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v4 refactor for GP module #5055

Merged
merged 36 commits into from
Nov 21, 2021
Merged

v4 refactor for GP module #5055

merged 36 commits into from
Nov 21, 2021

Commits on Oct 28, 2021

  1. np.int -> int, fix np DepricationWarning

    @bwengals
    bwengals authored and bwengals committed Oct 28, 2021
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  2. remove shape arg from non-kron implementations, TODO for is_observed … 

    …in Marginal, mark for deprecation
    @bwengals
    bwengals authored and bwengals committed Oct 28, 2021
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  3. np.int -> int in gp/util.py

    @bwengals
    bwengals authored and bwengals committed Oct 28, 2021
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  4. force all mean_func, cov_func args to GP constructors to be required … 

    …kwargs (often default zero mean_func is used)
    @bwengals
    bwengals authored and bwengals committed Oct 28, 2021
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  5. fix predictt functions, rename to _predict_at. because theano -> aesara

    @bwengals
    bwengals authored and bwengals committed Oct 28, 2021
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  6. fix TP tests, force mean_func, cov_func to be req kwarg

    @bwengals
    bwengals authored and bwengals committed Oct 28, 2021
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  7. fix TP reparameterization to sample studentt instead of chi2/norm

    @bwengals
    bwengals authored and bwengals committed Oct 28, 2021
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  8. change naming shape->size where appropriate

    @bwengals
    bwengals authored and bwengals committed Oct 28, 2021
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  9. add deprecation warning for is_observed

    @bwengals
    bwengals committed Oct 28, 2021
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  10. add jitter arg for covs headed for cholesky decomps, previously fixed… 

    … at 1e-6. add deprecation warning for is_observed arg
    @bwengals
    bwengals committed Oct 28, 2021
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  11. clean up trivial aesara.function usage to .eval() instead

    @bwengals
    bwengals committed Oct 28, 2021
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  12. fix gp.util.replace_with_values to handle case with no symbolic value… 

    …s, .eval() works
    @bwengals
    bwengals committed Oct 28, 2021
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  13. jitter=0 for conditonals/predicts, fix replace_with_values calls

    @bwengals
    bwengals committed Oct 28, 2021
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  14. fix more tests 

    - use model.logp instead of variable.logp
- set req kwargs cov_func and mean_func
- fix weirdly small scale on some input X, y
- move predict calls into model block
- the two kron models outstanding
    @bwengals
    bwengals committed Oct 28, 2021
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  15. black stuff

    @bwengals
    bwengals committed Oct 28, 2021
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  16. Merge branch 'main' into gpv4update

    @bwengals
    bwengals committed Oct 28, 2021
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  17. small fixes to get kronlatent and kronmarginal to pass

    @bwengals
    bwengals committed Oct 28, 2021
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  18. remove leftover prints

    @bwengals
    bwengals committed Oct 28, 2021
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Commits on Oct 30, 2021

  1. dep warning -> future warning

    @bwengals
    bwengals committed Oct 30, 2021
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Commits on Nov 3, 2021

  1. roll back mkl and mkl-service version

    @bwengals
    bwengals committed Nov 3, 2021
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  2. fix precommit

    @bwengals
    bwengals committed Nov 3, 2021
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  3. remove old DeprecationWarning

    @bwengals
    bwengals committed Nov 3, 2021
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  4. merge from main

    @bwengals
    bwengals committed Nov 3, 2021
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  5. improve tests 

    cleanup gp.util.replace_with_values and add docstrings
    @bwengals
    bwengals committed Nov 3, 2021
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Commits on Nov 4, 2021

  1. fix pre-commit issue

    @bwengals
    bwengals committed Nov 4, 2021
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  2. fix precommit on cov.py

    @bwengals
    bwengals committed Nov 4, 2021
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Commits on Nov 8, 2021

  1. fix comment

    @bwengals
    bwengals committed Nov 8, 2021
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  2. dont force blas version in windows dev enviornment (roll back changes)

    @bwengals
    bwengals committed Nov 8, 2021
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  3. Merge branch 'main' into gpv4update

    @bwengals
    bwengals committed Nov 8, 2021
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Commits on Nov 9, 2021

  1. update release notes

    @bwengals
    bwengals committed Nov 9, 2021
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  2. add removed ... line from release notes

    @bwengals
    bwengals committed Nov 9, 2021
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Commits on Nov 13, 2021

  1. add link to PR

    @bwengals
    bwengals committed Nov 13, 2021
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Commits on Nov 20, 2021

  1. Merge branch 'pymc-devs:main' into gpv4update

    @bwengals
    bwengals authored Nov 20, 2021
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  2. remove is_observed usage from TestMarginalVsLatent

    @bwengals
    bwengals committed Nov 20, 2021
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  3. remove is_observed usage from TestMarginalVsMarginalSparse

    @bwengals
    bwengals committed Nov 20, 2021
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Commits on Nov 21, 2021

  1. Update RELEASE-NOTES.md

    @twiecki
    twiecki authored Nov 21, 2021
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