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code of conduct in documentation (#441)
* use action for doc with wraning visible
* remove space
* remove space again
* test pre commands
* install pot properly
* install compiler...
* try composite action
* remoe warning in sliced exmaple
* pep8
* move contributing and code of conduct
* cleanup
* underline too short
* update quickstart
* replace version selector by static list to avoid jsQuery bug
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* Allow warmstart in sinkhorn and sinkhorn_log
* Added argument for warmstart of dual vectors in Sinkhorn-based methods in
* Add the number of the PR
* [WIP] CO-Optimal Transport
* Revert "[WIP] CO-Optimal Transport"
This reverts commit f3d36b2705013409ac69b346585e311bc25fcfb7.
* reformat with PEP8
* Fix W291 trailing whitespace error in pep8 test
* Rearange position of warmstart argument and edit its description
* Implementation of CO-Optimal Transport
* Optimize code and edit documentation
* fix backend bug in test cases
* fix backend bug
* fix backend bug
* Add examples on COOT
* Modify API and edit example
* Edit API
* minor edit of examples and release
* fix bug in coot
* fix doc examples
* more fix of doc
* restart CI
* reordering ref
* add more tests
* add more tests
* add test verbose
* fix PEP8 bug
* fix PEP8 bug
* fix PEP8 bug
* fix pytest bug
* edit doc for better display
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Co-authored-by: Rémi Flamary <remi.flamary@gmail.com>
Co-authored-by: Alexandre Gramfort <agramfort@fb.com>
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gromov-wasserstein solvers (#431)
* maj gw/ srgw/ generic cg solver
* correct pep8 on current state
* fix bug previous tests
* fix pep8
* fix bug srGW constC in loss and gradient
* fix doc html
* fix doc html
* start updating test_optim.py
* update tests gromov and optim - plus fix gromov dependencies
* add symmetry feature to entropic gw
* add symmetry feature to entropic gw
* add exemple for sr(F)GW matchings
* small stuff
* remove (reg,M) from line-search/ complete srgw tests with backend
* remove backend repetitions / rename fG to costG/ fix innerlog to True
* fix pep8
* take comments into account / new nx parameters still to test
* factor (f)gw2 + test new backend parameters in ot.gromov + harmonize stopping criterions
* split gromov.py in ot/gromov/ + update test_gromov with helper_backend functions
* manual documentaion gromov
* remove circular autosummary
* trying stuff
* debug documentation
* alphabetic ordering of module
* merge into branch
* add note in entropic gw solvers
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Co-authored-by: Rémi Flamary <remi.flamary@gmail.com>
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* add gaussian modules
* add gaussian modules
* add PR to release.md
* Apply suggestions from code review
Co-authored-by: Alexandre Gramfort <alexandre.gramfort@m4x.org>
* Apply suggestions from code review
Co-authored-by: Alexandre Gramfort <alexandre.gramfort@m4x.org>
* Update ot/gaussian.py
* Update ot/gaussian.py
* add empirical bures wassertsein distance, fix docstring and test
* update to fit with new networkx API
* add test for jax et tf"
* fix test
* fix test?
* add empirical_bures_wasserstein_mapping
* fix docs
* fix doc
* fix docstring
* add tgnassou to contributors
* add more coverage for gaussian.py
* add deprecated function
* fix doc math"
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* fix doc math"
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* add remi flamary to authors of gaussiansmodule
* fix equation
Co-authored-by: Rémi Flamary <remi.flamary@gmail.com>
Co-authored-by: Alexandre Gramfort <alexandre.gramfort@m4x.org>
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* bugfix
* update refs partial OT
* fixes small typos in plot_partial_wass_and_gromov
* fix small bugs in partial.py
* update README
* pep8 bugfix
* modif doctest
* fix bugtests
* update on test_partial and test on the numerical precision on ot/partial
* resolve merge pb
* Delete partial.py
* update unbalanced: mm algo+plot
* update unbalanced: mm algo+plot
* update unbalanced: mm algo+plot
* update unbalanced: mm algo+plot
* update unbalanced: mm algo+plot
* add test mm algo unbalanced OT
* add test mm algo unbalanced OT
* add test mm algo unbalanced OT
* add test mm algo unbalanced OT
* add test mm algo unbalanced OT
* add test mm algo unbalanced OT
* add test mm algo unbalanced OT
* add test mm algo unbalanced OT
* update unbalanced: mm algo+plot
* update unbalanced: mm algo+plot
* update releases.md with new MM UOT algorithms
Co-authored-by: Rémi Flamary <remi.flamary@gmail.com>
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* add gfactored ot
* pep8 and add doc
* add exmaple for factotred OT
* final number of PR
* correct test on backends
* remove useless loss
* better tests
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* add info in release file
* update tests
* pep8
* add weak OT example
* update plot in doc
* correction ewample with empirical sinkhorn
* better thumbnail
* comment from review
* update documenation
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* change version and add minigallery in quickstart guide
* remove ot.gpu from documentation because it is deprecated and bacckends should be used
* start 0.8.2dev and description in releases.md
* typo for gallery sinkhorn2
* test better doc update for files in .githib folder
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* Bregman
* Resolve conflicts
* Bug solve
* Bregman updated for JAX compatibility
* Tests coherence between backend improved
* No longer enforcing 64 bits operations on Jax except for tests
* Now using mixtures, to make backend dependent tests with less code
* Better test skipping code
* Pep8 + test optimizations
* redundancy removed
* Docs
* Typo corrected
* Typo
* Typo
* Docs
* Docs
* pep8
* Backend docs
* Prettier docs
* Mistake corrected
* small changes
* Better wording
Co-authored-by: Rémi Flamary <remi.flamary@gmail.com>
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* example for log treatment in bregman.py
* Improve doc
* Revert "example for log treatment in bregman.py"
This reverts commit 9f51c14e
* Add comments by Flamary
* Delete repetitive description
* Added raw string to avoid pbs with backslashes
* Implements sliced wasserstein
* Changed formatting of string for py3.5 support
* Docstest, expected 0.0 and not 0.
* Adressed comments by @rflamary
* No 3d plot here
* add sliced to the docs
* Incorporate comments by @rflamary
* add link to pdf
Co-authored-by: Rémi Flamary <remi.flamary@gmail.com>
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