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brian-j-smith / Mamba.jl

Markov chain Monte Carlo (MCMC) for Bayesian analysis in julia
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Error after updating RMath, PDMat, Distributions, etc. #98

Closed goedman closed 8 years ago

goedman commented 8 years ago

Hi Brian,

Noticed below error after a recent update.

Regards, Rob

julia> Pkg.installed("PDMats") v"0.4.2"

julia> Pkg.installed("Distributions") v"0.10.0"

julia> Pkg.installed("RMath") v"0.1.2"

julia> Pkg.installed("DataFrames") v"0.7.6"

julia> versioninfo() Julia Version 0.4.6 Commit 2e358ce (2016-06-19 17:16 UTC) Platform Info: System: Darwin (x86_64-apple-darwin13.4.0) CPU: Intel(R) Core(TM) i7-4980HQ CPU @ 2.80GHz WORD_SIZE: 64 BLAS: libopenblas (USE64BITINT DYNAMIC_ARCH NOAFFINITY Haswell) LAPACK: libopenblas64 LIBM: libopenlibm LLVM: libLLVM-3.3

julia> Pkg.installed("Mamba") v"0.9.1"

julia> Pkg.test("Mamba") INFO: Testing Mamba Running tests:

Testing ../doc/tutorial/line.jl

ERROR: LoadError: LoadError: LoadError: LoadError: TypeError: MvNormal: in T, expected T<:Real, got Type{Mamba.PDMats2.PBDiagMat} in include at /Applications/Julia-0.4.6.app/Contents/Resources/julia/lib/julia/sys.dylib in include_from_node1 at /Applications/Julia-0.4.6.app/Contents/Resources/julia/lib/julia/sys.dylib in include at /Applications/Julia-0.4.6.app/Contents/Resources/julia/lib/julia/sys.dylib in include_from_node1 at /Applications/Julia-0.4.6.app/Contents/Resources/julia/lib/julia/sys.dylib in require at /Applications/Julia-0.4.6.app/Contents/Resources/julia/lib/julia/sys.dylib in include at /Applications/Julia-0.4.6.app/Contents/Resources/julia/lib/julia/sys.dylib in include_from_node1 at /Applications/Julia-0.4.6.app/Contents/Resources/julia/lib/julia/sys.dylib [inlined code] from /Users/rob/.julia/v0.4/Mamba/test/utils.jl:5 in anonymous at no file:0 in include at /Applications/Julia-0.4.6.app/Contents/Resources/julia/lib/julia/sys.dylib in include_from_node1 at /Applications/Julia-0.4.6.app/Contents/Resources/julia/lib/julia/sys.dylib in process_options at /Applications/Julia-0.4.6.app/Contents/Resources/julia/lib/julia/sys.dylib in _start at /Applications/Julia-0.4.6.app/Contents/Resources/julia/lib/julia/sys.dylib while loading /Users/rob/.julia/v0.4/Mamba/src/distributions/extensions.jl, in expression starting on line 18 while loading /Users/rob/.julia/v0.4/Mamba/src/Mamba.jl, in expression starting on line 191 while loading /Users/rob/.julia/v0.4/Mamba/test/../doc/tutorial/line.jl, in expression starting on line 1 while loading /Users/rob/.julia/v0.4/Mamba/test/runtests.jl, in expression starting on line 32 ====================================================[ ERROR: Mamba ]====================================================

failed process: Process(/Applications/Julia-0.4.6.app/Contents/Resources/julia/bin/julia --check-bounds=yes --code-coverage=none --color=yes /Users/rob/.julia/v0.4/Mamba/test/runtests.jl, ProcessExited(1)) [1]

ERROR: Mamba had test errors in error at /Applications/Julia-0.4.6.app/Contents/Resources/julia/lib/julia/sys.dylib in test at pkg/entry.jl:803 in anonymous at pkg/dir.jl:31 in cd at file.jl:22 in cd at pkg/dir.jl:31 in test at pkg.jl:71

julia>

bdeonovic commented 8 years ago

Might be related to: https://github.com/JuliaStats/Distributions.jl/issues/513 try upgrading to StatsFuns 0.2.2

brian-j-smith commented 8 years ago

Looks like it is the Distributions 0.10.0 update. I just opened a pull request at https://github.com/JuliaLang/METADATA.jl/pull/5655 for an update to Mamba that fixes the issue.

goedman commented 8 years ago

Fixed! Thanks Brian.