Code

v4 refactor for GP module#5055

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twiecki merged 36 commits intopymc-devs:mainpymc-devs/pymc:mainfrom bwengals:gpv4updatebwengals/pymc:gpv4updateCopy head branch name to clipboardNov 21, 2021

+498-329

Commits

Commits on Oct 28, 2021

• np.int -> int, fix np DepricationWarning

  

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• remove shape arg from non-kron implementations, TODO for is_observed in Marginal, mark for deprecation

  

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• np.int -> int in gp/util.py

  

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• force all mean_func, cov_func args to GP constructors to be required kwargs (often default zero mean_func is used)

  

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• fix predictt functions, rename to _predict_at. because theano -> aesara

  

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  77c4392

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• fix TP tests, force mean_func, cov_func to be req kwarg

  

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  d1e09fe

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• fix TP reparameterization to sample studentt instead of chi2/norm

  

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  31150c3

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• change naming shape->size where appropriate

  

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• add deprecation warning for is_observed

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• add jitter arg for covs headed for cholesky decomps, previously fixed at 1e-6. add deprecation warning for is_observed arg

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• clean up trivial aesara.function usage to .eval() instead

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• fix gp.util.replace_with_values to handle case with no symbolic values, .eval() works

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• jitter=0 for conditonals/predicts, fix replace_with_values calls

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  ad4a1ca

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• fix more tests

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• black stuff

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• Merge branch 'main' into gpv4update

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  6072565

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• small fixes to get kronlatent and kronmarginal to pass

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  76b6c16

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• remove leftover prints

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Commits on Oct 30, 2021

• dep warning -> future warning

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Commits on Nov 3, 2021

• roll back mkl and mkl-service version

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  dceabf8

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• fix precommit

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  4692407

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• remove old DeprecationWarning

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  cc16bd5

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• merge from main

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  062a9ca

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• improve tests

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Commits on Nov 4, 2021

• fix pre-commit issue

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  23fc5c7

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• fix precommit on cov.py

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Commits on Nov 8, 2021

• fix comment

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• dont force blas version in windows dev enviornment (roll back changes)

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• Merge branch 'main' into gpv4update

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Commits on Nov 9, 2021

• update release notes

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• add removed ... line from release notes

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Commits on Nov 13, 2021

• add link to PR

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Commits on Nov 20, 2021

• Merge branch 'pymc-devs:main' into gpv4update

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• remove is_observed usage from TestMarginalVsLatent

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• remove is_observed usage from TestMarginalVsMarginalSparse

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Commits on Nov 21, 2021

• Update RELEASE-NOTES.md

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