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Fix test error with Turing >= 0.30 #570

Merged
merged 5 commits into from
Jan 22, 2024
Merged

Fix test error with Turing >= 0.30 #570

merged 5 commits into from
Jan 22, 2024

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devmotion
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The PR updates the Turing tests for the changes in version 0.30.

I expect that the LKJ tests still fail due to an unfortunate behaviour of LinearAlgebra in Julia 1.10:

julia> using LinearAlgebra

julia> X = convert(Matrix{Real}, rand(2, 2))
2×2 Matrix{Real}:
 0.550882  0.54726
 0.921542  0.647784

julia> typeof(X)
Matrix{Real} (alias for Array{Real, 2})

julia> UpperTriangular(X)' * UpperTriangular(X)
ERROR: InexactError: Int64(0.30147568734789565)
Stacktrace:
 [1] Int64
   @ Base ./float.jl:909 [inlined]
 [2] convert(::Type{Int64}, x::Float64)
   @ Base ./number.jl:7
 [3] setindex!
   @ ./array.jl:1024 [inlined]
 [4] generic_trimatmul!(C::Matrix{…}, uploc::Char, isunitc::Char, tfun::typeof(adjoint), A::Matrix{…}, B::UpperTriangular{…})
   @ LinearAlgebra ~/.asdf/installs/julia/1.10.0/share/julia/stdlib/v1.10/LinearAlgebra/src/triangular.jl:946
 [5] _trimul!
   @ LinearAlgebra ~/.asdf/installs/julia/1.10.0/share/julia/stdlib/v1.10/LinearAlgebra/src/triangular.jl:711 [inlined]
 [6] mul!
   @ LinearAlgebra ~/.asdf/installs/julia/1.10.0/share/julia/stdlib/v1.10/LinearAlgebra/src/triangular.jl:693 [inlined]
 [7] *(A::LowerTriangular{Real, Adjoint{Real, Matrix{Real}}}, B::UpperTriangular{Real, Matrix{Real}})
   @ LinearAlgebra ~/.asdf/installs/julia/1.10.0/share/julia/stdlib/v1.10/LinearAlgebra/src/triangular.jl:1463
 [8] top-level scope
   @ REPL[7]:1
Some type information was truncated. Use `show(err)` to see complete types.

julia> LowerTriangular(X) * LowerTriangular(X)'
ERROR: InexactError: Int64(0.5076607013553399)
Stacktrace:
 [1] Int64
   @ Base ./float.jl:909 [inlined]
 [2] convert(::Type{Int64}, x::Float64)
   @ Base ./number.jl:7
 [3] setindex!
   @ ./array.jl:1024 [inlined]
 [4] generic_trimatmul!(C::Matrix{Int64}, uploc::Char, isunitc::Char, tfun::typeof(identity), A::Matrix{Real}, B::UpperTriangular{Real, Adjoint{Real, Matrix{Real}}})
   @ LinearAlgebra ~/.asdf/installs/julia/1.10.0/share/julia/stdlib/v1.10/LinearAlgebra/src/triangular.jl:958
 [5] _trimul!
   @ LinearAlgebra ~/.asdf/installs/julia/1.10.0/share/julia/stdlib/v1.10/LinearAlgebra/src/triangular.jl:711 [inlined]
 [6] mul!
   @ LinearAlgebra ~/.asdf/installs/julia/1.10.0/share/julia/stdlib/v1.10/LinearAlgebra/src/triangular.jl:693 [inlined]
 [7] *(A::LowerTriangular{Real, Matrix{Real}}, B::UpperTriangular{Real, Adjoint{Real, Matrix{Real}}})
   @ LinearAlgebra ~/.asdf/installs/julia/1.10.0/share/julia/stdlib/v1.10/LinearAlgebra/src/triangular.jl:1463
 [8] top-level scope
   @ REPL[14]:1

julia> versioninfo()
Julia Version 1.10.0
Commit 3120989f39b (2023-12-25 18:01 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: macOS (arm64-apple-darwin22.4.0)
  CPU: 10 × Apple M2 Pro
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, apple-m1)
  Threads: 1 on 6 virtual cores
Environment:
  JULIA_PKG_USE_CLI_GIT = true

On previous Julia versions this example worked:

julia> using LinearAlgebra

julia> X = convert(Matrix{Real}, rand(2, 2))
2×2 Matrix{Real}:
 0.811948  0.080013
 0.10377   0.688589

julia> UpperTriangular(X)' * UpperTriangular(X)
2×2 Matrix{Real}:
 0.659259   0.0649664
 0.0649664  0.480556

julia> LowerTriangular(X) * LowerTriangular(X)'
2×2 Matrix{Real}:
 0.659259   0.0842561
 0.0842561  0.484923

julia> versioninfo()
Julia Version 1.9.4
Commit 8e5136fa297 (2023-11-14 08:46 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: macOS (arm64-apple-darwin22.4.0)
  CPU: 10 × Apple M2 Pro
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-14.0.6 (ORCJIT, apple-m1)
  Threads: 1 on 6 virtual cores
Environment:
  JULIA_PKG_USE_CLI_GIT = true

On the Julia master branch the problem was fixed (maybe in JuliaLang/julia#52464?) but I wonder if we could make the Vector{Real} that shows up in DynamicPPL and Bijectors in the first place to avoid this problem also on Julia 1.10. Alternatively, we could use Bijectors.pd_upper(X) = collect(UpperTriangular(X)') * collect(UpperTriangular(X)) etc. on Julia 1.10.

test/turing/compiler.jl Outdated Show resolved Hide resolved
Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
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github-actions bot commented Jan 21, 2024

Pull Request Test Coverage Report for Build 7604303730

  • 0 of 0 changed or added relevant lines in 0 files are covered.
  • No unchanged relevant lines lost coverage.
  • Overall coverage increased (+4.8%) to 84.62%

Totals Coverage Status
Change from base Build 7506113239: 4.8%
Covered Lines: 2674
Relevant Lines: 3160

💛 - Coveralls

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codecov bot commented Jan 21, 2024

Codecov Report

All modified and coverable lines are covered by tests ✅

Comparison is base (c6e3b6b) 79.64% compared to head (bcaf02c) 84.30%.

Additional details and impacted files
@@            Coverage Diff             @@
##           master     #570      +/-   ##
==========================================
+ Coverage   79.64%   84.30%   +4.65%     
==========================================
  Files          26       26              
  Lines        2938     3172     +234     
==========================================
+ Hits         2340     2674     +334     
+ Misses        598      498     -100     

☔ View full report in Codecov by Sentry.
📢 Have feedback on the report? Share it here.

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@torfjelde torfjelde left a comment

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LGTM with the one outstanding comment/question: should we bump the version used in CI to work with test/turing?

test/turing/Project.toml Show resolved Hide resolved
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Feel free to hit merge whenever!

@devmotion devmotion added this pull request to the merge queue Jan 22, 2024
Merged via the queue into master with commit 39751b1 Jan 22, 2024
14 checks passed
@devmotion devmotion deleted the dw/fix_tests branch January 22, 2024 17:31
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2 participants