MNT - switch to pyproject.toml to setup the package (scikit-learn-contrib#201)

Author: Badr-MOUFAD

.circleci/config.yml

@@ -41,8 +41,8 @@ jobs:
             name: Get Python running
             command: |
               python -m pip install --user --upgrade --progress-bar off pip
-              python -m pip install --user --upgrade --progress-bar off -r doc/doc-requirements.txt
               python -m pip install --user -e .
+              python -m pip install --user .[doc]
 
         - save_cache:
             key: pip-cache

.github/workflows/main.yml

@@ -17,13 +17,14 @@ jobs:
       uses: actions/setup-python@v3
       with:
         python-version: 3.8
-    - name: Install dependencies
+    - name: Install package and testing tools
       run: |
         python -m pip install --upgrade pip
-        pip install celer
-        pip install pytest
-        pip install numpydoc
         pip install .
+        pip install .[test]
+    - name: Install other dependencies
+      run: |
+        pip install celer
         pip install statsmodels cvxopt
         pip install git+https://github.com/jolars/pyslope.git
         # for testing Cox estimator

doc/conf.py

@@ -15,16 +15,18 @@
 import os
 import sys
 import warnings
-# import os
+
 import sphinx_gallery  # noqa
-import sphinx_bootstrap_theme
+import sphinx_bootstrap_theme  # noqa
 from numpydoc import numpydoc, docscrape  # noqa
-from doc.github_link import make_linkcode_resolve
 
 from skglm import __version__ as version
 
-curdir = os.path.dirname(__file__)
-sys.path.append(os.path.abspath(os.path.join(curdir, 'sphinxext')))
+# include custom extension
+curdir = os.path.dirname(__file__)  # noqa
+sys.path.append(os.path.abspath(os.path.join(curdir, 'sphinxext')))  # noqa
+
+from github_link import make_linkcode_resolve
 
 
 # Mathurin: disable agg warnings in doc

doc/contribute.rst

@@ -19,7 +19,7 @@ Your contribution is welcome and highly valuable. It can be
     You can use the `the issue section <https://github.com/scikit-learn-contrib/skglm/issues>`_ to make suggestions.
 
 **pull request**
-    you may have fixed a bug, added a feature, or even fixed a small typo in the documentation, ... 
+    you may have fixed a bug, added a feature, or even fixed a small typo in the documentation, ...
     You can submit a `pull request <https://github.com/scikit-learn-contrib/skglm/pulls>`_
     to integrate your changes and we will reach out to you shortly.
 
@@ -56,5 +56,5 @@ contribute with code or documentation.
 .. code-block:: shell
 
     $ cd doc
-    $ pip install -r doc-requirements.txt
+    $ pip install .[doc]
     $ make html

doc/doc-requirements.txt

@@ -0,0 +1,56 @@
+[build-system]
+requires = ["setuptools"]
+build-backend = "setuptools.build_meta"
+
+[project]
+name = "skglm"
+description = "A fast and modular scikit-learn replacement for generalized linear models"
+authors = [
+    {name = "Mathurin Massias", email = "[email protected]"},
+    {name = "Badr Moufad", email = "[email protected]"},
+    {name = "Pierre-Antoine Bannier", email = "[email protected]"},
+    {name = "Quentin Bertrand", email = "[email protected]"},
+    {name = "Quentin Klopfenstein", email = "[email protected]"}
+]
+license = {text = "BSD (3-Clause)"}
+readme = {file = "README.md", content-type = "text/markdown"}
+dependencies = [
+    "numpy>=1.12",
+    "numba",
+    "scikit-learn>=1.0",
+    "scipy>=0.18.0",
+]
+dynamic = ["version"]
+
+
+[tool.setuptools.dynamic]
+version = {attr = "skglm.__version__"}
+
+
+[project.urls]
+Homepage = "https://contrib.scikit-learn.org/skglm"
+Source = "https://github.com/scikit-learn-contrib/skglm.git"
+
+
+[project.optional-dependencies]
+test = [
+    "pytest",
+    "flake8",
+    "coverage",
+    "numpydoc",
+]
+
+doc = [
+    "benchopt",
+    "libsvmdata>=0.2",
+    "matplotlib>=2.0.0",
+    "myst_parser",
+    "numpydoc",
+    "pillow",
+    "sphinx-bootstrap-theme",
+    "sphinx_copybutton",
+    "sphinx-gallery",
+    "pytest",
+    "furo",
+    "lifelines",
+]