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[MRG+2] Neighborhood Components Analysis#10058

Merged

jnothman merged 89 commits intoscikit-learn:masterfrom

wdevazelhes:nca

Feb 28, 2019

Commits on Oct 27, 2017

first commit
William de Vazelhes
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Commits on Nov 2, 2017

minor corrections in docstring
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remove comment
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Add verbose during iterations
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Update code according to code review:
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Remove _make_masks and use OneHotEncoder instead
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precise that distances are squared
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remove useless None
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simplify tests
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ensure min samples = 2 to make check_fit2d_1sample pass
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Commits on Nov 7, 2017

Do not precompute pairwise differences
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Commits on Nov 14, 2017

add example
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reorganize transposes
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simplify gradient
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Commits on Nov 22, 2017

Fixes according to code review
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Commits on Jan 3, 2018

Retrieving LMNN documentation in order to adapt it to NCA
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Adapt documentation to Neighborhood Components Analysis
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fix pep8 errors
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fix flake8 error
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fix encoding error
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Commits on Jan 15, 2018

changes according to review https://github.com/scikit-learn/scikit-learn/pull/10058#pullrequestreview-87420798
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correct objective function doc
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Commits on May 28, 2018

Merge branch 'master' into nca
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Commits on Jun 5, 2018

Add batch computations of loss and gradient.
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Update documentation.
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Merge branch 'master' into nca
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Commits on Jun 6, 2018

FIX: import scipy.misc.logsumexp for older versions of scipy, and scipy.special.logsumexp otherwise
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Commits on Jun 7, 2018

FIX: remove newly introduced keepdims for logsumexp
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FIX: remove unused old masks and use the new mask instead
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Commits on Jun 20, 2018

FIX: fix doctest CI fail by putting ellipsis
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FIX: fix doctest CI fail by putting ellipsis, this time in rst file
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Commits on Jun 22, 2018

FIX: fix doctest CI fail by putting ellipsis, this time in rst file
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Updates to be coherent with latest changes from pr #8602 (commits https://github.com/scikit-learn/scikit-learn/pull/8602/commits/7afa6bbea9fee0490843294bf3fe9da99ce5dc27 and https://github.com/scik…
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Merge branch 'nca_feat/comments_changes' into nca
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ENH: Add warm_start feature from LMNN (PR #8602)
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FIX: rename remaining old n_features_out to n_components
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FIX: Update doc like in commit https://github.com/scikit-learn/scikit-learn/pull/8602/commits/7afa6bbea9fee0490843294bf3fe9da99ce5dc27
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FIX: make test_warm_start_effectiveness_work
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ENH: Add possible LDA initialization
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Commits on Jun 25, 2018

ENH: add 'auto' initialization
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Merge branch 'master' into nca
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FIX test appropriate message depending on init
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FIX import name with relative path
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FIX simplify test and check almost equal to pass tests on linux 32 bits
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Commits on Jun 26, 2018

FIX Move LDA import inside NCA class to avoid circular dependencies
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Commits on Jun 28, 2018

DOC add what s new entry
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Commits on Jun 29, 2018

MAINT simplify gradient testing
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TST FIX be more tolerant on decimals for older versions of numerical packages
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STY fix continuation lines, removing backslashes
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Commits on Jul 15, 2018

FIX: fix logsumexp import
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Commits on Jul 23, 2018

TST: simplify verbose testing with pytest capsys
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Merge branch 'master' into nca
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Commits on Aug 1, 2018

TST: check more explicitely verbose
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FIX: remove non-ASCII character
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Commits on Aug 17, 2018

ENH: simplify gradient expression
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Commits on Nov 29, 2018

MAINT: address review https://github.com/scikit-learn/scikit-learn/pull/10058#pullrequestreview-176109007
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Merge branch 'master' into nca
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DOC: Add what's new entry
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Commits on Dec 6, 2018

Merge branch 'master' into nca
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FIX: try raw string to pass flake8 (cf. https://github.com/iodide-project/pyodide/pull/204#issuecomment-426269946)
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FIX: try the exact syntax that passed the linter
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TST: give some tolerance for test_toy_example_collapse_points
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Commits on Dec 7, 2018

relaunch travis
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Commits on Dec 12, 2018

FIX: use checked_random_state instead of np.random
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FIX: delete iterate.dat
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Merge branch 'master' into nca
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FIX: Fix dealing with the case of LinearDiscriminantAnalysis initialization:
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Commits on Jan 18, 2019

Address reviews https://github.com/scikit-learn/scikit-learn/pull/10058#pullrequestreview-191082492 and https://github.com/scikit-learn/scikit-learn/pull/10058#pullrequestreview-191186183
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STY: fix PEP8 line too long error
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Fix doctest
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Commits on Jan 22, 2019

FIX: remove deprecated assert_true
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TST fix assertion always true in tests
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TST: fix PEP8 indent error
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Merge branch 'master' into nca
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API: remove the possibility to store the opt_result (see https://github.com/scikit-learn/scikit-learn/pull/10058#discussion_r247865298)
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Commits on Feb 25, 2019

Merge branch 'master' into nca
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Move examples up in documentation and add NCA to manifold examples
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STY: fix pep8 errors
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Commits on Feb 26, 2019

adress gael's review except https://github.com/scikit-learn/scikit-learn/pull/10058#pullrequestreview-207481064
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Address aurelien's review
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Simplify test about auto init even more
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Fix doc and replace embedding by projection for consistency
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Address Gael's review
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Commits on Feb 27, 2019

few nitpicks and make some links in the doc work
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Address alex's review
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Commits on Feb 28, 2019

Adress Alex's review
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Add authors in test too
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add check_scalar to utils
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MajorFeature > API
jnothman
authored