TuringLang / Turing.jl / 11483866062

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Commit Message

DynamicPPL -> 0.29; Julia -> 1.10; Tapir -> Mooncake (#2341)

* CompatHelper: bump compat for DynamicPPL to 0.29, (keep existing compat) (#2339)

Co-authored-by: CompatHelper Julia <compathelper_noreply@julialang.org>

* CompatHelper: bump compat for DynamicPPL to 0.29 for package test, (keep existing compat) (#2340)

Co-authored-by: CompatHelper Julia <compathelper_noreply@julialang.org>

* Replace vectorize(d, r) -> DynamicPPL.tovec(r)

vectorize was removed in DynamicPPL 0.29.0

* Require Julia >= 1.9

* Add Julia 1.9 tests back

* Fix essential/ad tests

* Fix reconstruct calls in MH

* Update src/mcmc/mh.jl

Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>

* Require Julia 1.10

* Change 1 -> I in MvNormal()

setting a real number as σ is deprecated

* Simplify tests as we no longer support Julia <1.8

* Simplify `set_namedtuple!`

* Remove conditional loading/exporting of Tapir

* Tapir -> Mooncake

* Update src/essential/Essential.jl

Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>

* Remove Requires from Project.toml

* Bump minor version instead

* Restrict ADTypes to 1.9.0 for AutoMooncake()

* Re-enable Mooncake tests in mcmc/abstractmcmc

* Update the currently buggy and incorrect tilde overloads in `mh.jl` (#2360)

* More autoformatting (#2359)

* Bring more files into autoformatting fold

* Run JuliaFormatter

* Remove trailing whitespace

* Update comment in .JuliaFormatter.toml

* Fix bad merge

* Restrict Mooncake to >= 0.4.9

* Add MH test for LKJCholesky

* Remove Tracker

* Format imports

Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>

* Add AD imports to Optimisation test

* Bump Mooncake compat in tests

* Bump Libtask version

* Get Optimization tests to pass CI

* Update API docs

* Write a changelog entry

* Upd... (continued)

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16 of 22 new or added lines in 3 files covered. (72.73%)

1 existing line in 1 file now uncovered.

1359 of 1573 relevant lines covered (86.4%)

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