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Add Censored distribution #1470

Merged
merged 138 commits into from
Jan 31, 2022
Merged

Add Censored distribution #1470

merged 138 commits into from
Jan 31, 2022

Commits on Jan 11, 2022

  1. Implement Censored

    @sethaxen
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  2. Export Censored and censored

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Commits on Jan 12, 2022

  1. Apply suggestions from code review 

    Co-authored-by: David Widmann <devmotion@users.noreply.github.com>
    @sethaxen @devmotion
    sethaxen and devmotion authored Jan 12, 2022
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  2. Reorganize code

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    sethaxen committed Jan 12, 2022
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  3. Move check to constructor

    @sethaxen
    sethaxen committed Jan 12, 2022
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  4. Make newline optional

    @sethaxen
    sethaxen committed Jan 12, 2022
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  5. Reformat

    @sethaxen
    sethaxen committed Jan 12, 2022
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  6. Improve show method

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    sethaxen committed Jan 12, 2022
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  7. Add checks for finiteness

    @sethaxen
    sethaxen committed Jan 12, 2022
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  8. Implement expectations

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  9. Satisfy required params behavior

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  10. Overload truncated for DiscreteUniform

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    sethaxen committed Jan 12, 2022
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  11. Don't re-censor

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    sethaxen committed Jan 12, 2022
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  12. Handle case where censored to single point

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  13. Reformat

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    sethaxen committed Jan 12, 2022
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  14. Add censored docs page

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  15. Update censored.md

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  16. Document censored

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  17. Add truncated DiscreteUniform tests

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  18. Add un-called truncated_uniform test suite

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  19. Skip check for DiscreteUniform

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Commits on Jan 13, 2022

  1. Add loglikelihood 

    Useful to avoid redundant computation of bound probabilities when performing censored regression
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  2. Include bounds in support

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  3. Update src/truncated/discrete_uniform.jl 

    Co-authored-by: David Widmann <devmotion@users.noreply.github.com>
    @sethaxen @devmotion
    sethaxen and devmotion authored Jan 13, 2022
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  4. Remove unnecessary checks for finiteness

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    sethaxen committed Jan 13, 2022
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  5. Swap order of checks

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    sethaxen committed Jan 13, 2022
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  6. Update censored.jl

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    sethaxen committed Jan 13, 2022
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Commits on Jan 14, 2022

  1. Support using missing to specify unbounded

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  2. Merge branch 'master' into censored

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  3. Apply suggestions from code review 

    Co-authored-by: David Widmann <devmotion@users.noreply.github.com>
    @sethaxen @devmotion
    sethaxen and devmotion authored Jan 14, 2022
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  4. Improve docstrings

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  5. Reformat

    @sethaxen
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  6. Rewrap signature

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  7. Use ismissing everywhere

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  8. Reformat

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  9. Fix maximum

    @sethaxen
    sethaxen committed Jan 14, 2022
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  10. Fix support check

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  11. Support fields that are equivalent 

    This allows equality checking for distributions with fields for which `==` or `isapprox` is not defined but `===` is
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  12. Add basic censored tests

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  13. Apply suggestions from code review 

    Co-authored-by: Moritz Schauer <moritzschauer@web.de>
    @sethaxen @mschauer
    sethaxen and mschauer authored Jan 14, 2022
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  14. Resolve ambiguity

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  15. Resolve ambiguity

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Commits on Jan 15, 2022

  1. Use equivalence check for missing everywhere

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  2. Fix ccdf and logccdf

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  3. Better construct mixture equivalent

    @sethaxen
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  4. Implement mixture model for continuous censored dists

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  5. Add uniform tests

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  6. Enhance discrete uniform tests

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  7. Add Poisson tests

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Commits on Jan 16, 2022

  1. Fix implementation of entropy

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  2. Test mean/std of censored Poisson

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  3. Add normal tests

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  4. Remove unused methods

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  5. Test bounds check

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  6. Add log-likelihood test

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    sethaxen committed Jan 16, 2022
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  7. Add test for censorship to empty interval

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  8. Support censorship to empty intervals

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  9. Add comments about expectations

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  10. Add more checks for inferrability

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  11. Test explicit expectations for DiscreteUniform

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  12. Rewrite censored docstring

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  13. Indicate interval censoring

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  14. Update docs/src/index.md 

    Co-authored-by: Moritz Schauer <moritzschauer@web.de>
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    sethaxen and mschauer authored Jan 16, 2022
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  15. Apply suggestions from code review 

    Co-authored-by: David Widmann <devmotion@users.noreply.github.com>
    @sethaxen @devmotion
    sethaxen and devmotion authored Jan 16, 2022
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  16. Don't use now-deleted function

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  17. Fix tes for new params definition

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  18. Make loglikelihood type-stable

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  19. Add comment about equivalence check

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  20. Unabbreviate name

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  21. Remove inlines

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    sethaxen committed Jan 16, 2022
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  22. Add plaintext mimetype

    @sethaxen
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  23. Add more truncated DiscreteUniform tests

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Commits on Jan 17, 2022

  1. Add xexpx

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  2. Compute probabilities on log scale

    @sethaxen
    sethaxen committed Jan 17, 2022
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  3. Clarify variable names

    @sethaxen
    sethaxen committed Jan 17, 2022
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  4. Eliminate deprecation warnings

    @sethaxen
    sethaxen committed Jan 17, 2022
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  5. Fix inferrability error

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    sethaxen committed Jan 17, 2022
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Commits on Jan 19, 2022

  1. Reformat

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  2. Add check_args keyword

    @sethaxen
    sethaxen committed Jan 19, 2022
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  3. Merge branch 'master' into censored

    @sethaxen
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  4. Promote each xi

    @sethaxen
    sethaxen committed Jan 19, 2022
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  5. Fix checking of args

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  6. Use bounds also to set types

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  7. Use check_args macro

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  8. Check for ArgumentError

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  9. Use eps to detect empty truncation

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  10. Use more accurate variable name

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  11. Use oneunit

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  12. Improve type-stability everywhere

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  13. Exhaustively test for type-inferribility

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  14. Remove now-unneeded test

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Commits on Jan 20, 2022

  1. Revert "Improve type-stability everywhere" 

    This reverts commit f024f45.
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Commits on Jan 21, 2022

  1. Add convenient types

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  2. Use convenient types

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  3. Add missing check for in support of uncensored

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  4. Avoid promoting inputs based on bounds

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  5. Avoid promoting inputs based on bounds

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  6. Separate expectations to own methods

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  7. Check in interval first

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  8. Don't promote input types

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  9. Apply suggestions from code review 

    Co-authored-by: David Widmann <devmotion@users.noreply.github.com>
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  10. Remove lingering reference to udnefined type

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  11. Docstring fixes

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  12. Consistently use d0 for uncensored

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  13. Use nothing instead of missing

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  14. Reorganize

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  15. Add keyword constructor

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  16. Document and promote keyword constructors

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  17. Use keyword arguments in show

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  18. Don't use isnothing in tests

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  19. Don't print nothing 

    Fails on old Julia versions
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  20. Export Censored

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  21. Once sentence per line

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  22. Docstring improvements

    @sethaxen
    sethaxen committed Jan 21, 2022
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  23. Fix variable rendering

    @sethaxen
    sethaxen committed Jan 21, 2022
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  24. Add missing comma

    @sethaxen
    sethaxen committed Jan 21, 2022
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  25. Revert "Export Censored" 

    This reverts commit ccef571.
    @sethaxen
    sethaxen committed Jan 21, 2022
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  26. Prepend with module so docs build

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    sethaxen committed Jan 21, 2022
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  27. Document with module prepended

    @sethaxen
    sethaxen committed Jan 21, 2022
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Commits on Jan 24, 2022

  1. Use function ... end syntax

    @sethaxen
    sethaxen committed Jan 24, 2022
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Commits on Jan 25, 2022

  1. Apply suggestions from code review 

    Co-authored-by: David Widmann <devmotion@users.noreply.github.com>
    @sethaxen @devmotion
    sethaxen and devmotion authored Jan 25, 2022
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  2. LeftCensored ⇌ RightCensored

    @sethaxen
    sethaxen committed Jan 25, 2022
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  3. Apply suggestions from code review 

    Co-authored-by: David Widmann <devmotion@users.noreply.github.com>
    @sethaxen @devmotion
    sethaxen and devmotion authored Jan 25, 2022
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  4. Introduce xexpy

    @sethaxen
    sethaxen committed Jan 25, 2022
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  5. Remove test for no-longer-supported case

    @sethaxen
    sethaxen committed Jan 25, 2022
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  6. Simplify implementations

    @sethaxen
    sethaxen committed Jan 25, 2022
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  7. Rearrange left before right

    @sethaxen
    sethaxen committed Jan 25, 2022
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  8. Merge branch 'master' into censored

    @sethaxen
    sethaxen committed Jan 25, 2022
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  9. Increment version number

    @sethaxen
    sethaxen committed Jan 25, 2022
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Commits on Jan 26, 2022

  1. Use information theory notation for entropy

    @sethaxen
    sethaxen committed Jan 26, 2022
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  2. Use d0 notation

    @sethaxen
    sethaxen committed Jan 26, 2022
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  3. Add header

    @sethaxen
    sethaxen committed Jan 26, 2022
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  4. Test infinite bounds just in case

    @sethaxen
    sethaxen committed Jan 26, 2022
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Commits on Jan 31, 2022

  1. Merge branch 'master' into censored

    @mschauer
    mschauer authored Jan 31, 2022
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  2. Apply suggestions from code review 

    Co-authored-by: Moritz Schauer <moritzschauer@web.de>
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    sethaxen and mschauer authored Jan 31, 2022
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  3. Merge branch 'master' into censored

    @sethaxen
    sethaxen authored Jan 31, 2022
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  4. Add and test partially truncated overloads for discrete uniform

    @sethaxen
    sethaxen committed Jan 31, 2022
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  5. Update src/censored.jl 

    Co-authored-by: David Widmann <devmotion@users.noreply.github.com>
    @sethaxen @devmotion
    sethaxen and devmotion authored Jan 31, 2022
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