Merge branch 'master' into master

.flake8

@@ -0,0 +1,3 @@
+[flake8]
+max-line-length = 88
+extend-ignore = E203

.github/workflows/ci.yml

@@ -0,0 +1,59 @@
+# This workflow will install Python dependencies, run tests and lint with a single version of Python
+# For more information see: https://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python
+
+name: CI
+
+on:
+  push:
+    branches: [ "master" ]
+  pull_request:
+    branches: [ "master" ]
+
+permissions:
+  contents: read
+
+jobs:
+  lint:
+    runs-on: ubuntu-latest
+    steps:
+    - uses: actions/checkout@v3
+    - name: Set up Python 3.10
+      uses: actions/setup-python@v3
+      with:
+        python-version: "3.10"
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install poetry
+        poetry export --with dev > requirements.txt
+        pip install -r requirements.txt
+    - name: Lint with flake8
+      run: |
+        # stop the build if there are Python syntax errors or undefined names
+        flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
+        # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
+        flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
+      
+  test:
+    runs-on: ubuntu-latest
+    strategy:
+      fail-fast: false
+      matrix:
+        python-version: ["3.8", "3.9", "3.10"]
+    steps:
+    - uses: actions/checkout@v3
+    - uses: codecov/codecov-action@v3
+    - name: Set up Python ${{ matrix.python-version }}
+      uses: actions/setup-python@v3
+      with:
+        python-version: ${{ matrix.python-version }}
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install poetry
+        poetry export --with dev > requirements.txt
+        pip install -r requirements.txt
+    - name: Test with pytest
+      run: |
+        pytest --cov=pygam
+        codecov

.github/workflows/pypi.yml

@@ -0,0 +1,39 @@
+# This workflow will upload a Python Package using Twine when a release is created
+# For more information see: https://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python#publishing-to-package-registries
+
+# This workflow uses actions that are not certified by GitHub.
+# They are provided by a third-party and are governed by
+# separate terms of service, privacy policy, and support
+# documentation.
+
+name: Publish to PyPI
+
+on:
+  release:
+    types: [published]
+
+permissions:
+  contents: read
+
+jobs:
+  deploy:
+
+    runs-on: ubuntu-latest
+
+    steps:
+    - uses: actions/checkout@v3
+    - name: Set up Python
+      uses: actions/setup-python@v3
+      with:
+        python-version: '3.10'
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install build
+    - name: Build package
+      run: python -m build
+    - name: Publish package
+      uses: pypa/gh-action-pypi-publish@27b31702a0e7fc50959f5ad993c78deac1bdfc29
+      with:
+        user: __token__
+        password: ${{ secrets.PYPI_API_TOKEN }}

.gitignore

@@ -19,6 +19,7 @@
 ######################
 *.log
 .coverage
+coverage.xml
 
 # OS generated files #
 ######################

README.md

@@ -1,9 +1,10 @@
-[![Build Status](https://travis-ci.org/dswah/pyGAM.svg?branch=master)](https://travis-ci.org/dswah/pyGAM)
+![build](https://github.com/dswah/pyGAM/actions/workflows/ci.yml/badge.svg)
 [![Documentation Status](https://readthedocs.org/projects/pygam/badge/?version=latest)](https://pygam.readthedocs.io/en/latest/?badge=latest)
 [![PyPI version](https://badge.fury.io/py/pygam.svg)](https://badge.fury.io/py/pygam)
 [![codecov](https://codecov.io/gh/dswah/pygam/branch/master/graph/badge.svg)](https://codecov.io/gh/dswah/pygam)
-[![python27](https://img.shields.io/badge/python-2.7-blue.svg)](https://badge.fury.io/py/pygam)
-[![python36](https://img.shields.io/badge/python-3.6-blue.svg)](https://badge.fury.io/py/pygam)
+[![python38](https://img.shields.io/badge/python-3.8-blue.svg)](https://badge.fury.io/py/pygam)
+[![python39](https://img.shields.io/badge/python-3.9-blue.svg)](https://badge.fury.io/py/pygam)
+[![python310](https://img.shields.io/badge/python-3.10-blue.svg)](https://badge.fury.io/py/pygam)
 [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.1208723.svg)](https://doi.org/10.5281/zenodo.1208723)
 
 
@@ -47,16 +48,12 @@ To start:
 - Now **install** the testing **dependencies**
 
 ```
-conda install pytest numpy pandas scipy pytest-cov cython
+conda install cython
 pip install --upgrade pip
-pip install -r requirements.txt
+pip install poetry
+poetry install --with dev
 ```
 
-It helps to add a **sym-link** of the forked project to your **python path**. To do this, you should **install [flit](http://flit.readthedocs.io/en/latest/index.html)**:
-- ```pip install flit```
-- Then from main project folder (ie `.../pyGAM`) do:
-```flit install -s```
-
 Make some changes and write a test...
 - **Test** your contribution (eg from the `.../pyGAM`):
 ```py.test -s```

doc/source/conf.py

@@ -14,6 +14,7 @@
 #
 import os
 import sys
+
 sys.path.insert(0, os.path.abspath('../../'))
 
 
@@ -49,7 +50,7 @@
     'sphinx.ext.coverage',
     'sphinx.ext.mathjax',
     'sphinx.ext.napoleon',
-    'nbsphinx'
+    'nbsphinx',
 ]
 
 # Add any paths that contain templates here, relative to this directory.
@@ -137,15 +138,12 @@
     # The paper size ('letterpaper' or 'a4paper').
     #
     # 'papersize': 'letterpaper',
-
     # The font size ('10pt', '11pt' or '12pt').
     #
     # 'pointsize': '10pt',
-
     # Additional stuff for the LaTeX preamble.
     #
     # 'preamble': '',
-
     # Latex figure (float) alignment
     #
     # 'figure_align': 'htbp',
@@ -155,19 +153,15 @@
 # (source start file, target name, title,
 #  author, documentclass [howto, manual, or own class]).
 latex_documents = [
-    (master_doc, 'pyGAM.tex', 'pyGAM Documentation',
-     'Daniel Servén', 'manual'),
+    (master_doc, 'pyGAM.tex', 'pyGAM Documentation', 'Daniel Servén', 'manual'),
 ]
 
 
 # -- Options for manual page output ------------------------------------------
 
 # One entry per manual page. List of tuples
 # (source start file, name, description, authors, manual section).
-man_pages = [
-    (master_doc, 'pygam', 'pyGAM Documentation',
-     [author], 1)
-]
+man_pages = [(master_doc, 'pygam', 'pyGAM Documentation', [author], 1)]
 
 
 # -- Options for Texinfo output ----------------------------------------------
@@ -176,9 +170,15 @@
 # (source start file, target name, title, author,
 #  dir menu entry, description, category)
 texinfo_documents = [
-    (master_doc, 'pyGAM', 'pyGAM Documentation',
-     author, 'pyGAM', 'One line description of project.',
-     'Miscellaneous'),
+    (
+        master_doc,
+        'pyGAM',
+        'pyGAM Documentation',
+        author,
+        'pyGAM',
+        'One line description of project.',
+        'Miscellaneous',
+    ),
 ]