Commits on Nov 20, 2023

• Update test/mcmc/gibbs_new.jl

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• fixed recursive definition of condition varinfos

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• Merge remote-tracking branch 'origin/torfjelde/new-gibbs' into torfjelde/new-gibbs

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• use fix instead of condition

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Commits on Nov 21, 2023

• Revert "use fix instead of condition"

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• rmeoved unnused symbol

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• Revert "went back to using DynamicPPL.condition rather than using custom"

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• bump compat entry of DynamicPPL so we can overload acclogp!

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• update assume for SMC samplers to make use of new acclogp!

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• added proper impl of acclogp!! for SMC samplers + made accessing

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Commits on Nov 24, 2023

• added experimental module and moved gibbs to it

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• fixed now-inccorect references in new gibbs file

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  e6ce62f

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• updated gibbs tests

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• moved experimental gibbs tests

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• updated tests to include experiemntal tests

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• removed refrences to previews tests of experimental Gibbs sampler

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Commits on Jan 28, 2024

• Merge branch 'master' into torfjelde/new-gibbs

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Commits on Jan 29, 2024

• removed solved TODO

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• added a comment on reconstruct_getvalue usage

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• bump patch version

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• added comments on future work

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• Update test/experimental/gibbs.jl

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• fixed bug where particle samplers didn't properly account for

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• Merge remote-tracking branch 'origin/torfjelde/new-gibbs' into torfjelde/new-gibbs

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Commits on Jan 30, 2024

• relax atol for a numerical test with Gibbs a bit

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Commits on Feb 27, 2024

• Merge branch 'master' into torfjelde/new-gibbs

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Commits on Mar 10, 2024

• Merge branch 'master' into torfjelde/new-gibbs

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• fixed bug with AbstractDict constructor for experimental Gibbs

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Commits on Mar 20, 2024

• Merge branch 'master' into torfjelde/new-gibbs

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Commits on Apr 15, 2024

• aaaalways link the varinfo in the new Gibbs sampler, just to be sure

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Commits on Apr 17, 2024

• add test to cover recent improvement to DynamicPPL.subset

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• bump compat entry for DynamicPPL

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• added some docstrings

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• fixed test

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• fixed import

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• another attempt at fixing tests

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• another attempt at fixing tests

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• attempt at fix tests

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• forgot something in previos commit

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  cfa8fb3

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• cleaned up the experimental Gibbs sampler a bit

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• removed accidentaly psuedocode inclusion

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Commits on Apr 19, 2024

• Apply suggestions from code review

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Commits on Apr 20, 2024

• relaxed olerance in one MH test a bit

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• Merge remote-tracking branch 'origin/torfjelde/new-gibbs' into torfjelde/new-gibbs

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• Merge branch 'master' into torfjelde/new-gibbs

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• bump patch version

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