Commit 2b1764c
Merge Develop for a new release (#322)
* Add support for tensorflow backend which allows for differentiability (#112)
* Added support for tensorflow
* Updates to get tests passing
* Or --> And
* Moving modopt to allow working with tensorflow
* Fix issues with wos
* Fix all flakes finally!
* Update modopt/base/backend.py
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Update modopt/base/backend.py
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Minute updates to codes
* Add dynamic module
* Fix docu
* Fix PEP
Co-authored-by: chaithyagr <chaithyagr@gitlab.com>
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Fix 115 (#116)
* Fix issues
* Add right tests
* Fix PEP
Co-authored-by: chaithyagr <chaithyagr@gitlab.com>
* Minor bug fix, remove elif (#124)
Co-authored-by: chaithyagr <chaithyagr@gitlab.com>
* Add tests for modopt.base.backend and fix minute bug uncovered (#126)
* Minor bug fix, remove elif
* Add tests for backend
* Fix tests
* Add tests
* Remove cupy
* PEP fixes
* Fix PEP
* Fix PEP and update
* Final PEP
* Update setup.cfg
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Update test_base.py
Co-authored-by: chaithyagr <chaithyagr@gitlab.com>
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Release cleanup (#128)
* updated GPU dependencies
* added logo to manifest
* updated package version and release date
* Unpin package dependencies (#189)
* unpinned dependencies
* updated pinned documentation dependency versions
* Add Gradient descent algorithms (#196)
* Version 1.5.1 patch release (#114)
* Add support for tensorflow backend which allows for differentiability (#112)
* Added support for tensorflow
* Updates to get tests passing
* Or --> And
* Moving modopt to allow working with tensorflow
* Fix issues with wos
* Fix all flakes finally!
* Update modopt/base/backend.py
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Update modopt/base/backend.py
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Minute updates to codes
* Add dynamic module
* Fix docu
* Fix PEP
Co-authored-by: chaithyagr <chaithyagr@gitlab.com>
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Fix 115 (#116)
* Fix issues
* Add right tests
* Fix PEP
Co-authored-by: chaithyagr <chaithyagr@gitlab.com>
* Minor bug fix, remove elif (#124)
Co-authored-by: chaithyagr <chaithyagr@gitlab.com>
* Add tests for modopt.base.backend and fix minute bug uncovered (#126)
* Minor bug fix, remove elif
* Add tests for backend
* Fix tests
* Add tests
* Remove cupy
* PEP fixes
* Fix PEP
* Fix PEP and update
* Final PEP
* Update setup.cfg
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Update test_base.py
Co-authored-by: chaithyagr <chaithyagr@gitlab.com>
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Release cleanup (#128)
* updated GPU dependencies
* added logo to manifest
* updated package version and release date
Co-authored-by: Chaithya G R <chaithyagr@gmail.com>
Co-authored-by: chaithyagr <chaithyagr@gitlab.com>
* make algorithms a module.
* add Gradient Descent Algorithms
* enforce WPS compliance.
* add test for gradient descent
* Docstrings improvements
* Add See Also and minor corrections
* add idx initialisation for all algorithms.
* fix merge error
* fix typo
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
Co-authored-by: Chaithya G R <chaithyagr@gmail.com>
Co-authored-by: chaithyagr <chaithyagr@gitlab.com>
* Release cleanup (#198)
* started clean up for next release
* update progress
* further clean up
* additional clean up
* cleaned up link to logo
* fixed index.rst
* fixed conflict
* Fast Singular Value Thresholding (#209)
* add SingularValueThreshold
This Method provides 10x faster SVT estimation than the LowRankMatrix Operator.
* linting
* add test for fast computation.
* flake8 compliance
* Ignore DAR000 Error.
* Update modopt/signal/svd.py
tuples in docstring
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Update modopt/signal/svd.py
typo
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Update modopt/opt/proximity.py
typo
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* update docstring
* fix isort
* Update modopt/signal/svd.py
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Update modopt/signal/svd.py
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* run isort
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* added writeable input data array feature for benchopt (#213)
* removed flake8 limit
* updated patch version
* [lint] pydocstyle compliance. (#228)
* [lint] pydocstyle compliance.
* use pytest-pydocstyle
* Power method: fix #211 (#212)
* Correct the norm update for Power Method
x_new should be divided by its norm, not by x_old_norm.
* fix test value
We are testing for eigen value of Identity. It should be one.
* fix WPS350
* fix test value for unconverged case
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Switch from progressbar to tqdm (#231)
* switch from progressbar to tqdm.
The progress bar can be provided externally for nested usage.
* exposes the progress bar argument.
* Child classes better have to implement these.
(my linter was complaining)
* update docs for progress bar using tqdm.
* fix WPS errors
* drop progressbar requirement, add tqdm.
* [lint] disable warning for non implemented function.
* simplify progbar check and argument passthrough
* Update README for tqdm dependency (#240)
Remote progressbar, use tqdm.
* add small help for the metric argument. (#241)
* add small help for the metric argument.
* RST validation
* use single quote
* use double backticks.
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* add implementation for admm and fast admm.
Based on Goldstein2014
* add Goldstein ref.
* WPS compliance.
* Abstract class for cost function.
* add custom cost operator for admm.
* fix WPS compliance.
* Ci update (#268)
* update python version support.
* use string for CI.
* remove flake8 and wemake-python-styleguide
This anticipates the change to black formatting.
* remove wps checks
* apparently conda does not support 3.11 for now
* remove all linting testing.
* fix np.int warning/error
* fix dtype error
* fix precision for doctest
* added black and isort support
* Update python version in README
* add 3.7 for test back
* don't test 3.10 twice
* Test rewrite (#266)
* add MatrixOperator.
* move base test to pytest.
* [fixme] remove flake8 and emoji config.
* rewrite test_math module using pytest.
* use fail/skipparam helper function.
* generalize usage of failparam
* refactor test_signal.
* refactor test_signal, the end.
* lint
* fix missing parameter.
* add dummy object test helper.
* rewrite test for cost and gradients.
* show missing lines in coverage reports
* rewrite of proximity operators testing.
* add fail low rank method.
* add cases for algorithms test
* add algorithm test.
* add pytest-cases and pytest-xdists support.
* add support for testing metrics.
* improve base module coverage.
* test for wrong mask in metric module.
* add docstring.
* update email adress and authors field.
* 100% coverage for transform module.
* move linear operator to class
* update docstring.
* paramet(e)rization.
* update docstring.
* improve test_helper module.
* raises should be specified for each failparam call.
* encapsulate module's test in classes.
* skip test if sklearn is not installed.
* pin pydocstyle
* removed unnormalised Gaussian kernel option and corresponding test
* Restrict scikit-image version for testing
* added fix for basic test suite
* set behaviour for different astropy versions
* updated docstring for gaussian_kernel
* Use example scripts as tests. (#277)
* Initialize the example module.
* do not export the assert statements.
* add matplotlib as requirement.
* add support for sphinx-gallery
* Update modopt/examples/README.rst
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Update modopt/examples/__init__.py
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Update modopt/examples/conftest.py
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Update modopt/examples/example_lasso_forward_backward.py
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* Update modopt/examples/example_lasso_forward_backward.py
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* ignore auto_example folder
* doc formatting.
* add pogm and basic comparison.
* fix: add matplotlib for the plotting in examples scripts.
* fix: add matplotlib for basic ci too.
* ci: run pytest with xdist for faster testing
---------
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
* fix: specify data_range for ssim.
Refs: #290
* typos.
* feat(test): add test for admm.
* feat(admm): improve doc.
* refactor: rename abstract cost to CostParent.
* feat: add test for fast admm.
* feat(admm): improve docstrings.
* style: remove extra line.c
* feat: make POGM more memory efficient.
* feat: add a dummy cost for the identity operator.
* feat: create a linear operator module, add wavelet transform.
* feat: add test case for wavelet transform.
* Update setup.py
---------
Co-authored-by: chaithyagr <chaithyagr@gitlab.com>
Co-authored-by: Samuel Farrens <samuel.farrens@gmail.com>
Co-authored-by: Pierre-Antoine Comby <77174042+paquiteau@users.noreply.github.com>
Co-authored-by: Pierre-antoine Comby <pierre-antoine.comby@crans.org>
Co-authored-by: Pierre-Antoine Comby <pierre-antoine.comby@ens-paris-saclay.fr>1 parent 3bae0ac commit 2b1764c
39 files changed
Lines changed: 2439 additions & 2601 deletions
File tree
- .github/workflows
- docs
- source
- modopt
- examples
- math
- opt
- algorithms
- linear
- signal
- tests
- test_helpers
| Original file line number | Diff line number | Diff line change | |
|---|---|---|---|
| |||
62 | 62 | | |
63 | 63 | | |
64 | 64 | | |
65 | | - | |
66 | | - | |
67 | | - | |
| 65 | + | |
68 | 66 | | |
69 | 67 | | |
70 | 68 | | |
| |||
| Original file line number | Diff line number | Diff line change | |
|---|---|---|---|
| |||
16 | 16 | | |
17 | 17 | | |
18 | 18 | | |
19 | | - | |
| 19 | + | |
20 | 20 | | |
21 | 21 | | |
22 | 22 | | |
23 | 23 | | |
24 | 24 | | |
25 | | - | |
26 | | - | |
27 | | - | |
28 | | - | |
29 | | - | |
30 | | - | |
31 | | - | |
32 | | - | |
33 | | - | |
34 | 25 | | |
35 | 26 | | |
36 | 27 | | |
| |||
52 | 43 | | |
53 | 44 | | |
54 | 45 | | |
55 | | - | |
| 46 | + | |
56 | 47 | | |
57 | 48 | | |
58 | 49 | | |
| |||
61 | 52 | | |
62 | 53 | | |
63 | 54 | | |
64 | | - | |
| 55 | + | |
65 | 56 | | |
66 | 57 | | |
67 | 58 | | |
| |||
98 | 89 | | |
99 | 90 | | |
100 | 91 | | |
101 | | - | |
| 92 | + | |
102 | 93 | | |
103 | 94 | | |
104 | 95 | | |
| |||
117 | 108 | | |
118 | 109 | | |
119 | 110 | | |
120 | | - | |
| 111 | + | |
121 | 112 | | |
122 | 113 | | |
123 | 114 | | |
124 | 115 | | |
125 | 116 | | |
126 | 117 | | |
127 | | - | |
| 118 | + | |
| Original file line number | Diff line number | Diff line change | |
|---|---|---|---|
| |||
73 | 73 | | |
74 | 74 | | |
75 | 75 | | |
| 76 | + | |
76 | 77 | | |
77 | 78 | | |
78 | 79 | | |
| |||
| Original file line number | Diff line number | Diff line change | |
|---|---|---|---|
| |||
37 | 37 | | |
38 | 38 | | |
39 | 39 | | |
40 | | - | |
| 40 | + | |
41 | 41 | | |
42 | 42 | | |
43 | 43 | | |
44 | | - | |
| 44 | + | |
45 | 45 | | |
46 | 46 | | |
47 | 47 | | |
| |||
| Original file line number | Diff line number | Diff line change | |
|---|---|---|---|
| |||
1 | 1 | | |
2 | | - | |
3 | | - | |
4 | 2 | | |
| 3 | + | |
| 4 | + | |
| 5 | + | |
5 | 6 | | |
6 | | - | |
7 | 7 | | |
8 | | - | |
9 | | - | |
| 8 | + | |
| 9 | + | |
| 10 | + | |
| 11 | + | |
| 12 | + | |
| Original file line number | Diff line number | Diff line change | |
|---|---|---|---|
| |||
6 | 6 | | |
7 | 7 | | |
8 | 8 | | |
| 9 | + | |
| Original file line number | Diff line number | Diff line change | |
|---|---|---|---|
| |||
45 | 45 | | |
46 | 46 | | |
47 | 47 | | |
| 48 | + | |
48 | 49 | | |
49 | 50 | | |
50 | 51 | | |
| |||
145 | 146 | | |
146 | 147 | | |
147 | 148 | | |
| 149 | + | |
| 150 | + | |
| 151 | + | |
| 152 | + | |
| 153 | + | |
| 154 | + | |
| 155 | + | |
| 156 | + | |
| 157 | + | |
| 158 | + | |
| 159 | + | |
| 160 | + | |
148 | 161 | | |
149 | 162 | | |
150 | 163 | | |
| |||
| Original file line number | Diff line number | Diff line change | |
|---|---|---|---|
| |||
207 | 207 | | |
208 | 208 | | |
209 | 209 | | |
| 210 | + | |
| 211 | + | |
| 212 | + | |
| 213 | + | |
| 214 | + | |
| 215 | + | |
| 216 | + | |
| 217 | + | |
| 218 | + | |
| 219 | + | |
| 220 | + | |
| 221 | + | |
| Original file line number | Diff line number | Diff line change | |
|---|---|---|---|
| |||
25 | 25 | | |
26 | 26 | | |
27 | 27 | | |
| 28 | + | |
28 | 29 | | |
29 | 30 | | |
30 | 31 | | |
| |||
| Original file line number | Diff line number | Diff line change | |
|---|---|---|---|
| |||
| 1 | + | |
| 2 | + | |
| 3 | + | |
| 4 | + | |
| 5 | + | |
0 commit comments